Science.gov

Sample records for large web services

  1. Towards Semantic Web Services on Large, Multi-Dimensional Coverages

    NASA Astrophysics Data System (ADS)

    Baumann, P.

    2009-04-01

    Observed and simulated data in the Earth Sciences often come as coverages, the general term for space-time varying phenomena as set forth by standardization bodies like the Open GeoSpatial Consortium (OGC) and ISO. Among such data are 1-d time series, 2-D surface data, 3-D surface data time series as well as x/y/z geophysical and oceanographic data, and 4-D metocean simulation results. With increasing dimensionality the data sizes grow exponentially, up to Petabyte object sizes. Open standards for exploiting coverage archives over the Web are available to a varying extent. The OGC Web Coverage Service (WCS) standard defines basic extraction operations: spatio-temporal and band subsetting, scaling, reprojection, and data format encoding of the result - a simple interoperable interface for coverage access. More processing functionality is available with products like Matlab, Grid-type interfaces, and the OGC Web Processing Service (WPS). However, these often lack properties known as advantageous from databases: declarativeness (describe results rather than the algorithms), safe in evaluation (no request can keep a server busy infinitely), and optimizable (enable the server to rearrange the request so as to produce the same result faster). WPS defines a geo-enabled SOAP interface for remote procedure calls. This allows to webify any program, but does not allow for semantic interoperability: a function is identified only by its function name and parameters while the semantics is encoded in the (only human readable) title and abstract. Hence, another desirable property is missing, namely an explicit semantics which allows for machine-machine communication and reasoning a la Semantic Web. The OGC Web Coverage Processing Service (WCPS) language, which has been adopted as an international standard by OGC in December 2008, defines a flexible interface for the navigation, extraction, and ad-hoc analysis of large, multi-dimensional raster coverages. It is abstract in that it

  2. Open, Modular Services for Large, Multi-Dimensional Raster Coverages: The OGC Web Coverage Service (WCS) Standards Suite

    NASA Astrophysics Data System (ADS)

    Baumann, P.

    2009-04-01

    Recent progress in hardware and software technology opens up vistas where flexible services on large, multi-dimensional coverage data become a commodity. Interactive data browsing like with Virtual Globes, selective download, and ad-hoc analysis services are about to become available routinely, as several sites already demonstrate. However, for easy access and true machine-machine communication, Semantic Web concepts as being investigated for vector and meta data, need to be extended to raster data and other coverage types. Even more will it then be important to rely on open standards for data and service interoperability. The Open GeoSpatial Consortium (OGC), following a modular approach to specifying geo service interfaces, has issued the Web Coverage Service (WCS) Implementation Standard for accessing coverages or parts thereof. In contrast to the Web Map Service (WMS), which delivers imagery, WCS preserves data semantics and, thus, allows further processing. Together with the Web Catalog Service (CS-W) and the Web Feature Service (WFS) WCS completes the classical triad of meta, vector, and raster data. As such, they represent the core data services on which other services build. The current version of WCS is 1.1 with Corrigendum 2, also referred to as WCS 1.1.2. The WCS Standards Working Group (WCS.SWG) is continuing development of WCS in various directions. One work item is to extend WCS, which currently is confined to regularly gridded data, with support for further coverage types, such as those specified in ISO 19123. Two recently released extensions to WCS are WCS-T ("T" standing for "transactional") which adds upload capabilities to coverage servers and WCPS (Web Coverage Processing Service) which offers a coverage processing language, thereby bridging the gap to the generic WPS (Web Processing Service). All this is embedded into OGC's current initiative to achieve modular topical specification suites through so-called "extensions" which add focused

  3. Design and Development of a Framework Based on Ogc Web Services for the Visualization of Three Dimensional Large-Scale Geospatial Data Over the Web

    NASA Astrophysics Data System (ADS)

    Roccatello, E.; Nozzi, A.; Rumor, M.

    2013-05-01

    This paper illustrates the key concepts behind the design and the development of a framework, based on OGC services, capable to visualize 3D large scale geospatial data streamed over the web. WebGISes are traditionally bounded to a bi-dimensional simplified representation of the reality and though they are successfully addressing the lack of flexibility and simplicity of traditional desktop clients, a lot of effort is still needed to reach desktop GIS features, like 3D visualization. The motivations behind this work lay in the widespread availability of OGC Web Services inside government organizations and in the technology support to HTML 5 and WebGL standard of the web browsers. This delivers an improved user experience, similar to desktop applications, therefore allowing to augment traditional WebGIS features with a 3D visualization framework. This work could be seen as an extension of the Cityvu project, started in 2008 with the aim of a plug-in free OGC CityGML viewer. The resulting framework has also been integrated in existing 3DGIS software products and will be made available in the next months.

  4. Chapter 59: Web Services

    NASA Astrophysics Data System (ADS)

    Graham, M. J.

    Web services are a cornerstone of the distributed computing infrastructure that the VO is built upon yet to the newcomer, they can appear to be a black art. This perception is not helped by the miasma of technobabble that pervades the subject and the seemingly impenetrable high priesthood of actual users. In truth, however, there is nothing conceptually difficult about web services (unsurprisingly any complexities will lie in the implementation details) nor indeed anything particularly new. A web service is a piece of software available over a network with a formal description of how it is called and what it returns that a computer can understand. Note that entities such as web servers, ftp servers and database servers do not generally qualify as they lack the standardized description of their inputs and outputs. There are prior technologies, such as RMI, CORBA, and DCOM, that have employed a similar approach but the success of web services lies predominantly in its use of standardized XML to provide a language-neutral way for representing data. In fact, the standardization goes further as web services are traditionally (or as traditionally as five years will allow) tied to a specific set of technologies (WSDL and SOAP conveyed using HTTP with an XML serialization). Alternative implementations are becoming increasingly common and we will cover some of these here. One important thing to remember in all of this, though, is that web services are meant for use by computers and not humans (unlike web pages) and this is why so much of it seems incomprehensible gobbledegook. In this chapter, we will start with an overview of the web services current in the VO and present a short guide on how to use and deploy a web service. We will then review the different approaches to web services, particularly REST and SOAP, and alternatives to XML as a data format. We will consider how web services can be formally described and discuss how advanced features such as security, state

  5. Web service performance script

    SciTech Connect

    2009-08-01

    This python script, available from ESRI and modified here, checks a server at specified intervals to ensure that web services remain up and running. If any are found to be off, they are automatically turned back on.

  6. Semantic Search of Web Services

    ERIC Educational Resources Information Center

    Hao, Ke

    2013-01-01

    This dissertation addresses semantic search of Web services using natural language processing. We first survey various existing approaches, focusing on the fact that the expensive costs of current semantic annotation frameworks result in limited use of semantic search for large scale applications. We then propose a vector space model based service…

  7. Semantic Search of Web Services

    ERIC Educational Resources Information Center

    Hao, Ke

    2013-01-01

    This dissertation addresses semantic search of Web services using natural language processing. We first survey various existing approaches, focusing on the fact that the expensive costs of current semantic annotation frameworks result in limited use of semantic search for large scale applications. We then propose a vector space model based service…

  8. Semantic Web for Manufacturing Web Services

    SciTech Connect

    Kulvatunyou, Boonserm; Ivezic, Nenad

    2002-06-01

    As markets become unexpectedly turbulent with a shortened product life cycle and a power shift towards buyers, the need for methods to rapidly and cost-effectively develop products, production facilities and supporting software is becoming urgent. The use of a virtual enterprise plays a vital role in surviving turbulent markets. However, its success requires reliable and large-scale interoperation among trading partners via a semantic web of trading partners' services whose properties, capabilities, and interfaces are encoded in an unambiguous as well as computer-understandable form. This paper demonstrates a promising approach to integration and interoperation between a design house and a manufacturer by developing semantic web services for business and engineering transactions. To this end, detailed activity and information flow diagrams are developed, in which the two trading partners exchange messages and documents. The properties and capabilities of the manufacturer sites are defined using DARPA Agent Markup Language (DAML) ontology definition language. The prototype development of semantic webs shows that enterprises can widely interoperate in an unambiguous and autonomous manner; hence, virtual enterprise is realizable at a low cost.

  9. The Uniframe .Net Web Service Discovery Service

    DTIC Science & Technology

    2003-06-27

    Java Web services APIs; 2) the SCO Group, Inc. SCOx which targets developers on the SCO Unix and Linux platforms; 3) BEA Systems’s WebLogic ...Platform 8.1 which adds Web services capabilities to the BEA WebLogic Server 8.1; and 4) Microsoft’s .NET Extensible Markup Language (XML) Web services...databases which could include Oracle or MS SQL. The UNWSDS is developed using the .NET model with IIS and Web services fulfilling the role of the

  10. The EMBRACE web service collection.

    PubMed

    Pettifer, Steve; Ison, Jon; Kalas, Matús; Thorne, Dave; McDermott, Philip; Jonassen, Inge; Liaquat, Ali; Fernández, José M; Rodriguez, Jose M; Pisano, David G; Blanchet, Christophe; Uludag, Mahmut; Rice, Peter; Bartaseviciute, Edita; Rapacki, Kristoffer; Hekkelman, Maarten; Sand, Olivier; Stockinger, Heinz; Clegg, Andrew B; Bongcam-Rudloff, Erik; Salzemann, Jean; Breton, Vincent; Attwood, Teresa K; Cameron, Graham; Vriend, Gert

    2010-07-01

    The EMBRACE (European Model for Bioinformatics Research and Community Education) web service collection is the culmination of a 5-year project that set out to investigate issues involved in developing and deploying web services for use in the life sciences. The project concluded that in order for web services to achieve widespread adoption, standards must be defined for the choice of web service technology, for semantically annotating both service function and the data exchanged, and a mechanism for discovering services must be provided. Building on this, the project developed: EDAM, an ontology for describing life science web services; BioXSD, a schema for exchanging data between services; and a centralized registry (http://www.embraceregistry.net) that collects together around 1000 services developed by the consortium partners. This article presents the current status of the collection and its associated recommendations and standards definitions.

  11. The EMBRACE web service collection

    PubMed Central

    Pettifer, Steve; Ison, Jon; Kalaš, Matúš; Thorne, Dave; McDermott, Philip; Jonassen, Inge; Liaquat, Ali; Fernández, José M.; Rodriguez, Jose M.; Partners, INB-; Pisano, David G.; Blanchet, Christophe; Uludag, Mahmut; Rice, Peter; Bartaseviciute, Edita; Rapacki, Kristoffer; Hekkelman, Maarten; Sand, Olivier; Stockinger, Heinz; Clegg, Andrew B.; Bongcam-Rudloff, Erik; Salzemann, Jean; Breton, Vincent; Attwood, Teresa K.; Cameron, Graham; Vriend, Gert

    2010-01-01

    The EMBRACE (European Model for Bioinformatics Research and Community Education) web service collection is the culmination of a 5-year project that set out to investigate issues involved in developing and deploying web services for use in the life sciences. The project concluded that in order for web services to achieve widespread adoption, standards must be defined for the choice of web service technology, for semantically annotating both service function and the data exchanged, and a mechanism for discovering services must be provided. Building on this, the project developed: EDAM, an ontology for describing life science web services; BioXSD, a schema for exchanging data between services; and a centralized registry (http://www.embraceregistry.net) that collects together around 1000 services developed by the consortium partners. This article presents the current status of the collection and its associated recommendations and standards definitions. PMID:20462862

  12. Biological Web Service Repositories Review

    PubMed Central

    Urdidiales‐Nieto, David; Navas‐Delgado, Ismael

    2016-01-01

    Abstract Web services play a key role in bioinformatics enabling the integration of database access and analysis of algorithms. However, Web service repositories do not usually publish information on the changes made to their registered Web services. Dynamism is directly related to the changes in the repositories (services registered or unregistered) and at service level (annotation changes). Thus, users, software clients or workflow based approaches lack enough relevant information to decide when they should review or re‐execute a Web service or workflow to get updated or improved results. The dynamism of the repository could be a measure for workflow developers to re‐check service availability and annotation changes in the services of interest to them. This paper presents a review on the most well‐known Web service repositories in the life sciences including an analysis of their dynamism. Freshness is introduced in this paper, and has been used as the measure for the dynamism of these repositories. PMID:27783459

  13. Web Service: MedlinePlus

    MedlinePlus

    ... this page: https://medlineplus.gov/webservices.html MedlinePlus Web Service To use the sharing features on this ... please enable JavaScript. MedlinePlus offers a search-based Web service that provides access to MedlinePlus health topic ...

  14. RESTful Web Services at BNL

    SciTech Connect

    Casella, R.

    2011-06-14

    RESTful (REpresentational State Transfer) web services are an alternative implementation to SOAP/RPC web services in a client/server model. BNLs IT Division has started deploying RESTful Web Services for enterprise data retrieval and manipulation. Data is currently used by system administrators for tracking configuration information and as it is expanded will be used by Cyber Security for vulnerability management and as an aid to cyber investigations. This talk will describe the implementation and outstanding issues as well as some of the reasons for choosing RESTful over SOAP/RPC and future directions.

  15. Biological Web Service Repositories Review.

    PubMed

    Urdidiales-Nieto, David; Navas-Delgado, Ismael; Aldana-Montes, José F

    2017-05-01

    Web services play a key role in bioinformatics enabling the integration of database access and analysis of algorithms. However, Web service repositories do not usually publish information on the changes made to their registered Web services. Dynamism is directly related to the changes in the repositories (services registered or unregistered) and at service level (annotation changes). Thus, users, software clients or workflow based approaches lack enough relevant information to decide when they should review or re-execute a Web service or workflow to get updated or improved results. The dynamism of the repository could be a measure for workflow developers to re-check service availability and annotation changes in the services of interest to them. This paper presents a review on the most well-known Web service repositories in the life sciences including an analysis of their dynamism. Freshness is introduced in this paper, and has been used as the measure for the dynamism of these repositories. © 2017 The Authors. Published by Wiley-VCH Verlag GmbH & Co. KGaA.

  16. Focused Crawling of the Deep Web Using Service Class Descriptions

    SciTech Connect

    Rocco, D; Liu, L; Critchlow, T

    2004-06-21

    Dynamic Web data sources--sometimes known collectively as the Deep Web--increase the utility of the Web by providing intuitive access to data repositories anywhere that Web access is available. Deep Web services provide access to real-time information, like entertainment event listings, or present a Web interface to large databases or other data repositories. Recent studies suggest that the size and growth rate of the dynamic Web greatly exceed that of the static Web, yet dynamic content is often ignored by existing search engine indexers owing to the technical challenges that arise when attempting to search the Deep Web. To address these challenges, we present DynaBot, a service-centric crawler for discovering and clustering Deep Web sources offering dynamic content. DynaBot has three unique characteristics. First, DynaBot utilizes a service class model of the Web implemented through the construction of service class descriptions (SCDs). Second, DynaBot employs a modular, self-tuning system architecture for focused crawling of the DeepWeb using service class descriptions. Third, DynaBot incorporates methods and algorithms for efficient probing of the Deep Web and for discovering and clustering Deep Web sources and services through SCD-based service matching analysis. Our experimental results demonstrate the effectiveness of the service class discovery, probing, and matching algorithms and suggest techniques for efficiently managing service discovery in the face of the immense scale of the Deep Web.

  17. Opal web services for biomedical applications.

    PubMed

    Ren, Jingyuan; Williams, Nadya; Clementi, Luca; Krishnan, Sriram; Li, Wilfred W

    2010-07-01

    Biomedical applications have become increasingly complex, and they often require large-scale high-performance computing resources with a large number of processors and memory. The complexity of application deployment and the advances in cluster, grid and cloud computing require new modes of support for biomedical research. Scientific Software as a Service (sSaaS) enables scalable and transparent access to biomedical applications through simple standards-based Web interfaces. Towards this end, we built a production web server (http://ws.nbcr.net) in August 2007 to support the bioinformatics application called MEME. The server has grown since to include docking analysis with AutoDock and AutoDock Vina, electrostatic calculations using PDB2PQR and APBS, and off-target analysis using SMAP. All the applications on the servers are powered by Opal, a toolkit that allows users to wrap scientific applications easily as web services without any modification to the scientific codes, by writing simple XML configuration files. Opal allows both web forms-based access and programmatic access of all our applications. The Opal toolkit currently supports SOAP-based Web service access to a number of popular applications from the National Biomedical Computation Resource (NBCR) and affiliated collaborative and service projects. In addition, Opal's programmatic access capability allows our applications to be accessed through many workflow tools, including Vision, Kepler, Nimrod/K and VisTrails. From mid-August 2007 to the end of 2009, we have successfully executed 239,814 jobs. The number of successfully executed jobs more than doubled from 205 to 411 per day between 2008 and 2009. The Opal-enabled service model is useful for a wide range of applications. It provides for interoperation with other applications with Web Service interfaces, and allows application developers to focus on the scientific tool and workflow development. Web server availability: http://ws.nbcr.net.

  18. Past, Present, and Future of Web Service

    NASA Astrophysics Data System (ADS)

    Kitamura, Yasuhiko

    World Wide Web was born as a means to provide information through the Internet. As a number of e-shopping sites are developed on the Internet, the Web provides not only information but also services with which users can interact to buy products. This paper describes the basic standards used in Web service; XML, SOAP, and WSDL, and how Web services are implemented on the Java-based platform Axis. It also mentions the REST-based Web service which gains more attention recently. Finally it forecasts the future of Web service from a viewpoint of Semantic Web.

  19. Enriching the Web Processing Service

    NASA Astrophysics Data System (ADS)

    Wosniok, Christoph; Bensmann, Felix; Wössner, Roman; Kohlus, Jörn; Roosmann, Rainer; Heidmann, Carsten; Lehfeldt, Rainer

    2014-05-01

    The OGC Web Processing Service (WPS) provides a standard for implementing geospatial processes in service-oriented networks. In its current version 1.0.0 it allocates the operations GetCapabilities, DescribeProcess and Execute, which can be used to offer custom processes based on single or multiple sub-processes. A large range of ready to use fine granular, fundamental geospatial processes have been developed by the GIS-community in the past. However, modern use cases or whole workflow processes demand specifications of lifecycle management and service orchestration. Orchestrating smaller sub-processes is a task towards interoperability; a comprehensive documentation by using appropriate metadata is also required. Though different approaches were tested in the past, developing complex WPS applications still requires programming skills, knowledge about software libraries in use and a lot of effort for integration. Our toolset RichWPS aims at providing a better overall experience by setting up two major components. The RichWPS ModelBuilder enables the graphics-aided design of workflow processes based on existing local and distributed processes and geospatial services. Once tested by the RichWPS Server, a composition can be deployed for production use on the RichWPS Server. The ModelBuilder obtains necessary processes and services from a directory service, the RichWPS semantic proxy. It manages the lifecycle and is able to visualize results and debugging-information. One aim will be to generate reproducible results; the workflow should be documented by metadata that can be integrated in Spatial Data Infrastructures. The RichWPS Server provides a set of interfaces to the ModelBuilder for, among others, testing composed workflow sequences, estimating their performance and to publish them as common processes. Therefore the server is oriented towards the upcoming WPS 2.0 standard and its ability to transactionally deploy and undeploy processes making use of a WPS

  20. APPRIS WebServer and WebServices.

    PubMed

    Rodriguez, Jose Manuel; Carro, Angel; Valencia, Alfonso; Tress, Michael L

    2015-07-01

    This paper introduces the APPRIS WebServer (http://appris.bioinfo.cnio.es) and WebServices (http://apprisws.bioinfo.cnio.es). Both the web servers and the web services are based around the APPRIS Database, a database that presently houses annotations of splice isoforms for five different vertebrate genomes. The APPRIS WebServer and WebServices provide access to the computational methods implemented in the APPRIS Database, while the APPRIS WebServices also allows retrieval of the annotations. The APPRIS WebServer and WebServices annotate splice isoforms with protein structural and functional features, and with data from cross-species alignments. In addition they can use the annotations of structure, function and conservation to select a single reference isoform for each protein-coding gene (the principal protein isoform). APPRIS principal isoforms have been shown to agree overwhelmingly with the main protein isoform detected in proteomics experiments. The APPRIS WebServer allows for the annotation of splice isoforms for individual genes, and provides a range of visual representations and tools to allow researchers to identify the likely effect of splicing events. The APPRIS WebServices permit users to generate annotations automatically in high throughput mode and to interrogate the annotations in the APPRIS Database. The APPRIS WebServices have been implemented using REST architecture to be flexible, modular and automatic. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

  1. APPRIS WebServer and WebServices

    PubMed Central

    Rodriguez, Jose Manuel; Carro, Angel; Valencia, Alfonso; Tress, Michael L.

    2015-01-01

    This paper introduces the APPRIS WebServer (http://appris.bioinfo.cnio.es) and WebServices (http://apprisws.bioinfo.cnio.es). Both the web servers and the web services are based around the APPRIS Database, a database that presently houses annotations of splice isoforms for five different vertebrate genomes. The APPRIS WebServer and WebServices provide access to the computational methods implemented in the APPRIS Database, while the APPRIS WebServices also allows retrieval of the annotations. The APPRIS WebServer and WebServices annotate splice isoforms with protein structural and functional features, and with data from cross-species alignments. In addition they can use the annotations of structure, function and conservation to select a single reference isoform for each protein-coding gene (the principal protein isoform). APPRIS principal isoforms have been shown to agree overwhelmingly with the main protein isoform detected in proteomics experiments. The APPRIS WebServer allows for the annotation of splice isoforms for individual genes, and provides a range of visual representations and tools to allow researchers to identify the likely effect of splicing events. The APPRIS WebServices permit users to generate annotations automatically in high throughput mode and to interrogate the annotations in the APPRIS Database. The APPRIS WebServices have been implemented using REST architecture to be flexible, modular and automatic. PMID:25990727

  2. Efficient Web Services Policy Combination

    NASA Technical Reports Server (NTRS)

    Vatan, Farrokh; Harman, Joseph G.

    2010-01-01

    Large-scale Web security systems usually involve cooperation between domains with non-identical policies. The network management and Web communication software used by the different organizations presents a stumbling block. Many of the tools used by the various divisions do not have the ability to communicate network management data with each other. At best, this means that manual human intervention into the communication protocols used at various network routers and endpoints is required. Developing practical, sound, and automated ways to compose policies to bridge these differences is a long-standing problem. One of the key subtleties is the need to deal with inconsistencies and defaults where one organization proposes a rule on a particular feature, and another has a different rule or expresses no rule. A general approach is to assign priorities to rules and observe the rules with the highest priorities when there are conflicts. The present methods have inherent inefficiency, which heavily restrict their practical applications. A new, efficient algorithm combines policies utilized for Web services. The method is based on an algorithm that allows an automatic and scalable composition of security policies between multiple organizations. It is based on defeasible policy composition, a promising approach for finding conflicts and resolving priorities between rules. In the general case, policy negotiation is an intractable problem. A promising method, suggested in the literature, is when policies are represented in defeasible logic, and composition is based on rules for non-monotonic inference. In this system, policy writers construct metapolicies describing both the policy that they wish to enforce and annotations describing their composition preferences. These annotations can indicate whether certain policy assertions are required by the policy writer or, if not, under what circumstances the policy writer is willing to compromise and allow other assertions to take

  3. Earth Science Mining Web Services

    NASA Technical Reports Server (NTRS)

    Pham, Long; Lynnes, Christopher; Hegde, Mahabaleshwa; Graves, Sara; Ramachandran, Rahul; Maskey, Manil; Keiser, Ken

    2008-01-01

    To allow scientists further capabilities in the area of data mining and web services, the Goddard Earth Sciences Data and Information Services Center (GES DISC) and researchers at the University of Alabama in Huntsville (UAH) have developed a system to mine data at the source without the need of network transfers. The system has been constructed by linking together several pre-existing technologies: the Simple Scalable Script-based Science Processor for Measurements (S4PM), a processing engine at he GES DISC; the Algorithm Development and Mining (ADaM) system, a data mining toolkit from UAH that can be configured in a variety of ways to create customized mining processes; ActiveBPEL, a workflow execution engine based on BPEL (Business Process Execution Language); XBaya, a graphical workflow composer; and the EOS Clearinghouse (ECHO). XBaya is used to construct an analysis workflow at UAH using ADam components, which are also installed remotely at the GES DISC, wrapped as Web Services. The S4PM processing engine searches ECHO for data using space-time criteria, staging them to cache, allowing the ActiveBPEL engine to remotely orchestras the processing workflow within S4PM. As mining is completed, the output is placed in an FTP holding area for the end user. The goals are to give users control over the data they want to process, while mining data at the data source using the server's resources rather than transferring the full volume over the internet. These diverse technologies have been infused into a functioning, distributed system with only minor changes to the underlying technologies. The key to the infusion is the loosely coupled, Web-Services based architecture: All of the participating components are accessible (one way or another) through (Simple Object Access Protocol) SOAP-based Web Services.

  4. Earth Science Mining Web Services

    NASA Astrophysics Data System (ADS)

    Pham, L. B.; Lynnes, C. S.; Hegde, M.; Graves, S.; Ramachandran, R.; Maskey, M.; Keiser, K.

    2008-12-01

    To allow scientists further capabilities in the area of data mining and web services, the Goddard Earth Sciences Data and Information Services Center (GES DISC) and researchers at the University of Alabama in Huntsville (UAH) have developed a system to mine data at the source without the need of network transfers. The system has been constructed by linking together several pre-existing technologies: the Simple Scalable Script-based Science Processor for Measurements (S4PM), a processing engine at the GES DISC; the Algorithm Development and Mining (ADaM) system, a data mining toolkit from UAH that can be configured in a variety of ways to create customized mining processes; ActiveBPEL, a workflow execution engine based on BPEL (Business Process Execution Language); XBaya, a graphical workflow composer; and the EOS Clearinghouse (ECHO). XBaya is used to construct an analysis workflow at UAH using ADaM components, which are also installed remotely at the GES DISC, wrapped as Web Services. The S4PM processing engine searches ECHO for data using space-time criteria, staging them to cache, allowing the ActiveBPEL engine to remotely orchestrates the processing workflow within S4PM. As mining is completed, the output is placed in an FTP holding area for the end user. The goals are to give users control over the data they want to process, while mining data at the data source using the server's resources rather than transferring the full volume over the internet. These diverse technologies have been infused into a functioning, distributed system with only minor changes to the underlying technologies. The key to this infusion is the loosely coupled, Web- Services based architecture: All of the participating components are accessible (one way or another) through (Simple Object Access Protocol) SOAP-based Web Services.

  5. Evolution of web services in bioinformatics.

    PubMed

    Neerincx, Pieter B T; Leunissen, Jack A M

    2005-06-01

    Bioinformaticians have developed large collections of tools to make sense of the rapidly growing pool of molecular biological data. Biological systems tend to be complex and in order to understand them, it is often necessary to link many data sets and use more than one tool. Therefore, bioinformaticians have experimented with several strategies to try to integrate data sets and tools. Owing to the lack of standards for data sets and the interfaces of the tools this is not a trivial task. Over the past few years building services with web-based interfaces has become a popular way of sharing the data and tools that have resulted from many bioinformatics projects. This paper discusses the interoperability problem and how web services are being used to try to solve it, resulting in the evolution of tools with web interfaces from HTML/web form-based tools not suited for automatic workflow generation to a dynamic network of XML-based web services that can easily be used to create pipelines.

  6. Creating OGC Web Processing Service workflows using a web-based editor

    NASA Astrophysics Data System (ADS)

    de Jesus, J.; Walker, P.; Grant, M.

    2012-04-01

    The OGC WPS (Web Processing Service) specifies how geospatial algorithms may be accessed in an SOA (Service Oriented Architecture). Service providers can encode both simple and sophisticated algorithms as WPS processes and publish them as web services. These services are not only useful individually but may be built into complex processing chains (workflows) that can solve complex data analysis and/or scientific problems. The NETMAR project has extended the Web Processing Service (WPS) framework to provide transparent integration between it and the commonly used WSDL (Web Service Description Language) that describes the web services and its default SOAP (Simple Object Access Protocol) binding. The extensions allow WPS services to be orchestrated using commonly used tools (in this case Taverna Workbench, but BPEL based systems would also be an option). We have also developed a WebGUI service editor, based on HTML5 and the WireIt! Javascript API, that allows users to create these workflows using only a web browser. The editor is coded entirely in Javascript and performs all XSLT transformations needed to produce a Taverna compatible (T2FLOW) workflow description which can be exported and run on a local Taverna Workbench or uploaded to a web-based orchestration server and run there. Here we present the NETMAR WebGUI service chain editor and discuss the problems associated with the development of a WebGUI for scientific workflow editing; content transformation into the Taverna orchestration language (T2FLOW/SCUFL); final orchestration in the Taverna engine and how to deal with the large volumes of data being transferred between different WPS services (possibly running on different servers) during workflow orchestration. We will also demonstrate using the WebGUI for creating a simple workflow making use of published web processing services, showing how simple services may be chained together to produce outputs that would previously have required a GIS (Geographic

  7. Technical Services and the World Wide Web.

    ERIC Educational Resources Information Center

    Scheschy, Virginia M.

    The World Wide Web and browsers such as Netscape and Mosaic have simplified access to electronic resources. Today, technical services librarians can share in the wealth of information available on the Web. One of the premier Web sites for acquisitions librarians is AcqWeb, a cousin of the AcqNet listserv. In addition to interesting news items,…

  8. WebGLORE: a web service for Grid LOgistic REgression.

    PubMed

    Jiang, Wenchao; Li, Pinghao; Wang, Shuang; Wu, Yuan; Xue, Meng; Ohno-Machado, Lucila; Jiang, Xiaoqian

    2013-12-15

    WebGLORE is a free web service that enables privacy-preserving construction of a global logistic regression model from distributed datasets that are sensitive. It only transfers aggregated local statistics (from participants) through Hypertext Transfer Protocol Secure to a trusted server, where the global model is synthesized. WebGLORE seamlessly integrates AJAX, JAVA Applet/Servlet and PHP technologies to provide an easy-to-use web service for biomedical researchers to break down policy barriers during information exchange. http://dbmi-engine.ucsd.edu/webglore3/. WebGLORE can be used under the terms of GNU general public license as published by the Free Software Foundation.

  9. Similarity Based Semantic Web Service Match

    NASA Astrophysics Data System (ADS)

    Peng, Hui; Niu, Wenjia; Huang, Ronghuai

    Semantic web service discovery aims at returning the most matching advertised services to the service requester by comparing the semantic of the request service with an advertised service. The semantic of a web service are described in terms of inputs, outputs, preconditions and results in Ontology Web Language for Service (OWL-S) which formalized by W3C. In this paper we proposed an algorithm to calculate the semantic similarity of two services by weighted averaging their inputs and outputs similarities. Case study and applications show the effectiveness of our algorithm in service match.

  10. Isolation by distance, web service

    PubMed Central

    Jensen, Jeffrey L; Bohonak, Andrew J; Kelley, Scott T

    2005-01-01

    Background The population genetic pattern known as "isolation by distance" results from spatially limited gene flow and is a commonly observed phenomenon in natural populations. However, few software programs exist for estimating the degree of isolation by distance among populations, and they tend not to be user-friendly. Results We have created Isolation by Distance Web Service (IBDWS) a user-friendly web interface for determining patterns of isolation by distance. Using this site, population geneticists can perform a variety of powerful statistical tests including Mantel tests, Reduced Major Axis (RMA) regression analysis, as well as calculate FST between all pairs of populations and perform basic summary statistics (e.g., heterozygosity). All statistical results, including publication-quality scatter plots in Postscript format, are returned rapidly to the user and can be easily downloaded. Conclusion IBDWS population genetics analysis software is hosted at and documentation is available at . The source code has been made available on Source Forge at . PMID:15760479

  11. A web services choreography scenario for interoperating bioinformatics applications

    PubMed Central

    de Knikker, Remko; Guo, Youjun; Li, Jin-long; Kwan, Albert KH; Yip, Kevin Y; Cheung, David W; Cheung, Kei-Hoi

    2004-01-01

    Background Very often genome-wide data analysis requires the interoperation of multiple databases and analytic tools. A large number of genome databases and bioinformatics applications are available through the web, but it is difficult to automate interoperation because: 1) the platforms on which the applications run are heterogeneous, 2) their web interface is not machine-friendly, 3) they use a non-standard format for data input and output, 4) they do not exploit standards to define application interface and message exchange, and 5) existing protocols for remote messaging are often not firewall-friendly. To overcome these issues, web services have emerged as a standard XML-based model for message exchange between heterogeneous applications. Web services engines have been developed to manage the configuration and execution of a web services workflow. Results To demonstrate the benefit of using web services over traditional web interfaces, we compare the two implementations of HAPI, a gene expression analysis utility developed by the University of California San Diego (UCSD) that allows visual characterization of groups or clusters of genes based on the biomedical literature. This utility takes a set of microarray spot IDs as input and outputs a hierarchy of MeSH Keywords that correlates to the input and is grouped by Medical Subject Heading (MeSH) category. While the HTML output is easy for humans to visualize, it is difficult for computer applications to interpret semantically. To facilitate the capability of machine processing, we have created a workflow of three web services that replicates the HAPI functionality. These web services use document-style messages, which means that messages are encoded in an XML-based format. We compared three approaches to the implementation of an XML-based workflow: a hard coded Java application, Collaxa BPEL Server and Taverna Workbench. The Java program functions as a web services engine and interoperates with these web

  12. The Organizational Role of Web Services

    ERIC Educational Resources Information Center

    Mitchell, Erik

    2011-01-01

    The workload of Web librarians is already split between Web-related and other library tasks. But today's technological environment has created new implications for existing services and new demands for staff time. It is time to reconsider how libraries can best allocate resources to provide effective Web services. Delivering high-quality services…

  13. The Organizational Role of Web Services

    ERIC Educational Resources Information Center

    Mitchell, Erik

    2011-01-01

    The workload of Web librarians is already split between Web-related and other library tasks. But today's technological environment has created new implications for existing services and new demands for staff time. It is time to reconsider how libraries can best allocate resources to provide effective Web services. Delivering high-quality services…

  14. A Web Services Data Analysis Grid

    SciTech Connect

    William A Watson III; Ian Bird; Jie Chen; Bryan Hess; Andy Kowalski; Ying Chen

    2002-07-01

    The trend in large-scale scientific data analysis is to exploit compute, storage and other resources located at multiple sites, and to make those resources accessible to the scientist as if they were a single, coherent system. Web technologies driven by the huge and rapidly growing electronic commerce industry provide valuable components to speed the deployment of such sophisticated systems. Jefferson Lab, where several hundred terabytes of experimental data are acquired each year, is in the process of developing a web-based distributed system for data analysis and management. The essential aspects of this system are a distributed data grid (site independent access to experiment, simulation and model data) and a distributed batch system, augmented with various supervisory and management capabilities, and integrated using Java and XML-based web services.

  15. Enhancing Data Interoperability with Web Services

    NASA Astrophysics Data System (ADS)

    Shrestha, S. R.; Zimble, D. A.; Wang, W.; Herring, D.; Halpert, M.

    2014-12-01

    In an effort to improve data access and interoperability of climate and weather data, the National Oceanic and Atmospheric Administration's (NOAA) Climate.gov and Climate Prediction Center (CPC) are exploring various platform solutions to enhance a user's ability to locate, preview, and acquire the data. The Climate.gov and CPC data team faces multiple challenges including the various kinds of data and formats, inconsistency of metadata records, variety of data service implementations, very large volumes of data and geographically distributed locations. We have created the Data Access and Interoperability project to design a web-based platform, where interoperability between systems can be leveraged to allow greater data discovery, access, visualization and delivery. In the interoperable data platform, systems can integrate with each other to support the synthesis of climate and weather data. Interoperability is the ability for users to discover the available climate and weather data, preview and interact with the data, and acquire the data in common digital formats through a simple web-based interface. The goal of the interoperable data platform is to leverage existing web services, implement the established standards and integrate with existing solutions across the earth sciences domain instead of creating new technologies. Towards this effort to improve the interoperability of the platform, we are collaborating with ESRI Inc. to provide climate and weather data via web services. In this presentation, we will discuss and demonstrate how to use ArcGIS to author RESTful based scientific web services using open standards. These web services are able to encapsulate the logic required to handle and describe scientific data through a variety of service types including, image, map, feature, geoprocessing, and their respective service methods. Combining these types of services and leveraging well-documented APIs, including the ArcGIS JavaScript API, we can afford to

  16. Compression-based aggregation model for medical web services.

    PubMed

    Al-Shammary, Dhiah; Khalil, Ibrahim

    2010-01-01

    Many organizations such as hospitals have adopted Cloud Web services in applying their network services to avoid investing heavily computing infrastructure. SOAP (Simple Object Access Protocol) is the basic communication protocol of Cloud Web services that is XML based protocol. Generally,Web services often suffer congestions and bottlenecks as a result of the high network traffic that is caused by the large XML overhead size. At the same time, the massive load on Cloud Web services in terms of the large demand of client requests has resulted in the same problem. In this paper, two XML-aware aggregation techniques that are based on exploiting the compression concepts are proposed in order to aggregate the medical Web messages and achieve higher message size reduction.

  17. Dynamic selection mechanism for quality of service aware web services

    NASA Astrophysics Data System (ADS)

    D'Mello, Demian Antony; Ananthanarayana, V. S.

    2010-02-01

    A web service is an interface of the software component that can be accessed by standard Internet protocols. The web service technology enables an application to application communication and interoperability. The increasing number of web service providers throughout the globe have produced numerous web services providing the same or similar functionality. This necessitates the use of tools and techniques to search the suitable services available over the Web. UDDI (universal description, discovery and integration) is the first initiative to find the suitable web services based on the requester's functional demands. However, the requester's requirements may also include non-functional aspects like quality of service (QoS). In this paper, the authors define a QoS model for QoS aware and business driven web service publishing and selection. The authors propose a QoS requirement format for the requesters, to specify their complex demands on QoS for the web service selection. The authors define a tree structure called quality constraint tree (QCT) to represent the requester's variety of requirements on QoS properties having varied preferences. The paper proposes a QoS broker based architecture for web service selection, which facilitates the requesters to specify their QoS requirements to select qualitatively optimal web service. A web service selection algorithm is presented, which ranks the functionally similar web services based on the degree of satisfaction of the requester's QoS requirements and preferences. The paper defines web service provider qualities to distinguish qualitatively competitive web services. The paper also presents the modelling and selection mechanism for the requester's alternative constraints defined on the QoS. The authors implement the QoS broker based system to prove the correctness of the proposed web service selection mechanism.

  18. An Automatic Web Service Composition Framework Using QoS-Based Web Service Ranking Algorithm.

    PubMed

    Mallayya, Deivamani; Ramachandran, Baskaran; Viswanathan, Suganya

    2015-01-01

    Web service has become the technology of choice for service oriented computing to meet the interoperability demands in web applications. In the Internet era, the exponential addition of web services nominates the "quality of service" as essential parameter in discriminating the web services. In this paper, a user preference based web service ranking (UPWSR) algorithm is proposed to rank web services based on user preferences and QoS aspect of the web service. When the user's request cannot be fulfilled by a single atomic service, several existing services should be composed and delivered as a composition. The proposed framework allows the user to specify the local and global constraints for composite web services which improves flexibility. UPWSR algorithm identifies best fit services for each task in the user request and, by choosing the number of candidate services for each task, reduces the time to generate the composition plans. To tackle the problem of web service composition, QoS aware automatic web service composition (QAWSC) algorithm proposed in this paper is based on the QoS aspects of the web services and user preferences. The proposed framework allows user to provide feedback about the composite service which improves the reputation of the services.

  19. Proposal for a Web Encoding Service (wes) for Spatial Data Transactio

    NASA Astrophysics Data System (ADS)

    Siew, C. B.; Peters, S.; Rahman, A. A.

    2015-10-01

    Web services utilizations in Spatial Data Infrastructure (SDI) have been well established and standardized by Open Geospatial Consortium (OGC). Similar web services for 3D SDI are also being established in recent years, with extended capabilities to handle 3D spatial data. The increasing popularity of using City Geographic Markup Language (CityGML) for 3D city modelling applications leads to the needs for large spatial data handling for data delivery. This paper revisits the available web services in OGC Web Services (OWS), and propose the background concepts and requirements for encoding spatial data via Web Encoding Service (WES). Furthermore, the paper discusses the data flow of the encoder within web service, e.g. possible integration with Web Processing Service (WPS) or Web 3D Services (W3DS). The integration with available web service could be extended to other available web services for efficient handling of spatial data, especially 3D spatial data.

  20. Discovery and Classification of Bioinformatics Web Services

    SciTech Connect

    Rocco, D; Critchlow, T

    2002-09-02

    The transition of the World Wide Web from a paradigm of static Web pages to one of dynamic Web services provides new and exciting opportunities for bioinformatics with respect to data dissemination, transformation, and integration. However, the rapid growth of bioinformatics services, coupled with non-standardized interfaces, diminish the potential that these Web services offer. To face this challenge, we examine the notion of a Web service class that defines the functionality provided by a collection of interfaces. These descriptions are an integral part of a larger framework that can be used to discover, classify, and wrapWeb services automatically. We discuss how this framework can be used in the context of the proliferation of sites offering BLAST sequence alignment services for specialized data sets.

  1. Storage Manager and File Transfer Web Services

    SciTech Connect

    William A Watson III; Ying Chen; Jie Chen; Walt Akers

    2002-07-01

    Web services are emerging as an interesting mechanism for a wide range of grid services, particularly those focused upon information services and control. When coupled with efficient data transfer services, they provide a powerful mechanism for building a flexible, open, extensible data grid for science applications. In this paper we present our prototype work on a Java Storage Resource Manager (JSRM) web service and a Java Reliable File Transfer (JRFT) web service. A java client (Grid File Manager) on top of JSRM and is developed to demonstrate the capabilities of these web services. The purpose of this work is to show the extent to which SOAP based web services are an appropriate direction for building a grid-wide data management system, and eventually grid-based portals.

  2. An Automatic Web Service Composition Framework Using QoS-Based Web Service Ranking Algorithm

    PubMed Central

    Mallayya, Deivamani; Ramachandran, Baskaran; Viswanathan, Suganya

    2015-01-01

    Web service has become the technology of choice for service oriented computing to meet the interoperability demands in web applications. In the Internet era, the exponential addition of web services nominates the “quality of service” as essential parameter in discriminating the web services. In this paper, a user preference based web service ranking (UPWSR) algorithm is proposed to rank web services based on user preferences and QoS aspect of the web service. When the user's request cannot be fulfilled by a single atomic service, several existing services should be composed and delivered as a composition. The proposed framework allows the user to specify the local and global constraints for composite web services which improves flexibility. UPWSR algorithm identifies best fit services for each task in the user request and, by choosing the number of candidate services for each task, reduces the time to generate the composition plans. To tackle the problem of web service composition, QoS aware automatic web service composition (QAWSC) algorithm proposed in this paper is based on the QoS aspects of the web services and user preferences. The proposed framework allows user to provide feedback about the composite service which improves the reputation of the services. PMID:26504894

  3. Acquiring Evolving Technologies: Web Services Standards

    DTIC Science & Technology

    2016-06-30

    2006 Carnegie Mellon University Acquiring Evolving Technologies : Web Services Standards Harry L. Levinson Software Engineering Institute Carnegie...Acquiring Evolving Technologies : Web Services Standards 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR(S) 5d. PROJECT...298 (Rev. 8-98) Prescribed by ANSI Std Z39-18 2 Acquiring Evolving Technologies : Web Services Standards © 2006 Carnegie Mellon University Acquiring

  4. Climate Model Diagnostic Analyzer Web Service System

    NASA Astrophysics Data System (ADS)

    Lee, S.; Pan, L.; Zhai, C.; Tang, B.; Kubar, T. L.; Li, J.; Zhang, J.; Wang, W.

    2015-12-01

    Both the National Research Council Decadal Survey and the latest Intergovernmental Panel on Climate Change Assessment Report stressed the need for the comprehensive and innovative evaluation of climate models with the synergistic use of global satellite observations in order to improve our weather and climate simulation and prediction capabilities. The abundance of satellite observations for fundamental climate parameters and the availability of coordinated model outputs from CMIP5 for the same parameters offer a great opportunity to understand and diagnose model biases in climate models. In addition, the Obs4MIPs efforts have created several key global observational datasets that are readily usable for model evaluations. However, a model diagnostic evaluation process requires physics-based multi-variable comparisons that typically involve large-volume and heterogeneous datasets, making them both computationally- and data-intensive. In response, we have developed a novel methodology to diagnose model biases in contemporary climate models and implementing the methodology as a web-service based, cloud-enabled, provenance-supported climate-model evaluation system. The evaluation system is named Climate Model Diagnostic Analyzer (CMDA), which is the product of the research and technology development investments of several current and past NASA ROSES programs. The current technologies and infrastructure of CMDA are designed and selected to address several technical challenges that the Earth science modeling and model analysis community faces in evaluating and diagnosing climate models. In particular, we have three key technology components: (1) diagnostic analysis methodology; (2) web-service based, cloud-enabled technology; (3) provenance-supported technology. The diagnostic analysis methodology includes random forest feature importance ranking, conditional probability distribution function, conditional sampling, and time-lagged correlation map. We have implemented the

  5. Rule-based semantic web services matching strategy

    NASA Astrophysics Data System (ADS)

    Fan, Hong; Wang, Zhihua

    2011-12-01

    With the development of Web services technology, the number of service increases rapidly, and it becomes a challenge task that how to efficiently discovery the services that exactly match the user's requirements from the large scale of services library. Many semantic Web services discovery technologies proposed by the recent literatures only focus on the keyword-based or primary semantic based service's matching. This paper studies the rules and rule reasoning based service matching algorithm in the background of large scale services library. Firstly, the formal descriptions of semantic web services and service matching is presented. The services' matching are divided into four levels: Exact, Plugin, Subsume and Fail and their formal descriptions are also presented. Then, the service matching is regarded as rule-based reasoning issues. A set of match rules are firstly given and the related services set is retrieved from services ontology base through rule-based reasoning, and their matching levels are determined by distinguishing the relationships between service's I/O and user's request I/O. Finally, the experiment based on two services sets show that the proposed services matching strategy can easily implement the smart service discovery and obtains the high service discovery efficiency in comparison with the traditional global traversal strategy.

  6. UkrVO astronomical WEB services

    NASA Astrophysics Data System (ADS)

    Mazhaev, O. E.

    2017-02-01

    Ukraine Virtual Observatory (UkrVO) has been a member of the International Virtual Observatory Alliance (IVOA) since 2011. The virtual observatory (VO) is not a magic solution to all problems of data storing and processing, but it provides certain standards for building infrastructure of astronomical data center. The astronomical databases help data mining and offer to users an easy access to observation metadata, images within celestial sphere and results of image processing. The astronomical web services (AWS) of UkrVO give to users handy tools for data selection from large astronomical catalogues for a relatively small region of interest in the sky. Examples of the AWS usage are showed.

  7. Space Physics Data Facility Web Services

    NASA Technical Reports Server (NTRS)

    Candey, Robert M.; Harris, Bernard T.; Chimiak, Reine A.

    2005-01-01

    The Space Physics Data Facility (SPDF) Web services provides a distributed programming interface to a portion of the SPDF software. (A general description of Web services is available at http://www.w3.org/ and in many current software-engineering texts and articles focused on distributed programming.) The SPDF Web services distributed programming interface enables additional collaboration and integration of the SPDF software system with other software systems, in furtherance of the SPDF mission to lead collaborative efforts in the collection and utilization of space physics data and mathematical models. This programming interface conforms to all applicable Web services specifications of the World Wide Web Consortium. The interface is specified by a Web Services Description Language (WSDL) file. The SPDF Web services software consists of the following components: 1) A server program for implementation of the Web services; and 2) A software developer s kit that consists of a WSDL file, a less formal description of the interface, a Java class library (which further eases development of Java-based client software), and Java source code for an example client program that illustrates the use of the interface.

  8. Identifying orthoimages in Web Map Services

    NASA Astrophysics Data System (ADS)

    Florczyk, A. J.; Nogueras-Iso, J.; Zarazaga-Soria, F. J.; Béjar, R.

    2012-10-01

    Orthoimages are essential in many Web applications to facilitate the background context that helps to understand other georeferenced information. Catalogues and service registries of Spatial Data Infrastructures do not necessarily register all the services providing access to imagery data on the Web, and it is not easy to automatically identify whether the data offered by a Web service are directly imagery data or not. This work presents a method for an automatic detection of the orthoimage layers offered by Web Map Services. The method combines two types of heuristics. The first one consists in analysing the text in the capabilities document. The second type is content-based heuristics, which analyse the content offered by the Web Map Service layers. These heuristics gather and analyse the colour features of a sample collection of image fragments that represent the offered content. An experiment has been performed over a set of Web Map Service layers, which have been fetched from a repository of capabilities documents gathered from the Web. This has proven the efficiency of the method (precision of 87% and recall of 60%). This functionality has been offered as a Web Processing Service, and it has been integrated within the Virtual Spain project to provide a catalogue of orthoimages and build realistic 3D views.

  9. Web Services and Related Works at CDS

    NASA Astrophysics Data System (ADS)

    Schaaff, A.

    2004-07-01

    Started at CDS in 2002, the work around Web Services is in a full exploitation phase. Several services are now available via SOAP: the Sesame name resolver for Simbad-NED-VizieR, a GLU tag resolver, a UCD resolver, the UCD tag list, Aladin image Access, VizieR catalogue access, etc. A portal is available to publish all information about how to use CDS XML Webservices and also hints on how to start to use XML Web Services (tutorial, links, etc.). Other works around XML Web Services are also ongoing at CDS and are described in this article.

  10. Enhancing UCSF Chimera through web services

    PubMed Central

    Huang, Conrad C.; Meng, Elaine C.; Morris, John H.; Pettersen, Eric F.; Ferrin, Thomas E.

    2014-01-01

    Integrating access to web services with desktop applications allows for an expanded set of application features, including performing computationally intensive tasks and convenient searches of databases. We describe how we have enhanced UCSF Chimera (http://www.rbvi.ucsf.edu/chimera/), a program for the interactive visualization and analysis of molecular structures and related data, through the addition of several web services (http://www.rbvi.ucsf.edu/chimera/docs/webservices.html). By streamlining access to web services, including the entire job submission, monitoring and retrieval process, Chimera makes it simpler for users to focus on their science projects rather than data manipulation. Chimera uses Opal, a toolkit for wrapping scientific applications as web services, to provide scalable and transparent access to several popular software packages. We illustrate Chimera's use of web services with an example workflow that interleaves use of these services with interactive manipulation of molecular sequences and structures, and we provide an example Python program to demonstrate how easily Opal-based web services can be accessed from within an application. Web server availability: http://webservices.rbvi.ucsf.edu/opal2/dashboard?command=serviceList. PMID:24861624

  11. Enhancing UCSF Chimera through web services.

    PubMed

    Huang, Conrad C; Meng, Elaine C; Morris, John H; Pettersen, Eric F; Ferrin, Thomas E

    2014-07-01

    Integrating access to web services with desktop applications allows for an expanded set of application features, including performing computationally intensive tasks and convenient searches of databases. We describe how we have enhanced UCSF Chimera (http://www.rbvi.ucsf.edu/chimera/), a program for the interactive visualization and analysis of molecular structures and related data, through the addition of several web services (http://www.rbvi.ucsf.edu/chimera/docs/webservices.html). By streamlining access to web services, including the entire job submission, monitoring and retrieval process, Chimera makes it simpler for users to focus on their science projects rather than data manipulation. Chimera uses Opal, a toolkit for wrapping scientific applications as web services, to provide scalable and transparent access to several popular software packages. We illustrate Chimera's use of web services with an example workflow that interleaves use of these services with interactive manipulation of molecular sequences and structures, and we provide an example Python program to demonstrate how easily Opal-based web services can be accessed from within an application. Web server availability: http://webservices.rbvi.ucsf.edu/opal2/dashboard?command=serviceList.

  12. Climate Model Diagnostic Analyzer Web Service System

    NASA Astrophysics Data System (ADS)

    Lee, S.; Pan, L.; Zhai, C.; Tang, B.; Jiang, J. H.

    2013-12-01

    The latest Intergovernmental Panel on Climate Change (IPCC) Fourth Assessment Report stressed the need for the comprehensive and innovative evaluation of climate models with newly available global observations. The traditional approach to climate model evaluation, which compares a single parameter at a time, identifies symptomatic model biases and errors but fails to diagnose the model problems. The model diagnosis process requires physics-based multi-variable comparisons that typically involve large-volume and heterogeneous datasets, making them both computationally- and data-intensive. To address these challenges, we are developing a parallel, distributed web-service system that enables the physics-based multi-variable model performance evaluations and diagnoses through the comprehensive and synergistic use of multiple observational data, reanalysis data, and model outputs. We have developed a methodology to transform an existing science application code into a web service using a Python wrapper interface and Python web service frameworks (i.e., Flask, Gunicorn, and Tornado). The web-service system, called Climate Model Diagnostic Analyzer (CMDA), currently supports (1) all the datasets from Obs4MIPs and a few ocean datasets from NOAA and Argo, which can serve as observation-based reference data for model evaluation and (2) many of CMIP5 model outputs covering a broad range of atmosphere, ocean, and land variables from the CMIP5 specific historical runs and AMIP runs. Analysis capabilities currently supported by CMDA are (1) the calculation of annual and seasonal means of physical variables, (2) the calculation of time evolution of the means in any specified geographical region, (3) the calculation of correlation between two variables, and (4) the calculation of difference between two variables. A web user interface is chosen for CMDA because it not only lowers the learning curve and removes the adoption barrier of the tool but also enables instantaneous use

  13. Improving query services of web map by web mining

    NASA Astrophysics Data System (ADS)

    Huang, Maojun

    2007-11-01

    Web map is the hybrid of map and the World Wide Web (known as Web). It is usually created with WebGIS techniques. With the rapid social development, web maps oriented the public are facing pressure that dissatisfy the increased demanding. The geocoding database plays a key role in supporting query services effectively. The traditional geocoding method is laborious and time-consuming. And there is much online spatial information, which would be the supplementary information source for geocoding. Therefore, this paper discusses how to improve query services by web mining. The improvement can be described from three facets: first, improving location query by discovering and extracting address information from the Web to extend geocoding database. Second, enhancing the ability of optimum path query of public traffic and buffer query by spatial analyzing and reasoning on the extended geocoding database. Third, adjusting strategies of collecting data according to patterns discovered by web map query mining. Finally, this paper presents the designing of the application system and experimental results.

  14. Transimulation - protein biosynthesis web service.

    PubMed

    Siwiak, Marlena; Zielenkiewicz, Piotr

    2013-01-01

    Although translation is the key step during gene expression, it remains poorly characterized at the level of individual genes. For this reason, we developed Transimulation - a web service measuring translational activity of genes in three model organisms: Escherichia coli, Saccharomyces cerevisiae and Homo sapiens. The calculations are based on our previous computational model of translation and experimental data sets. Transimulation quantifies mean translation initiation and elongation time (expressed in SI units), and the number of proteins produced per transcript. It also approximates the number of ribosomes that typically occupy a transcript during translation, and simulates their propagation. The simulation of ribosomes' movement is interactive and allows modifying the coding sequence on the fly. It also enables uploading any coding sequence and simulating its translation in one of three model organisms. In such a case, ribosomes propagate according to mean codon elongation times of the host organism, which may prove useful for heterologous expression. Transimulation was used to examine evolutionary conservation of translational parameters of orthologous genes. Transimulation may be accessed at http://nexus.ibb.waw.pl/Transimulation (requires Java version 1.7 or higher). Its manual and source code, distributed under the GPL-2.0 license, is freely available at the website.

  15. Between Shots TRANSP Web Service

    NASA Astrophysics Data System (ADS)

    Feibush, E.; Andre, R.; Ludescher-Furth, C.; Kaye, S.; McCune, D.

    2008-11-01

    Running TRANSP between NSTX shots requires rapid data preparation and job submittal. A web service with a graphical user interface and data visualization has been developed to meet these goals. The underlying data preparation system has a command line interface written in Python and runs on a PPPL compute server. The display client is a Java program (ElVis) that sends requests to the data preparation system. As the run data is prepared, graphs are created and sent to the client for display. Flux surface plots are displayed and animated over time. The most commonly used control options are implemented in the UI as buttons and text fields. A time slice or time dependent run can be prepared. The command line interface is available in the client program for expert users to apply advanced settings, to prototype new UI buttons, and to run scripts. The client program contains a simple text editor for modifying the TRANSP namelist. When data preparation is complete the run is submitted to the TRANSP production system. The initial version has been deployed and is being tested in the control room setting. Results will be discussed in the poster presentation. Work performed at PPPL under the auspices of U.S. DOE Contract DE-AC02-76CH03073.

  16. Web server for priority ordered multimedia services

    NASA Astrophysics Data System (ADS)

    Celenk, Mehmet; Godavari, Rakesh K.; Vetnes, Vermund

    2001-10-01

    In this work, our aim is to provide finer priority levels in the design of a general-purpose Web multimedia server with provisions of the CM services. The type of services provided include reading/writing a web page, downloading/uploading an audio/video stream, navigating the Web through browsing, and interactive video teleconferencing. The selected priority encoding levels for such operations follow the order of admin read/write, hot page CM and Web multicasting, CM read, Web read, CM write and Web write. Hot pages are the most requested CM streams (e.g., the newest movies, video clips, and HDTV channels) and Web pages (e.g., portal pages of the commercial Internet search engines). Maintaining a list of these hot Web pages and CM streams in a content addressable buffer enables a server to multicast hot streams with lower latency and higher system throughput. Cold Web pages and CM streams are treated as regular Web and CM requests. Interactive CM operations such as pause (P), resume (R), fast-forward (FF), and rewind (RW) have to be executed without allocation of extra resources. The proposed multimedia server model is a part of the distributed network with load balancing schedulers. The SM is connected to an integrated disk scheduler (IDS), which supervises an allocated disk manager. The IDS follows the same priority handling as the SM, and implements a SCAN disk-scheduling method for an improved disk access and a higher throughput. Different disks are used for the Web and CM services in order to meet the QoS requirements of CM services. The IDS ouput is forwarded to an Integrated Transmission Scheduler (ITS). The ITS creates a priority ordered buffering of the retrieved Web pages and CM data streams that are fed into an auto regressive moving average (ARMA) based traffic shaping circuitry before being transmitted through the network.

  17. Building a biomedical ontology recommender web service

    PubMed Central

    2010-01-01

    Background Researchers in biomedical informatics use ontologies and terminologies to annotate their data in order to facilitate data integration and translational discoveries. As the use of ontologies for annotation of biomedical datasets has risen, a common challenge is to identify ontologies that are best suited to annotating specific datasets. The number and variety of biomedical ontologies is large, and it is cumbersome for a researcher to figure out which ontology to use. Methods We present the Biomedical Ontology Recommender web service. The system uses textual metadata or a set of keywords describing a domain of interest and suggests appropriate ontologies for annotating or representing the data. The service makes a decision based on three criteria. The first one is coverage, or the ontologies that provide most terms covering the input text. The second is connectivity, or the ontologies that are most often mapped to by other ontologies. The final criterion is size, or the number of concepts in the ontologies. The service scores the ontologies as a function of scores of the annotations created using the National Center for Biomedical Ontology (NCBO) Annotator web service. We used all the ontologies from the UMLS Metathesaurus and the NCBO BioPortal. Results We compare and contrast our Recommender by an exhaustive functional comparison to previously published efforts. We evaluate and discuss the results of several recommendation heuristics in the context of three real world use cases. The best recommendations heuristics, rated ‘very relevant’ by expert evaluators, are the ones based on coverage and connectivity criteria. The Recommender service (alpha version) is available to the community and is embedded into BioPortal. PMID:20626921

  18. Building a biomedical ontology recommender web service.

    PubMed

    Jonquet, Clement; Musen, Mark A; Shah, Nigam H

    2010-06-22

    Researchers in biomedical informatics use ontologies and terminologies to annotate their data in order to facilitate data integration and translational discoveries. As the use of ontologies for annotation of biomedical datasets has risen, a common challenge is to identify ontologies that are best suited to annotating specific datasets. The number and variety of biomedical ontologies is large, and it is cumbersome for a researcher to figure out which ontology to use. We present the Biomedical Ontology Recommender web service. The system uses textual metadata or a set of keywords describing a domain of interest and suggests appropriate ontologies for annotating or representing the data. The service makes a decision based on three criteria. The first one is coverage, or the ontologies that provide most terms covering the input text. The second is connectivity, or the ontologies that are most often mapped to by other ontologies. The final criterion is size, or the number of concepts in the ontologies. The service scores the ontologies as a function of scores of the annotations created using the National Center for Biomedical Ontology (NCBO) Annotator web service. We used all the ontologies from the UMLS Metathesaurus and the NCBO BioPortal. We compare and contrast our Recommender by an exhaustive functional comparison to previously published efforts. We evaluate and discuss the results of several recommendation heuristics in the context of three real world use cases. The best recommendations heuristics, rated 'very relevant' by expert evaluators, are the ones based on coverage and connectivity criteria. The Recommender service (alpha version) is available to the community and is embedded into BioPortal.

  19. Creating Web Services from Community Sourced Data

    NASA Astrophysics Data System (ADS)

    Siegel, D.; Scopel, C.; Boghici, E.

    2013-12-01

    In order to extend the World Hydro Basemap and build watershed delineation and river tracing services that cover the entire planet, we are integrating community-contributed data into a global hydrographic dataset. This dataset is the engine behind a foundational set of tools and services intended to enable hydrologic analysis on the web. However, each organization that collects hydrography uses a workflow and data model unique to their mission, which makes synthesizing their data difficult. Furthermore, these data are collected at different resolutions, so running analytics across regions with multiple contributors is not necessarily valid. Thus, instead of merging contributed data into a seamless geodatabase, the goal of our Community Maps for Hydrology program is to create workflows for converting any arbitrary dataset into the Arc Hydro Data Model. This way, tools and services can be pointed towards different contributions interchangeably while still maintaining the autonomy of each dataset. Contributors retain ownership of their data and are responsible for updates and edits, but the tools and services work identically across all contributions. HydroSHEDs data, contributed by the World Wildlife Fund, is used at the smallest scales to ensure global coverage, and national datasets extend our services to the medium-scales where available. A workflow to incorporate LIDAR and other large scale data is being developed as well, so that local governments and engineering companies can contribute to the program. Watershed Delineation Tool The World Hydro Basemap

  20. Online Information Services. Caught in the Web?

    ERIC Educational Resources Information Center

    Green, Tim

    1995-01-01

    Provides brief reviews of the sites for several online services of the World Wide Web; the Web as a marketing tool and other aspects of interest to information professionals are highlighted. A sidebar presents information on accessing Internet locations, graphics, online forms, Telnet, saving, printing, mailing, and searching. (AEF)

  1. Online Information Services. Caught in the Web?

    ERIC Educational Resources Information Center

    Green, Tim

    1995-01-01

    Provides brief reviews of the sites for several online services of the World Wide Web; the Web as a marketing tool and other aspects of interest to information professionals are highlighted. A sidebar presents information on accessing Internet locations, graphics, online forms, Telnet, saving, printing, mailing, and searching. (AEF)

  2. Web Services--A Buzz Word with Potentials

    Treesearch

    János T. Füstös

    2006-01-01

    The simplest definition of a web service is an application that provides a web API. The web API exposes the functionality of the solution to other applications. The web API relies on other Internet-based technologies to manage communications. The resulting web services are pervasive, vendor-independent, language-neutral, and very low-cost. The main purpose of a web API...

  3. Domain-specific Web Service Discovery with Service Class Descriptions

    SciTech Connect

    Rocco, D; Caverlee, J; Liu, L; Critchlow, T J

    2005-02-14

    This paper presents DynaBot, a domain-specific web service discovery system. The core idea of the DynaBot service discovery system is to use domain-specific service class descriptions powered by an intelligent Deep Web crawler. In contrast to current registry-based service discovery systems--like the several available UDDI registries--DynaBot promotes focused crawling of the Deep Web of services and discovers candidate services that are relevant to the domain of interest. It uses intelligent filtering algorithms to match services found by focused crawling with the domain-specific service class descriptions. We demonstrate the capability of DynaBot through the BLAST service discovery scenario and describe our initial experience with DynaBot.

  4. UncertWeb: chaining web services accounting for uncertainty

    NASA Astrophysics Data System (ADS)

    Cornford, Dan; Jones, Richard; Bastin, Lucy; Williams, Matthew; Pebesma, Edzer; Nativi, Stefano

    2010-05-01

    The development of interoperable services that permit access to data and processes, typically using web service based standards opens up the possibility for increasingly complex chains of data and processes, which might be discovered and composed in increasingly automatic ways. This concept, sometimes referred to as the "Model Web", offers the promise of integrated (Earth) system models, with pluggable web service based components which can be discovered, composed and evaluated dynamically. A significant issue with such service chains, indeed in any composite model composed of coupled components, is that in all interesting (non-linear) cases the effect of uncertainties on inputs, or components within the chain will have complex, potentially unexpected effects on the outputs. Within the FP7 UncertWeb project we will be developing a mechanism and an accompanying set of tools to enable rigorous uncertainty management in web based service chains involving both data and processes. The project will exploit and extend the UncertML candidate standard to flexibly propagate uncertainty through service chains, including looking at mechanisms to develop uncertainty enabled profiles of existing Open Geospatial Consortium services. To facilitate the use of such services we will develop tools to address the definition of the input uncertainties (elicitation), manage the uncertainty propagation (emulation), undertake uncertainty and sensitivity analysis and visualise the output uncertainty. In this talk we will outline the challenges of the UncertWeb project, illustrating this with a prototype service chain we have created for correcting station level pressure to sea-level pressure, which accounts for the various uncertainties involved. In particular we will discuss some of the challenges of chaining Open Geospatial Consortium services using the Business Process Execution Language. We will also address the issue of computational cost and communication bandwidth requirements for

  5. Using ESO Reflex with Web Services

    NASA Astrophysics Data System (ADS)

    Järveläinen, P.; Savolainen, V.; Oittinen, T.; Maisala, S.; Ullgrén, M. Hook, R.

    2008-08-01

    ESO Reflex is a prototype graphical workflow system, based on Taverna, and primarily intended to be a flexible way of running ESO data reduction recipes along with other legacy applications and user-written tools. ESO Reflex can also readily use the Taverna Web Services features that are based on the Apache Axis SOAP implementation. Taverna is a general purpose Web Service client, and requires no programming to use such services. However, Taverna also has some restrictions: for example, no numerical types such integers. In addition the preferred binding style is document/literal wrapped, but most astronomical services publish the Axis default WSDL using RPC/encoded style. Despite these minor limitations we have created simple but very promising test VO workflow using the Sesame name resolver service at CDS Strasbourg, the Hubble SIAP server at the Multi-Mission Archive at Space Telescope (MAST) and the WESIX image cataloging and catalogue cross-referencing service at the University of Pittsburgh. ESO Reflex can also pass files and URIs via the PLASTIC protocol to visualisation tools and has its own viewer for VOTables. We picked these three Web Services to try to set up a realistic and useful ESO Reflex workflow. They also demonstrate ESO Reflex abilities to use many kind of Web Services because each of them requires a different interface. We describe each of these services in turn and comment on how it was used

  6. BOWS (bioinformatics open web services) to centralize bioinformatics tools in web services.

    PubMed

    Velloso, Henrique; Vialle, Ricardo A; Ortega, J Miguel

    2015-06-02

    Bioinformaticians face a range of difficulties to get locally-installed tools running and producing results; they would greatly benefit from a system that could centralize most of the tools, using an easy interface for input and output. Web services, due to their universal nature and widely known interface, constitute a very good option to achieve this goal. Bioinformatics open web services (BOWS) is a system based on generic web services produced to allow programmatic access to applications running on high-performance computing (HPC) clusters. BOWS intermediates the access to registered tools by providing front-end and back-end web services. Programmers can install applications in HPC clusters in any programming language and use the back-end service to check for new jobs and their parameters, and then to send the results to BOWS. Programs running in simple computers consume the BOWS front-end service to submit new processes and read results. BOWS compiles Java clients, which encapsulate the front-end web service requisitions, and automatically creates a web page that disposes the registered applications and clients. Bioinformatics open web services registered applications can be accessed from virtually any programming language through web services, or using standard java clients. The back-end can run in HPC clusters, allowing bioinformaticians to remotely run high-processing demand applications directly from their machines.

  7. Web Service Architecture Framework for Embedded Devices

    ERIC Educational Resources Information Center

    Yanzick, Paul David

    2009-01-01

    The use of Service Oriented Architectures, namely web services, has become a widely adopted method for transfer of data between systems across the Internet as well as the Enterprise. Adopting a similar approach to embedded devices is also starting to emerge as personal devices and sensor networks are becoming more common in the industry. This…

  8. Web Service Architecture Framework for Embedded Devices

    ERIC Educational Resources Information Center

    Yanzick, Paul David

    2009-01-01

    The use of Service Oriented Architectures, namely web services, has become a widely adopted method for transfer of data between systems across the Internet as well as the Enterprise. Adopting a similar approach to embedded devices is also starting to emerge as personal devices and sensor networks are becoming more common in the industry. This…

  9. New Interfaces to Web Documents and Services

    NASA Technical Reports Server (NTRS)

    Carlisle, W. H.

    1996-01-01

    This paper reports on investigations into how to extend capabilities of the Virtual Research Center (VRC) for NASA's Advanced Concepts Office. The work was performed as part of NASA's 1996 Summer Faculty Fellowship program, and involved research into and prototype development of software components that provide documents and services for the World Wide Web (WWW). The WWW has become a de-facto standard for sharing resources over the internet, primarily because web browsers are freely available for the most common hardware platforms and their operating systems. As a consequence of the popularity of the internet, tools, and techniques associated with web browsers are changing rapidly. New capabilities are offered by companies that support web browsers in order to achieve or remain a dominant participant in internet services. Because a goal of the VRC is to build an environment for NASA centers, universities, and industrial partners to share information associated with Advanced Concepts Office activities, the VRC tracks new techniques and services associated with the web in order to determine the their usefulness for distributed and collaborative engineering research activities. Most recently, Java has emerged as a new tool for providing internet services. Because the major web browser providers have decided to include Java in their software, investigations into Java were conducted this summer.

  10. A Strategic Model of Trust Management in Web Services

    NASA Astrophysics Data System (ADS)

    Sun, Junqing; Sun, Zhaohao; Li, Yuanzhe; Zhao, Shuliang

    This article examines trust and trust management in web services and proposes a multiagent model of trust relationship in web services. It looks at the hierarchical structure of trust management in web services and proposes a strategic model of trust management in web services. The proposed approach in this article will facilitate research and development of trust management in e-commerce, web services and social networking.

  11. Grid Enabled Geospatial Catalogue Web Service

    NASA Technical Reports Server (NTRS)

    Chen, Ai-Jun; Di, Li-Ping; Wei, Ya-Xing; Liu, Yang; Bui, Yu-Qi; Hu, Chau-Min; Mehrotra, Piyush

    2004-01-01

    Geospatial Catalogue Web Service is a vital service for sharing and interoperating volumes of distributed heterogeneous geospatial resources, such as data, services, applications, and their replicas over the web. Based on the Grid technology and the Open Geospatial Consortium (0GC) s Catalogue Service - Web Information Model, this paper proposes a new information model for Geospatial Catalogue Web Service, named as GCWS which can securely provides Grid-based publishing, managing and querying geospatial data and services, and the transparent access to the replica data and related services under the Grid environment. This information model integrates the information model of the Grid Replica Location Service (RLS)/Monitoring & Discovery Service (MDS) with the information model of OGC Catalogue Service (CSW), and refers to the geospatial data metadata standards from IS0 19115, FGDC and NASA EOS Core System and service metadata standards from IS0 191 19 to extend itself for expressing geospatial resources. Using GCWS, any valid geospatial user, who belongs to an authorized Virtual Organization (VO), can securely publish and manage geospatial resources, especially query on-demand data in the virtual community and get back it through the data-related services which provide functions such as subsetting, reformatting, reprojection etc. This work facilitates the geospatial resources sharing and interoperating under the Grid environment, and implements geospatial resources Grid enabled and Grid technologies geospatial enabled. It 2!so makes researcher to focus on science, 2nd not cn issues with computing ability, data locztic, processir,g and management. GCWS also is a key component for workflow-based virtual geospatial data producing.

  12. Optimizing Web Service Composition While Enforcing Regulations

    NASA Astrophysics Data System (ADS)

    Sohrabi, Shirin; McIlraith, Sheila A.

    To direct automated Web service composition, it is compelling to provide a template, workflow or scaffolding that dictates the ways in which services can be composed. In this paper we present an approach to Web service composition that builds on work using AI planning, and more specifically Hierarchical Task Networks (HTNs), for Web service composition. A significant advantage of our approach is that it provides much of the how-to knowledge of a choreography while enabling customization and optimization of integrated Web service selection and composition based upon the needs of the specific problem, the preferences of the customer, and the available services. Many customers must also be concerned with enforcement of regulations, perhaps in the form of corporate policies and/or government regulations. Regulations are traditionally enforced at design time by verifying that a workflow or composition adheres to regulations. Our approach supports customization, optimization and regulation enforcement all at composition construction time. To maximize efficiency, we have developed novel search heuristics together with a branch and bound search algorithm that enable the generation of high quality compositions with the performance of state-of-the-art planning systems.

  13. The RCSB Protein Data Bank: redesigned web site and web services

    PubMed Central

    Rose, Peter W.; Beran, Bojan; Bi, Chunxiao; Bluhm, Wolfgang F.; Dimitropoulos, Dimitris; Goodsell, David S.; Prlić, Andreas; Quesada, Martha; Quinn, Gregory B.; Westbrook, John D.; Young, Jasmine; Yukich, Benjamin; Zardecki, Christine; Berman, Helen M.; Bourne, Philip E.

    2011-01-01

    The RCSB Protein Data Bank (RCSB PDB) web site (http://www.pdb.org) has been redesigned to increase usability and to cater to a larger and more diverse user base. This article describes key enhancements and new features that fall into the following categories: (i) query and analysis tools for chemical structure searching, query refinement, tabulation and export of query results; (ii) web site customization and new structure alerts; (iii) pair-wise and representative protein structure alignments; (iv) visualization of large assemblies; (v) integration of structural data with the open access literature and binding affinity data; and (vi) web services and web widgets to facilitate integration of PDB data and tools with other resources. These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education. PMID:21036868

  14. The RCSB Protein Data Bank: redesigned web site and web services.

    PubMed

    Rose, Peter W; Beran, Bojan; Bi, Chunxiao; Bluhm, Wolfgang F; Dimitropoulos, Dimitris; Goodsell, David S; Prlic, Andreas; Quesada, Martha; Quinn, Gregory B; Westbrook, John D; Young, Jasmine; Yukich, Benjamin; Zardecki, Christine; Berman, Helen M; Bourne, Philip E

    2011-01-01

    The RCSB Protein Data Bank (RCSB PDB) web site (http://www.pdb.org) has been redesigned to increase usability and to cater to a larger and more diverse user base. This article describes key enhancements and new features that fall into the following categories: (i) query and analysis tools for chemical structure searching, query refinement, tabulation and export of query results; (ii) web site customization and new structure alerts; (iii) pair-wise and representative protein structure alignments; (iv) visualization of large assemblies; (v) integration of structural data with the open access literature and binding affinity data; and (vi) web services and web widgets to facilitate integration of PDB data and tools with other resources. These improvements enable a range of new possibilities to analyze and understand structure data. The next generation of the RCSB PDB web site, as described here, provides a rich resource for research and education.

  15. Designing Crop Simulation Web Service with Service Oriented Architecture Principle

    NASA Astrophysics Data System (ADS)

    Chinnachodteeranun, R.; Hung, N. D.; Honda, K.

    2015-12-01

    Crop simulation models are efficient tools for simulating crop growth processes and yield. Running crop models requires data from various sources as well as time-consuming data processing, such as data quality checking and data formatting, before those data can be inputted to the model. It makes the use of crop modeling limited only to crop modelers. We aim to make running crop models convenient for various users so that the utilization of crop models will be expanded, which will directly improve agricultural applications. As the first step, we had developed a prototype that runs DSSAT on Web called as Tomorrow's Rice (v. 1). It predicts rice yields based on a planting date, rice's variety and soil characteristics using DSSAT crop model. A user only needs to select a planting location on the Web GUI then the system queried historical weather data from available sources and expected yield is returned. Currently, we are working on weather data connection via Sensor Observation Service (SOS) interface defined by Open Geospatial Consortium (OGC). Weather data can be automatically connected to a weather generator for generating weather scenarios for running the crop model. In order to expand these services further, we are designing a web service framework consisting of layers of web services to support compositions and executions for running crop simulations. This framework allows a third party application to call and cascade each service as it needs for data preparation and running DSSAT model using a dynamic web service mechanism. The framework has a module to manage data format conversion, which means users do not need to spend their time curating the data inputs. Dynamic linking of data sources and services are implemented using the Service Component Architecture (SCA). This agriculture web service platform demonstrates interoperability of weather data using SOS interface, convenient connections between weather data sources and weather generator, and connecting

  16. Data as a Service: A Seismic Web Service Pipeline

    NASA Astrophysics Data System (ADS)

    Martinez, E.

    2016-12-01

    Publishing data as a service pipeline provides an improved, dynamic approach over static data archives. A service pipeline is a collection of micro web services that each perform a specific task and expose the results of that task. Structured request/response formats allow micro web services to be chained together into a service pipeline to provide more complex results. The U.S. Geological Survey adopted service pipelines to publish seismic hazard and design data supporting both specific and generalized audiences. The seismic web service pipeline starts at source data and exposes probability and deterministic hazard curves, response spectra, risk-targeted ground motions, and seismic design provision metadata. This pipeline supports public/private organizations and individual engineers/researchers. Publishing data as a service pipeline provides a variety of benefits. Exposing the component services enables advanced users to inspect or use the data at each processing step. Exposing a composite service enables new users quick access to published data with a very low barrier to entry. Advanced users may re-use micro web services by chaining them in new ways or injecting new micros services into the pipeline. This allows the user to test hypothesis and compare their results to published results. Exposing data at each step in the pipeline enables users to review and validate the data and process more quickly and accurately. Making the source code open source, per USGS policy, further enables this transparency. Each micro service may be scaled independent of any other micro service. This ensures data remains available and timely in a cost-effective manner regardless of load. Additionally, if a new or more efficient approach to processing the data is discovered, this new approach may replace the old approach at any time, keeping the pipeline running while not affecting other micro services.

  17. Web Processing Service for assisted land cover classification

    NASA Astrophysics Data System (ADS)

    Gasperi, Jérôme; Peyrega, Charles; Dinot, Sébastien; Boileau, Quentin; Manin, Alexis; Heurteaux, Vincent

    2013-04-01

    The Orfeo Toolbox (OTB - http://www.orfeo-toolbox.org/) is an Open Source Remote Sensing Image Processing software library developed by CNES. The aim of the toolbox is to gather a large number of state of the art algorithms for building processing chains for satellite images. Using the constellation server (http://www.constellation-sdi.org/), we exposed the main OTB processing chains as Web Processing Services (WPS). The WPS provides rules for standardizing inputs and outputs for invoking geospatial processing services. These services are managed from a web browser using the mapshup web client (http://mapshup.info). mapshup supports both synchronous and asynchronous processes and offers direct visualisation of results. The whole system provides user a complete and comprehensive image processing chain to produce land cover classification from satellite orthoimagery.

  18. [Web-based laboratory service].

    PubMed

    Bhattoa Pal, Harjit; Csáthy, László; Deményi, Tamás; Kappelmayer, János

    2008-02-03

    The internet has revolutionized not only the clinical laboratory operation but has also made laboratory service more user friendly. With its help the laboratory can provide precise and up to date information about the services and laboratory tests to offer, furthermore can provide insight into the different operating procedures. To provide an overview of the laboratory services in an easily accessible manner, promote efficient information transfer to the clinicians, familiarize the test repertoire in different classifications, provide information on tests requiring special sampling and transportation, create a search engine for tests performed, provide in a downloadable format the different order forms and the specifications of the newly introduced tests, provide links to websites relevant to the field, familiarize with the departments educational and research activities. With the creation of our own website we have provided clinicians and students with a practical, easily accessible, user friendly tool that provides details of our services and activities, furthermore the number of preanalytical queries has also reduced significantly. Unfortunately, in the present Hungarian healthcare system few users utilize adequately the possibilities offered by the internet, however, departments like ours and others are making efforts to change this tendency.

  19. CMR Catalog Service for the Web

    NASA Technical Reports Server (NTRS)

    Newman, Doug; Mitchell, Andrew

    2016-01-01

    With the impending retirement of Global Change Master Directory (GCMD) Application Programming Interfaces (APIs) the Common Metadata Repository (CMR) was charged with providing a collection-level Catalog Service for the Web (CSW) that provided the same level of functionality as GCMD. This talk describes the capabilities of the CMR CSW API with particular reference to the support of the Committee on Earth Observation Satellites (CEOS) Working Group on Information Systems and Services (WGISS) Integrated Catalog (CWIC).

  20. Introducing the PRIDE Archive RESTful web services.

    PubMed

    Reisinger, Florian; del-Toro, Noemi; Ternent, Tobias; Hermjakob, Henning; Vizcaíno, Juan Antonio

    2015-07-01

    The PRIDE (PRoteomics IDEntifications) database is one of the world-leading public repositories of mass spectrometry (MS)-based proteomics data and it is a founding member of the ProteomeXchange Consortium of proteomics resources. In the original PRIDE database system, users could access data programmatically by accessing the web services provided by the PRIDE BioMart interface. New REST (REpresentational State Transfer) web services have been developed to serve the most popular functionality provided by BioMart (now discontinued due to data scalability issues) and address the data access requirements of the newly developed PRIDE Archive. Using the API (Application Programming Interface) it is now possible to programmatically query for and retrieve peptide and protein identifications, project and assay metadata and the originally submitted files. Searching and filtering is also possible by metadata information, such as sample details (e.g. species and tissues), instrumentation (mass spectrometer), keywords and other provided annotations. The PRIDE Archive web services were first made available in April 2014. The API has already been adopted by a few applications and standalone tools such as PeptideShaker, PRIDE Inspector, the Unipept web application and the Python-based BioServices package. This application is free and open to all users with no login requirement and can be accessed at http://www.ebi.ac.uk/pride/ws/archive/. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

  1. Towards Web Service-Based Educational Systems

    ERIC Educational Resources Information Center

    Sampson, Demetrios G.

    2005-01-01

    The need for designing the next generation of web service-based educational systems with the ability of integrating components from different tools and platforms is now recognised as the major challenge in advanced learning technologies. In this paper, we discuss this issue and we present the conceptual design of such environment, referred to as…

  2. Introducing the PRIDE Archive RESTful web services

    PubMed Central

    Reisinger, Florian; del-Toro, Noemi; Ternent, Tobias; Hermjakob, Henning; Vizcaíno, Juan Antonio

    2015-01-01

    The PRIDE (PRoteomics IDEntifications) database is one of the world-leading public repositories of mass spectrometry (MS)-based proteomics data and it is a founding member of the ProteomeXchange Consortium of proteomics resources. In the original PRIDE database system, users could access data programmatically by accessing the web services provided by the PRIDE BioMart interface. New REST (REpresentational State Transfer) web services have been developed to serve the most popular functionality provided by BioMart (now discontinued due to data scalability issues) and address the data access requirements of the newly developed PRIDE Archive. Using the API (Application Programming Interface) it is now possible to programmatically query for and retrieve peptide and protein identifications, project and assay metadata and the originally submitted files. Searching and filtering is also possible by metadata information, such as sample details (e.g. species and tissues), instrumentation (mass spectrometer), keywords and other provided annotations. The PRIDE Archive web services were first made available in April 2014. The API has already been adopted by a few applications and standalone tools such as PeptideShaker, PRIDE Inspector, the Unipept web application and the Python-based BioServices package. This application is free and open to all users with no login requirement and can be accessed at http://www.ebi.ac.uk/pride/ws/archive/. PMID:25904633

  3. Data Mining Web Services for Science Data Repositories

    NASA Astrophysics Data System (ADS)

    Graves, S.; Ramachandran, R.; Keiser, K.; Maskey, M.; Lynnes, C.; Pham, L.

    2006-12-01

    The maturation of web services standards and technologies sets the stage for a distributed "Service-Oriented Architecture" (SOA) for NASA's next generation science data processing. This architecture will allow members of the scientific community to create and combine persistent distributed data processing services and make them available to other users over the Internet. NASA has initiated a project to create a suite of specialized data mining web services designed specifically for science data. The project leverages the Algorithm Development and Mining (ADaM) toolkit as its basis. The ADaM toolkit is a robust, mature and freely available science data mining toolkit that is being used by several research organizations and educational institutions worldwide. These mining services will give the scientific community a powerful and versatile data mining capability that can be used to create higher order products such as thematic maps from current and future NASA satellite data records with methods that are not currently available. The package of mining and related services are being developed using Web Services standards so that community-based measurement processing systems can access and interoperate with them. These standards-based services allow users different options for utilizing them, from direct remote invocation by a client application to deployment of a Business Process Execution Language (BPEL) solutions package where a complex data mining workflow is exposed to others as a single service. The ability to deploy and operate these services at a data archive allows the data mining algorithms to be run where the data are stored, a more efficient scenario than moving large amounts of data over the network. This will be demonstrated in a scenario in which a user uses a remote Web-Service-enabled clustering algorithm to create cloud masks from satellite imagery at the Goddard Earth Sciences Data and Information Services Center (GES DISC).

  4. Novel web-based real-time dashboard to optimize recycling and use of red cell units at a large multi-site transfusion service

    PubMed Central

    Sharpe, Christopher; Quinn, Jason G; Watson, Stephanie; Doiron, Donald; Crocker, Bryan; Cheng, Calvino

    2014-01-01

    Background: Effective blood inventory management reduces outdates of blood products. Multiple strategies have been employed to reduce the rate of red blood cell (RBC) unit outdate. We designed an automated real-time web-based dashboard interfaced with our laboratory information system to effectively recycle red cell units. The objective of our approach is to decrease RBC outdate rates within our transfusion service. Methods: The dashboard was deployed in August 2011 and is accessed by a shortcut that was placed on the desktops of all blood transfusion services computers in the Capital District Health Authority region. It was designed to refresh automatically every 10 min. The dashboard provides all vital information on RBC units, and implemented a color coding scheme to indicate an RBC unit's proximity to expiration. Results: The overall RBC unit outdate rate in the 7 months period following implementation of the dashboard (September 2011-March 2012) was 1.24% (123 units outdated/9763 units received), compared to similar periods in 2010-2011 and 2009-2010: 2.03% (188/9395) and 2.81% (261/9220), respectively. The odds ratio of a RBC unit outdate postdashboard (2011-2012) compared with 2010-2011 was 0.625 (95% confidence interval: 0.497-0.786; P < 0.0001). Conclusion: Our dashboard system is an inexpensive and novel blood inventory management system which was associated with a significant reduction in RBC unit outdate rates at our institution over a period of 7 months. This system, or components of it, could be a useful addition to existing RBC management systems at other institutions. PMID:25337432

  5. A resource oriented webs service for environmental modeling

    NASA Astrophysics Data System (ADS)

    Ferencik, Ioan

    2013-04-01

    Environmental modeling is a largely adopted practice in the study of natural phenomena. Environmental models can be difficult to build and use and thus sharing them within the community is an important aspect. The most common approach to share a model is to expose it as a web service. In practice the interaction with this web service is cumbersome due to lack of standardized contract and the complexity of the model being exposed. In this work we investigate the use of a resource oriented approach in exposing environmental models as web services. We view a model as a layered resource build atop the object concept from Object Oriented Programming, augmented with persistence capabilities provided by an embedded object database to keep track of its state and implementing the four basic principles of resource oriented architectures: addressability, statelessness, representation and uniform interface. For implementation we use exclusively open source software: Django framework, dyBase object oriented database and Python programming language. We developed a generic framework of resources structured into a hierarchy of types and consequently extended this typology with recurses specific to the domain of environmental modeling. To test our web service we used cURL, a robust command-line based web client.

  6. Web services for ecosystem services management and poverty alleviation

    NASA Astrophysics Data System (ADS)

    Buytaert, W.; Baez, S.; Veliz Rosas, C.

    2011-12-01

    Over the last decades, near real-time environmental observation, technical advances in computer power and cyber-infrastructure, and the development of environmental software algorithms have increased dramatically. The integration of these evolutions is one of the major challenges of the next decade for environmental sciences. Worldwide, many coordinated activities are ongoing to make this integration a reality. However, far less attention is paid to the question of how these developments can benefit environmental services management in a poverty alleviation context. Such projects are typically faced with issues of large predictive uncertainties, limited resources, limited local scientific capacity. At the same time, the complexity of the socio-economic contexts requires a very strong bottom-up oriented and interdisciplinary approach to environmental data collection and processing. Here, we present the results of two projects on integrated environmental monitoring and scenario analysis aimed at poverty alleviation in the Peruvian Andes and Amazon. In the upper Andean highlands, farmers are monitoring the water cycle of headwater catchments to analyse the impact of land-use changes on stream flow and potential consequences for downstream irrigation. In the Amazon, local communities are monitoring the dynamics of turtle populations and their relations with river levels. In both cases, the use of online databases and web processing services enable real-time analysis of the data and scenario analysis. The system provides both physical and social indicators to assess the impact of land-use management options on local socio-economic development.

  7. Altering Leadership Thinking and Organizational Behavior Through Web Services

    DTIC Science & Technology

    2010-04-01

    result. The proliferation of Web 2.0 services is enabling information sharing among employees and leaders. Regrettably, this level of information...investigates the relationship between Web services, commonly called Web 2.0 , and the influence these services wield on organizational behavior. To support the...infrastructure for those who can use Web 2.0 and other IT services. The data were sorted by officer, noncommissioned officer, and enlisted ranks for the

  8. Automated Generation of Web Services for Visualization Toolkits

    NASA Astrophysics Data System (ADS)

    Jensen, P. A.; Yuen, D. A.; Erlebacher, G.; Bollig, E. F.; Kigelman, D. G.; Shukh, E. A.

    2005-12-01

    The recent explosion in the size and complexity of geophysical data and an increasing trend for collaboration across large geographical areas demand the use of remote, full featured visualization toolkits. As the scientific community shifts toward grid computing to handle these increased demands, new web services are needed to assemble powerful distributed applications. Recent research has established the possibility of converting toolkits such as VTK [1] and Matlab [2] into remote visualization services. We are investigating an automated system to allow these toolkits to export their functions as web services under the standardized protocols SOAP and WSDL using pre-existing software (gSOAP [3]) and a custom compiler for Tcl-based scripts. The compiler uses a flexible parser and type inferring mechanism to convert the Tcl into a C++ program that allows the desired Tcl procedures to be exported as SOAP-accessible functions and the VTK rendering window to be captured offscreen and encapsulated for forwarding through a web service. Classes for a client-side Java applet to access the rendering window remotely are also generated. We will use this system to demonstrate the streamlined generation of a standards-compliant web service (suitable for grid deployment) from a Tcl script for VTK. References: [1] The Visualization Toolkit, http://www.vtk.org [2] Matlab, http://www.mathworks.com [3] gSOAP, http://www.cs.fsu.edu/~engelen/soap.html

  9. User Needs of Digital Service Web Portals: A Case Study

    ERIC Educational Resources Information Center

    Heo, Misook; Song, Jung-Sook; Seol, Moon-Won

    2013-01-01

    The authors examined the needs of digital information service web portal users. More specifically, the needs of Korean cultural portal users were examined as a case study. The conceptual framework of a web-based portal is that it is a complex, web-based service application with characteristics of information systems and service agents. In…

  10. User Needs of Digital Service Web Portals: A Case Study

    ERIC Educational Resources Information Center

    Heo, Misook; Song, Jung-Sook; Seol, Moon-Won

    2013-01-01

    The authors examined the needs of digital information service web portal users. More specifically, the needs of Korean cultural portal users were examined as a case study. The conceptual framework of a web-based portal is that it is a complex, web-based service application with characteristics of information systems and service agents. In…

  11. Novel web service selection model based on discrete group search.

    PubMed

    Zhai, Jie; Shao, Zhiqing; Guo, Yi; Zhang, Haiteng

    2014-01-01

    In our earlier work, we present a novel formal method for the semiautomatic verification of specifications and for describing web service composition components by using abstract concepts. After verification, the instantiations of components were selected to satisfy the complex service performance constraints. However, selecting an optimal instantiation, which comprises different candidate services for each generic service, from a large number of instantiations is difficult. Therefore, we present a new evolutionary approach on the basis of the discrete group search service (D-GSS) model. With regard to obtaining the optimal multiconstraint instantiation of the complex component, the D-GSS model has competitive performance compared with other service selection models in terms of accuracy, efficiency, and ability to solve high-dimensional service composition component problems. We propose the cost function and the discrete group search optimizer (D-GSO) algorithm and study the convergence of the D-GSS model through verification and test cases.

  12. Deploying and sharing U-Compare workflows as web services

    PubMed Central

    2013-01-01

    Background U-Compare is a text mining platform that allows the construction, evaluation and comparison of text mining workflows. U-Compare contains a large library of components that are tuned to the biomedical domain. Users can rapidly develop biomedical text mining workflows by mixing and matching U-Compare’s components. Workflows developed using U-Compare can be exported and sent to other users who, in turn, can import and re-use them. However, the resulting workflows are standalone applications, i.e., software tools that run and are accessible only via a local machine, and that can only be run with the U-Compare platform. Results We address the above issues by extending U-Compare to convert standalone workflows into web services automatically, via a two-click process. The resulting web services can be registered on a central server and made publicly available. Alternatively, users can make web services available on their own servers, after installing the web application framework, which is part of the extension to U-Compare. We have performed a user-oriented evaluation of the proposed extension, by asking users who have tested the enhanced functionality of U-Compare to complete questionnaires that assess its functionality, reliability, usability, efficiency and maintainability. The results obtained reveal that the new functionality is well received by users. Conclusions The web services produced by U-Compare are built on top of open standards, i.e., REST and SOAP protocols, and therefore, they are decoupled from the underlying platform. Exported workflows can be integrated with any application that supports these open standards. We demonstrate how the newly extended U-Compare enhances the cross-platform interoperability of workflows, by seamlessly importing a number of text mining workflow web services exported from U-Compare into Taverna, i.e., a generic scientific workflow construction platform. PMID:23419017

  13. Deploying and sharing U-Compare workflows as web services.

    PubMed

    Kontonatsios, Georgios; Korkontzelos, Ioannis; Kolluru, Balakrishna; Thompson, Paul; Ananiadou, Sophia

    2013-02-18

    U-Compare is a text mining platform that allows the construction, evaluation and comparison of text mining workflows. U-Compare contains a large library of components that are tuned to the biomedical domain. Users can rapidly develop biomedical text mining workflows by mixing and matching U-Compare's components. Workflows developed using U-Compare can be exported and sent to other users who, in turn, can import and re-use them. However, the resulting workflows are standalone applications, i.e., software tools that run and are accessible only via a local machine, and that can only be run with the U-Compare platform. We address the above issues by extending U-Compare to convert standalone workflows into web services automatically, via a two-click process. The resulting web services can be registered on a central server and made publicly available. Alternatively, users can make web services available on their own servers, after installing the web application framework, which is part of the extension to U-Compare. We have performed a user-oriented evaluation of the proposed extension, by asking users who have tested the enhanced functionality of U-Compare to complete questionnaires that assess its functionality, reliability, usability, efficiency and maintainability. The results obtained reveal that the new functionality is well received by users. The web services produced by U-Compare are built on top of open standards, i.e., REST and SOAP protocols, and therefore, they are decoupled from the underlying platform. Exported workflows can be integrated with any application that supports these open standards. We demonstrate how the newly extended U-Compare enhances the cross-platform interoperability of workflows, by seamlessly importing a number of text mining workflow web services exported from U-Compare into Taverna, i.e., a generic scientific workflow construction platform.

  14. Spatial Data Web Services Pricing Model Infrastructure

    NASA Astrophysics Data System (ADS)

    Ozmus, L.; Erkek, B.; Colak, S.; Cankurt, I.; Bakıcı, S.

    2013-08-01

    The General Directorate of Land Registry and Cadastre (TKGM) which is the leader in the field of cartography largely continues its missions which are; to keep and update land registry and cadastre system of the country under the responsibility of the treasure, to perform transactions related to real estate and to establish Turkish national spatial information system. TKGM a public agency has completed many projects. Such as; Continuously Operating GPS Reference Stations (TUSAGA-Aktif), Geo-Metadata Portal (HBB), Orthophoto-Base Map Production and web services, Completion of Initial Cadastre, Cadastral Renovation Project (TKMP), Land Registry and Cadastre Information System (TAKBIS), Turkish National Spatial Data Infrastructure Project (TNSDI), Ottoman Land Registry Archive Information System (TARBIS). TKGM provides updated map and map information to not only public institutions but also to related society in the name of social responsibility principals. Turkish National Spatial Data Infrastructure activities have been started by the motivation of Circular No. 2003/48 which was declared by Turkish Prime Ministry in 2003 within the context of e-Transformation of Turkey Short-term Action Plan. Action No. 47 in the mentioned action plan implies that "A Feasibility Study shall be made in order to establish the Turkish National Spatial Data Infrastructure" whose responsibility has been given to General Directorate of Land Registry and Cadastre. Feasibility report of NSDI has been completed in 10th of December 2010. After decision of Steering Committee, feasibility report has been send to Development Bank (old name State Planning Organization) for further evaluation. There are two main arrangements with related this project (feasibility report).First; Now there is only one Ministry which is Ministry of Environment and Urbanism responsible for establishment, operating and all national level activities of NSDI. And Second arrangement is related to institutional Level. The

  15. Web Services Integration on the Fly

    DTIC Science & Technology

    2008-12-01

    Specification X-KRSS XML Key Registration Service Specification XMI XML Metadata Interchange xxiii XML Extensible Markup Language XSLT...incorporating Efficient XML Interchange (EXI) and lazy 52 loading (i.e,. load in batch and only by need basis). Design strategies for overcoming...Return result for getDESModel web method in XML . ....................................97 Figure 60. SAVAGE WSBPEL composite process in NetBeans design

  16. Climate Model Diagnostic Analyzer Web Service System

    NASA Astrophysics Data System (ADS)

    Lee, S.; Pan, L.; Zhai, C.; Tang, B.; Jiang, J. H.

    2014-12-01

    We have developed a cloud-enabled web-service system that empowers physics-based, multi-variable model performance evaluations and diagnoses through the comprehensive and synergistic use of multiple observational data, reanalysis data, and model outputs. We have developed a methodology to transform an existing science application code into a web service using a Python wrapper interface and Python web service frameworks. The web-service system, called Climate Model Diagnostic Analyzer (CMDA), currently supports (1) all the observational datasets from Obs4MIPs and a few ocean datasets from NOAA and Argo, which can serve as observation-based reference data for model evaluation, (2) many of CMIP5 model outputs covering a broad range of atmosphere, ocean, and land variables from the CMIP5 specific historical runs and AMIP runs, and (3) ECMWF reanalysis outputs for several environmental variables in order to supplement observational datasets. Analysis capabilities currently supported by CMDA are (1) the calculation of annual and seasonal means of physical variables, (2) the calculation of time evolution of the means in any specified geographical region, (3) the calculation of correlation between two variables, (4) the calculation of difference between two variables, and (5) the conditional sampling of one physical variable with respect to another variable. A web user interface is chosen for CMDA because it not only lowers the learning curve and removes the adoption barrier of the tool but also enables instantaneous use, avoiding the hassle of local software installation and environment incompatibility. CMDA will be used as an educational tool for the summer school organized by JPL's Center for Climate Science in 2014. In order to support 30+ simultaneous users during the school, we have deployed CMDA to the Amazon cloud environment. The cloud-enabled CMDA will provide each student with a virtual machine while the user interaction with the system will remain the same

  17. A web service based tool to plan atmospheric research flights

    NASA Astrophysics Data System (ADS)

    Rautenhaus, M.; Bauer, G.; Dörnbrack, A.

    2011-09-01

    We present a web service based tool for the planning of atmospheric research flights. The tool provides online access to horizontal maps and vertical cross-sections of numerical weather prediction data and in particular allows the interactive design of a flight route in direct relation to the predictions. It thereby fills a crucial gap in the set of currently available tools for using data from numerical atmospheric models for research flight planning. A distinct feature of the tool is its lightweight, web service based architecture, requiring only commodity hardware and a basic Internet connection for deployment. Access to visualisations of prediction data is achieved by using an extended version of the Open Geospatial Consortium Web Map Service (WMS) standard, a technology that has gained increased attention in meteorology in recent years. With the WMS approach, we avoid the transfer of large forecast model output datasets while enabling on-demand generated visualisations of the predictions at campaign sites with limited Internet bandwidth. Usage of the Web Map Service standard also enables access to third-party sources of georeferenced data. We have implemented the software using the open-source programming language Python. In the present article, we describe the architecture of the tool. As an example application, we discuss a case study research flight planned for the scenario of the 2010 Eyjafjalla volcano eruption. Usage and implementation details are provided as Supplement.

  18. A web service based tool to plan atmospheric research flights

    NASA Astrophysics Data System (ADS)

    Rautenhaus, M.; Bauer, G.; Dörnbrack, A.

    2012-01-01

    We present a web service based tool for the planning of atmospheric research flights. The tool provides online access to horizontal maps and vertical cross-sections of numerical weather prediction data and in particular allows the interactive design of a flight route in direct relation to the predictions. It thereby fills a crucial gap in the set of currently available tools for using data from numerical atmospheric models for research flight planning. A distinct feature of the tool is its lightweight, web service based architecture, requiring only commodity hardware and a basic Internet connection for deployment. Access to visualisations of prediction data is achieved by using an extended version of the Open Geospatial Consortium Web Map Service (WMS) standard, a technology that has gained increased attention in meteorology in recent years. With the WMS approach, we avoid the transfer of large forecast model output datasets while enabling on-demand generated visualisations of the predictions at campaign sites with limited Internet bandwidth. Usage of the Web Map Service standard also enables access to third-party sources of georeferenced data. We have implemented the software using the open-source programming language Python. In the present article, we describe the architecture of the tool. As an example application, we discuss a case study research flight planned for the scenario of the 2010 Eyjafjalla volcano eruption. Usage and implementation details are provided as Supplement.

  19. Web services at the European Bioinformatics Institute-2009

    PubMed Central

    Mcwilliam, Hamish; Valentin, Franck; Goujon, Mickael; Li, Weizhong; Narayanasamy, Menaka; Martin, Jenny; Miyar, Teresa; Lopez, Rodrigo

    2009-01-01

    The European Bioinformatics Institute (EMBL-EBI) has been providing access to mainstream databases and tools in bioinformatics since 1997. In addition to the traditional web form based interfaces, APIs exist for core data resources such as EMBL-Bank, Ensembl, UniProt, InterPro, PDB and ArrayExpress. These APIs are based on Web Services (SOAP/REST) interfaces that allow users to systematically access databases and analytical tools. From the user's point of view, these Web Services provide the same functionality as the browser-based forms. However, using the APIs frees the user from web page constraints and are ideal for the analysis of large batches of data, performing text-mining tasks and the casual or systematic evaluation of mathematical models in regulatory networks. Furthermore, these services are widespread and easy to use; require no prior knowledge of the technology and no more than basic experience in programming. In the following we wish to inform of new and updated services as well as briefly describe planned developments to be made available during the course of 2009–2010. PMID:19435877

  20. WSDRI-based Semantic Web Service Discovery Framework

    NASA Astrophysics Data System (ADS)

    Sun, Xu; Xu, Yanli; Mao, Mingrong; Dong, Ming

    In the research of Web Service [1, 2], semantic information should be automatically discovered, selected and composed. These automations can make usage of Web Service easily. In this paper we propose a framework to facilitate the discovery of Web Service. In this framework, we use WSDRI (Web Service Discovery Information) to describe the semantic information. This framework which refers to client and Match Server is based on WSDRI. Then we evaluate the framework through the application on the internet to find that the framework is effective. Following this framework, it could be easy to discover the information of Web Service especially the semantic information.

  1. Web Map Services for Hurricane Data

    NASA Astrophysics Data System (ADS)

    de La Beaujardiere, J.

    2005-12-01

    We have established several Web Map Services (WMS) that provide visualizations of numerical weather model data and satellite observations in support of NASA's Modeling, Analysis and Prediction Program 2005 Intensive Analysis (MAP05) Hurricane Project. The primary data component offered is the voluminous output (30GB/day) from the fourth-generation Goddard Earth Observing System (GEOS4) incorporating the finite-volume General Circulation Model (fvGCM). In addition, cloud imagery from the NASA MODIS and NOAA GOES sensors, and other ancillary datasets, are provided. We will discuss and demonstrate these servers using a simple web-based client. WMS is a web service interoperability specification developed by the Open Geospatial Consortium (OGC) and also approved for release as an International Standard (ISO 19128). WMS allows the user to request customized images of geospatial information, selecting exactly the dataset(s), times, geographic area and output size desired. A WMS client can combine output from multiple WMS servers, thus producing a unified view of information stored in a distributed network. Adoption of web services for access to hurricane data can be more efficient than older methods of data access. Specifically, instead of downloading huge datasets to a local workstation for analysis, the data can be stored on a remote server that generates visualizations of user-selected subsets of the data. In addition, a "clip-and-ship" capability can allow the user to visually inspect the data via WMS and then request numeric data values for only the subset of interest. Acknowledgements: Work supported by NASA Geoscience Interoperability Office (GIO) and NASA GSFC Software Integration and Visualization Office (SIVO). Satellite imagery provided by NASA GSFC Ocean Color Group and GOES Project Science Office.

  2. Using EMBL-EBI services via Web interface and programmatically via Web Services

    PubMed Central

    Lopez, Rodrigo; Cowley, Andrew; Li, Weizhong; McWilliam, Hamish

    2015-01-01

    The European Bioinformatics Institute (EMBL-EBI) provides access to a wide range of databases and analysis tools that are of key importance in bioinformatics. As well as providing Web interfaces to these resources, Web Services are available using SOAP and REST protocols that enable programmatic access to our resources and allow their integration into other applications and analytical workflows. This unit describes the various options available to a typical researcher or bioinformatician who wishes to use our resources via Web interface or programmatically via a range of programming languages. PMID:25501941

  3. Web processing service for landslide hazard assessment

    NASA Astrophysics Data System (ADS)

    Sandric, I.; Ursaru, P.; Chitu, D.; Mihai, B.; Savulescu, I.

    2012-04-01

    Hazard analysis requires heavy computation and specialized software. Web processing services can offer complex solutions that can be accessed through a light client (web or desktop). This paper presents a web processing service (both WPS and Esri Geoprocessing Service) for landslides hazard assessment. The web processing service was build with Esri ArcGIS Server solution and Python, developed using ArcPy, GDAL Python and NumPy. A complex model for landslide hazard analysis using both predisposing and triggering factors combined into a Bayesian temporal network with uncertainty propagation was build and published as WPS and Geoprocessing service using ArcGIS Standard Enterprise 10.1. The model uses as predisposing factors the first and second derivatives from DEM, the effective precipitations, runoff, lithology and land use. All these parameters can be served by the client from other WFS services or by uploading and processing the data on the server. The user can select the option of creating the first and second derivatives from the DEM automatically on the server or to upload the data already calculated. One of the main dynamic factors from the landslide analysis model is leaf area index. The LAI offers the advantage of modelling not just the changes from different time periods expressed in years, but also the seasonal changes in land use throughout a year. The LAI index can be derived from various satellite images or downloaded as a product. The upload of such data (time series) is possible using a NetCDF file format. The model is run in a monthly time step and for each time step all the parameters values, a-priory, conditional and posterior probability are obtained and stored in a log file. The validation process uses landslides that have occurred during the period up to the active time step and checks the records of the probabilities and parameters values for those times steps with the values of the active time step. Each time a landslide has been positive

  4. Web Map Services (WMS) Global Mosaic

    NASA Technical Reports Server (NTRS)

    Percivall, George; Plesea, Lucian

    2003-01-01

    The WMS Global Mosaic provides access to imagery of the global landmass using an open standard for web mapping. The seamless image is a mosaic of Landsat 7 scenes; geographically-accurate with 30 and 15 meter resolutions. By using the OpenGIS Web Map Service (WMS) interface, any organization can use the global mosaic as a layer in their geospatial applications. Based on a trade study, an implementation approach was chosen that extends a previously developed WMS hosting a Landsat 5 CONUS mosaic developed by JPL. The WMS Global Mosaic supports the NASA Geospatial Interoperability Office goal of providing an integrated digital representation of the Earth, widely accessible for humanity's critical decisions.

  5. Web Map Services (WMS) Global Mosaic

    NASA Technical Reports Server (NTRS)

    Percivall, George; Plesea, Lucian

    2003-01-01

    The WMS Global Mosaic provides access to imagery of the global landmass using an open standard for web mapping. The seamless image is a mosaic of Landsat 7 scenes; geographically-accurate with 30 and 15 meter resolutions. By using the OpenGIS Web Map Service (WMS) interface, any organization can use the global mosaic as a layer in their geospatial applications. Based on a trade study, an implementation approach was chosen that extends a previously developed WMS hosting a Landsat 5 CONUS mosaic developed by JPL. The WMS Global Mosaic supports the NASA Geospatial Interoperability Office goal of providing an integrated digital representation of the Earth, widely accessible for humanity's critical decisions.

  6. Implementation of Sensor Twitter Feed Web Service Server and Client

    DTIC Science & Technology

    2016-12-01

    SUPPLEMENTARY NOTES 14. ABSTRACT Many social media platforms have been introduced in recent years. The Sensor Twitter Feed Web Service was developed...using the RESTful web service architecture to research how a social media platform can be leveraged to disseminate Army- relevant information across...Service, RESTful Web Service, social media, complex networks 16. SECURITY CLASSIFICATION OF: 17. LIMITATION OF ABSTRACT UU 18. NUMBER

  7. Synthetic seismogram web service and Python tools

    NASA Astrophysics Data System (ADS)

    Heimann, Sebastian; Cesca, Simone; Kriegerowski, Marius; Dahm, Torsten

    2014-05-01

    Many geophysical methods require knowledge of Green's functions (GF) or synthetic seismograms in dependence of ranges of source and receiver coordinates. Examples include synthetic seismogram generation, moment tensor inversion, the modeling of depth phases for regional and teleseismic earthquakes, or the modeling of pressure diffusion induced static displacement and strain. Calculation of Green's functions is a computationally expensive operation and it can be of advantage to calculate them in advance: the same Green's function traces can then be reused several or many times as required in a typical application. Regarding Green's function computation as an independent step in a use-case's processing chain encourages to store these in an application independent form. They can then be shared between different applications and they can also be passed to other researchers, e.g. via a web service. Starting now, we provide such a web service to the seismological community (http://kinherd.org/), where a researcher can share Green's function stores and retrieve synthetic seismograms for various point and extended earthquake source models for many different earth models at local, regional and global scale. This web service is part of a rich new toolset for the creation and handling of Green's functions and synthetic seismograms (http://emolch.github.com/pyrocko/gf). It can be used off-line or in client mode. Its core features are: greatly simplified generation of Green's function stores supports various codes for Green's function computation extensible Green's function storage format flexible spacial indexing of Green's functions integrated travel time computation support for other types of Green's functions; e.g. poro-elastic GFs written in Python

  8. Web Services as Public Services: Are We Supporting Our Busiest Service Point?

    ERIC Educational Resources Information Center

    Riley-Huff, Debra A.

    2009-01-01

    This article is an analysis of academic library organizational culture, patterns, and processes as they relate to Web services. Data gathered in a research survey is examined in an attempt to reveal current departmental and administrative attitudes, practices, and support for Web services in the library research environment. (Contains 10 tables.)

  9. P2P Approach for Web Services Publishing and Discovery

    NASA Astrophysics Data System (ADS)

    Islam, Mohmammad Towhidul; Akon, Mursalin; Shen, Xuemin (Sherman)

    Web service is an emerging paradigm for distributing business applications from different platforms to a wide variety of clients. The critical factor in seamlessly accessing web services is to discover the appropriate service and the related service providers. Unfortunately, current web service technologies use centralized directory to keep the service index, which is not scalable and at the same time vulnerable to single point of failure. Peer to peer system is a popular decentralized architecture which can be used for key look up service with scalability and self organization. Thus there is an opportunity to intersect the P2P framework with web services to provide the scalable solution. In this chapter, we discuss the key methods to deploy web services using the peer-to-peer technology.

  10. Protecting Database Centric Web Services against SQL/XPath Injection Attacks

    NASA Astrophysics Data System (ADS)

    Laranjeiro, Nuno; Vieira, Marco; Madeira, Henrique

    Web services represent a powerful interface for back-end database systems and are increasingly being used in business critical applications. However, field studies show that a large number of web services are deployed with security flaws (e.g., having SQL Injection vulnerabilities). Although several techniques for the identification of security vulnerabilities have been proposed, developing non-vulnerable web services is still a difficult task. In fact, security-related concerns are hard to apply as they involve adding complexity to already complex code. This paper proposes an approach to secure web services against SQL and XPath Injection attacks, by transparently detecting and aborting service invocations that try to take advantage of potential vulnerabilities. Our mechanism was applied to secure several web services specified by the TPC-App benchmark, showing to be 100% effective in stopping attacks, non-intrusive and very easy to use.

  11. Connection Termination Method by Clients in Web Service

    NASA Astrophysics Data System (ADS)

    Sato, Akihiro; Satake, Shinsuke; Inai, Hiroshi

    In web service, the server is normally responsible for the connection termination. That would produce useless connections. In this paper, to improve quality of web service, we propose two methods in which a client terminates the connection, and evaluate their performance via simulation. One method is to terminate a persistent connection under HTTP/1.1 by the client. As the simulation result, we confirmed the effectiveness of this method by comparing with the existing one. The other method is that, by using a TCP reset packet, a client terminates the suspended connection which is revealed when the client quits the browse. As the simulation result, we confirmed that this method reduces a connection loss probability when the listenbacklog parameter value is large.

  12. Model Driven Development of Web Services and Dynamic Web Services Composition

    DTIC Science & Technology

    2005-01-01

    Web Services (WS) has emerged as a new component-based software develop- ment paradigm in a network -centric environment based on the Service Oriented...tion of legacy distributed software system toward WS applications ; 2) the innovation of new infrastructure, and languages in support of WS application ...approach is presented toward reengineering legacy software systems to WS applications , rather than rewriting the whole legacy software system from

  13. Sharing geoscience algorithms in a Web service-oriented environment (GRASS GIS example)

    NASA Astrophysics Data System (ADS)

    Li, Xiaoyan; Di, Liping; Han, Weiguo; Zhao, Peisheng; Dadi, Upendra

    2010-08-01

    Effective use of the large amounts of geospatial data available for geospatial research and applications is needed. In this paper, the emerging SOAP-based Web service technologies have been used to develop a large number of standard compliant, chainable geospatial Web services, using existing geospatial modules in software systems or specific geoscientific algorithms. A prototype for wrapping legacy software modules or geoscientific algorithms into loosely coupled Web services is proposed from an implementation viewpoint. Module development for Web services adheres to the Open GIS Consortium (OGC) geospatial implementation and the World Wide Web consortium (W3C) standards. The Web service interfaces are designed using Web Services Description Language (WSDL) documents. This paper presents how the granularity of an individual existing geospatial service module used by other geoscientific workflows is decided. A treatment of concurrence processes and clustered deployment of Web services is used to overcome multi-user access and network speed limit problems. This endeavor should allow extensive use of geoscientific algorithms and geospatial data.

  14. OGC Web Services standards by example : the European Seismic Portal

    NASA Astrophysics Data System (ADS)

    Frobert, L.; Kamb, L.; Trani, L.; Spinuso, A.; Bossu, R.; Van Eck, T.

    2011-12-01

    NERIES (2006-2010) was an Integrated Infrastructure Initiative (I3) project in the Sixth Framework Program (FP6) of the European Commission (EC), aiming at networking the European seismic networks, improving access to data, allowing access to specific seismic infrastructures and pursuing targeted research developing the next generation of tools for improved service and data analysis. During this project, a web portal was developed using web services to access data and a Visual Web Applications to display them. However these web services were not conform to any standard, making them difficult to consume by any new user interface. Therefore, for the NERA project, the follow-up of NERIES, we have proposed the use of web services standards to access our data. We have decided to use standards defined by the Open Geospatial Consortium (OGC). The OGC defines standards for the Web service interfaces to access geo-tagged data. The events and seismic stations are also geo-tagged making these web services suitable for our purpose. Using standard web services gives us the opportunity to distribute our data across all conformant consumers to these standards through various programming languages and applications We have implemented a preliminary version of web services conforming to the Web Map Service (WMS) and Web Feature Service (WFS) standard to access our catalog of seismic events (nearly 200 000 events). To visualize them we have made four examples demo on our web site using different technologies (Adobe Flash, JavaScript, Java with Nasa World Wind and UDig a desktop GIS application). In the future we hope to implement other OGC Web services standard like : - Sensor Observation Service (SOS) to provide seismic waveform records; - Web Notification Service (WNS); - Catalog Service for the Web (CSW) to provide a search engine of all our web services; - Web Processing Service (WPS) to process data between different services. The power of the use of OGC standards is the easy

  15. A web service based tool to plan atmospheric research flights

    NASA Astrophysics Data System (ADS)

    Rautenhaus, M.; Dörnbrack, A.

    2012-04-01

    We present a web service based tool for the planning of atmospheric research flights. The tool, which we call the "Mission Support System" (MSS), provides online access to horizontal maps and vertical cross-sections of numerical weather prediction data and in particular allows the interactive design of a flight route in direct relation to the predictions. It thereby fills a crucial gap in the set of currently available tools for using data from numerical atmospheric models for research flight planning. A distinct feature of the tool is its lightweight, web service based architecture, requiring only commodity hardware and a basic Internet connection for deployment. Access to visualisations of prediction data is achieved by using an extended version of the Open Geospatial Consortium Web Map Service (WMS) standard. With the WMS approach, we avoid the transfer of large forecast model output datasets while enabling on-demand generated visualisations of the predictions at campaign sites with limited Internet bandwidth. Usage of the Web Map Service standard also enables access to third-party sources of georeferenced data. The MSS is focused on the primary needs of mission scientists responsible for planning a research flight, addressing in particular the following requirements: (1) interactive exploration of available atmospheric forecasts, (2) interactive flight planning in relation to these forecasts, (3) computation of expected flight performance to assess the technical feasibility (in terms of total distance and vertical profile) of a flight, (4) no transfer of large forecast data files to the campaign site to allow deployment at remote locations and (5) low demand on hardware resources. We have implemented the software using the open-source programming language Python.

  16. Persistence and availability of Web services in computational biology.

    PubMed

    Schultheiss, Sebastian J; Münch, Marc-Christian; Andreeva, Gergana D; Rätsch, Gunnar

    2011-01-01

    We have conducted a study on the long-term availability of bioinformatics Web services: an observation of 927 Web services published in the annual Nucleic Acids Research Web Server Issues between 2003 and 2009. We found that 72% of Web sites are still available at the published addresses, only 9% of services are completely unavailable. Older addresses often redirect to new pages. We checked the functionality of all available services: for 33%, we could not test functionality because there was no example data or a related problem; 13% were truly no longer working as expected; we could positively confirm functionality only for 45% of all services. Additionally, we conducted a survey among 872 Web Server Issue corresponding authors; 274 replied. 78% of all respondents indicate their services have been developed solely by students and researchers without a permanent position. Consequently, these services are in danger of falling into disrepair after the original developers move to another institution, and indeed, for 24% of services, there is no plan for maintenance, according to the respondents. We introduce a Web service quality scoring system that correlates with the number of citations: services with a high score are cited 1.8 times more often than low-scoring services. We have identified key characteristics that are predictive of a service's survival, providing reviewers, editors, and Web service developers with the means to assess or improve Web services. A Web service conforming to these criteria receives more citations and provides more reliable service for its users. The most effective way of ensuring continued access to a service is a persistent Web address, offered either by the publishing journal, or created on the authors' own initiative, for example at http://bioweb.me. The community would benefit the most from a policy requiring any source code needed to reproduce results to be deposited in a public repository.

  17. Persistence and Availability of Web Services in Computational Biology

    PubMed Central

    Schultheiss, Sebastian J.; Münch, Marc-Christian; Andreeva, Gergana D.; Rätsch, Gunnar

    2011-01-01

    We have conducted a study on the long-term availability of bioinformatics Web services: an observation of 927 Web services published in the annual Nucleic Acids Research Web Server Issues between 2003 and 2009. We found that 72% of Web sites are still available at the published addresses, only 9% of services are completely unavailable. Older addresses often redirect to new pages. We checked the functionality of all available services: for 33%, we could not test functionality because there was no example data or a related problem; 13% were truly no longer working as expected; we could positively confirm functionality only for 45% of all services. Additionally, we conducted a survey among 872 Web Server Issue corresponding authors; 274 replied. 78% of all respondents indicate their services have been developed solely by students and researchers without a permanent position. Consequently, these services are in danger of falling into disrepair after the original developers move to another institution, and indeed, for 24% of services, there is no plan for maintenance, according to the respondents. We introduce a Web service quality scoring system that correlates with the number of citations: services with a high score are cited 1.8 times more often than low-scoring services. We have identified key characteristics that are predictive of a service's survival, providing reviewers, editors, and Web service developers with the means to assess or improve Web services. A Web service conforming to these criteria receives more citations and provides more reliable service for its users. The most effective way of ensuring continued access to a service is a persistent Web address, offered either by the publishing journal, or created on the authors' own initiative, for example at http://bioweb.me. The community would benefit the most from a policy requiring any source code needed to reproduce results to be deposited in a public repository. PMID:21966383

  18. Web Services and Their Use in Starlink Software

    NASA Astrophysics Data System (ADS)

    Taylor, M.; Platon, R.; Chipperfield, A.; Draper, P.; McIlwrath, B.; Giaretta, D.

    Web Services are gaining great popularity in the Grid community, and with good reason. The Starlink project is adopting Web Services as the method of interapplication communication. This is being done natively in new Java-based applications while older applications are being wrapped to provide Web Service interfaces. We are in this way providing interoperability between the generations of software in a heterogeneous, distributed manner and allowing the software to be usable in a distributed environment such as the GRID.

  19. A web service for service composition to aid geospatial modelers

    NASA Astrophysics Data System (ADS)

    Bigagli, L.; Santoro, M.; Roncella, R.; Mazzetti, P.

    2012-04-01

    The identification of appropriate mechanisms for process reuse, chaining and composition is considered a key enabler for the effective uptake of a global Earth Observation infrastructure, currently pursued by the international geospatial research community. In the Earth and Space Sciences, such a facility could primarily enable integrated and interoperable modeling, for what several approaches have been proposed and developed, over the last years. In fact, GEOSS is specifically tasked with the development of the so-called "Model Web". At increasing levels of abstraction and generalization, the initial stove-pipe software tools have evolved to community-wide modeling frameworks, to Component-Based Architecture solution, and, more recently, started to embrace Service-Oriented Architectures technologies, such as the OGC WPS specification and the WS-* stack of W3C standards for service composition. However, so far, the level of abstraction seems too low for implementing the Model Web vision, and far too complex technological aspects must still be addressed by both providers and users, resulting in limited usability and, eventually, difficult uptake. As by the recent ICT trend of resource virtualization, it has been suggested that users in need of a particular processing capability, required by a given modeling workflow, may benefit from outsourcing the composition activities into an external first-class service, according to the Composition as a Service (CaaS) approach. A CaaS system provides the necessary interoperability service framework for adaptation, reuse and complementation of existing processing resources (including models and geospatial services in general) in the form of executable workflows. This work introduces the architecture of a CaaS system, as a distributed information system for creating, validating, editing, storing, publishing, and executing geospatial workflows. This way, the users can be freed from the need of a composition infrastructure and

  20. Software Architecture Design of GIS Web Service Aggregation Based on Service Group

    NASA Astrophysics Data System (ADS)

    Liu, J.-C.; Yang, J.; Tan, M.-J.; Gan, Q.

    2011-08-01

    Based on the analysis of research status of domestic and international GIS web service aggregation and development tendency of public platform of GIS web service, the paper designed software architecture of GIS web service aggregation based on GIS web service group. Firstly, using heterogeneous GIS services model, the software architecture converted a variety of heterogeneous services to a unified interface of GIS services, and divided different types of GIS services into different service groups referring to description of GIS services. Secondly, a service aggregation process model was designed. This model completed the task of specific service aggregation instance, by automatically selecting member GIS Web services in the same service group. Dynamic capabilities and automatic adaptation of GIS Web services aggregation process were achieved. Thirdly, this paper designed a service evaluation model of GIS web service aggregation based on service group from three aspects, i.e. GIS Web Service itself, networking conditions and service consumer. This model implemented effective quality evaluation and performance monitoring of GIS web service aggregation. It could be used to guide the execution, monitor and service selection of aggregation process. Therefore, robustness of aggregated GIS web service was improved. Finally, the software architecture has been widely used in public platform of GIS web service and a number of geo-spatial framework constructions for digital city in Sichuan Province, and aggregated various GIS web services such as World Map(National Public Platform of Geo-spatial Service), ArcGIS, SuperMap, MapGIS, NewMap etc. Applications of items showed that this software architecture was practicability.

  1. Oceanic satellite data service system based on web

    NASA Astrophysics Data System (ADS)

    Kang, Yan; Pan, Delu; He, Xianqiang; Wang, Difeng; Chen, Jianyu; Chen, Xiaoyan

    2011-11-01

    The ocean satellite observation is more and more important to study the global change, protect ocean resource and implement ocean engineering for their large area cover and high frequency observation, which have already given us a global view of ocean environment parameters, including the sea surface temperature, ocean color, wind, wave, sea level and sea ice, etc... China has made great progress in ocean environment remote sensing over the last couple of years. These data are widely used for a variety of applications in ocean environment studies, coastal water quality monitoring environmental, fishery resources protection, development and utilization of fishery resources, coastal engineering and oceanography. But the data are no online information access and dissemination, no online visualization & browsing, no online query and analyze capability. To facilitate the application of the data and to help disseminating the data, a web-service system has developed. The system provides capabilities of online oceanic satellite information access, query, visualize and analyze. It disseminates oceanic satellite data to the users via real time retrieval, processing and publishing through standards-based geospatial web services. A region of interest can also be exported directly to Google Earth for displaying or downloaded. This web service system greatly improves accessibility, interoperability, usability, and visualization of oceanic satellite data without any client-side software installation.

  2. Application of the Open Geospatial Consortium (OGC) Web Processing Service (WPS) Standard for Exposing Water Models as Web Services

    NASA Astrophysics Data System (ADS)

    Goodall, J. L.; Castronova, A. M.; Huynh, N.; Caicedo, J. M.

    2012-12-01

    Management of water systems often requires the integration of data and models across a range of sources and disciplinary expertise. Service-Oriented Architectures (SOA) have emerged as a powerful paradigm for providing this integration. Including models within a SOA presents challenges because services are not well suited for applications that require state management and large data transfers. Despite these challenges, thoughtful inclusion of models as resources within a SOA could have distinct advantages that center on the idea of abstracting complex computer hardware and software from service consumers while, at the same time, providing powerful resources to client applications. With these advantages and challenges of using models within SOA in mind, this work explores the potential of a modeling service standard as a means for integrating models as resources within SOA. Specifically, we investigate the use of the Open Geospatial Consortium (OGC) Web Processing Service (WPS) standard for exposing models as web services. Through extension of a Python-based implementation of WPS (called pyWPS), we present a demonstration of the methodology through a case study involving a storm event that floods roads and disrupts travel in Columbia, SC. The case study highlights the benefit of an urban infrastructure system with its various subsystems (stormwater, transportation, and structures) interacting and exchanging data seamlessly.

  3. Graph-Based Semantic Web Service Composition for Healthcare Data Integration

    PubMed Central

    2017-01-01

    Within the numerous and heterogeneous web services offered through different sources, automatic web services composition is the most convenient method for building complex business processes that permit invocation of multiple existing atomic services. The current solutions in functional web services composition lack autonomous queries of semantic matches within the parameters of web services, which are necessary in the composition of large-scale related services. In this paper, we propose a graph-based Semantic Web Services composition system consisting of two subsystems: management time and run time. The management-time subsystem is responsible for dependency graph preparation in which a dependency graph of related services is generated automatically according to the proposed semantic matchmaking rules. The run-time subsystem is responsible for discovering the potential web services and nonredundant web services composition of a user's query using a graph-based searching algorithm. The proposed approach was applied to healthcare data integration in different health organizations and was evaluated according to two aspects: execution time measurement and correctness measurement.

  4. Web-Based Course Management and Web Services

    ERIC Educational Resources Information Center

    Mandal, Chittaranjan; Sinha, Vijay Luxmi; Reade, Christopher M. P.

    2004-01-01

    The architecture of a web-based course management tool that has been developed at IIT [Indian Institute of Technology], Kharagpur and which manages the submission of assignments is discussed. Both the distributed architecture used for data storage and the client-server architecture supporting the web interface are described. Further developments…

  5. BioSWR – Semantic Web Services Registry for Bioinformatics

    PubMed Central

    Repchevsky, Dmitry; Gelpi, Josep Ll.

    2014-01-01

    Despite of the variety of available Web services registries specially aimed at Life Sciences, their scope is usually restricted to a limited set of well-defined types of services. While dedicated registries are generally tied to a particular format, general-purpose ones are more adherent to standards and usually rely on Web Service Definition Language (WSDL). Although WSDL is quite flexible to support common Web services types, its lack of semantic expressiveness led to various initiatives to describe Web services via ontology languages. Nevertheless, WSDL 2.0 descriptions gained a standard representation based on Web Ontology Language (OWL). BioSWR is a novel Web services registry that provides standard Resource Description Framework (RDF) based Web services descriptions along with the traditional WSDL based ones. The registry provides Web-based interface for Web services registration, querying and annotation, and is also accessible programmatically via Representational State Transfer (REST) API or using a SPARQL Protocol and RDF Query Language. BioSWR server is located at http://inb.bsc.es/BioSWR/and its code is available at https://sourceforge.net/projects/bioswr/under the LGPL license. PMID:25233118

  6. BioSWR--semantic web services registry for bioinformatics.

    PubMed

    Repchevsky, Dmitry; Gelpi, Josep Ll

    2014-01-01

    Despite of the variety of available Web services registries specially aimed at Life Sciences, their scope is usually restricted to a limited set of well-defined types of services. While dedicated registries are generally tied to a particular format, general-purpose ones are more adherent to standards and usually rely on Web Service Definition Language (WSDL). Although WSDL is quite flexible to support common Web services types, its lack of semantic expressiveness led to various initiatives to describe Web services via ontology languages. Nevertheless, WSDL 2.0 descriptions gained a standard representation based on Web Ontology Language (OWL). BioSWR is a novel Web services registry that provides standard Resource Description Framework (RDF) based Web services descriptions along with the traditional WSDL based ones. The registry provides Web-based interface for Web services registration, querying and annotation, and is also accessible programmatically via Representational State Transfer (REST) API or using a SPARQL Protocol and RDF Query Language. BioSWR server is located at http://inb.bsc.es/BioSWR/and its code is available at https://sourceforge.net/projects/bioswr/under the LGPL license.

  7. On the Potential of Web Services in Network Management

    NASA Astrophysics Data System (ADS)

    Liu, Ziheng; Bai, Yu; Wan, Youqing

    These days, Web services, which are based on XML and consist of several XML-related technologies, have been emerging as a promising technology, and it seems that Web services may be used in the field of network management. In this paper, we examine Web services as a XML-based approach to network management. Since Web services are a Service-Oriented Architecture (SOA) more than just a set of technologies, it could be used in XML-based network management, not only at the technology level, but also at the architecture level, which has many remarkable advantages and may be more effective in network management along with the concepts of Peer-to-Peer and Point-to-Point, in order to make a better use of its capability. Correspondingly, two models are presented to further demonstrate the potential of Web services in XML-based network management.

  8. Web services for distributed and interoperable hydro-information systems

    NASA Astrophysics Data System (ADS)

    Horak, J.; Orlik, A.; Stromsky, J.

    2007-06-01

    Web services support the integration and interoperability of Web-based applications and enable machine-to-machine interaction. The concepts of web services and open distributed architecture were applied to the development of T-DSS, the prototype customised for web based hydro-information systems. T-DSS provides mapping services, database related services and access to remote components, with special emphasis placed on output flexibility (e.g. multilingualism), where SOAP web services are mainly used for communication. The remote components are represented above all by distant data and mapping services (e.g. eteorological predictions), modelling and analytical systems (currently HEC-HMS, Modflow and additional utilities), which support decision making in water management.

  9. Web services for distributed and interoperable hydro-information systems

    NASA Astrophysics Data System (ADS)

    Horak, J.; Orlik, A.; Stromsky, J.

    2008-03-01

    Web services support the integration and interoperability of Web-based applications and enable machine-to-machine interaction. The concepts of web services and open distributed architecture were applied to the development of T-DSS, the prototype customised for web based hydro-information systems. T-DSS provides mapping services, database related services and access to remote components, with special emphasis placed on the output flexibility (e.g. multilingualism), where SOAP web services are mainly used for communication. The remote components are represented above all by remote data and mapping services (e.g. meteorological predictions), modelling and analytical systems (currently HEC-HMS, MODFLOW and additional utilities), which support decision making in water management.

  10. New implementation of OGC Web Processing Service in Python programming language. PyWPS-4 and issues we are facing with processing of large raster data using OGC WPS

    NASA Astrophysics Data System (ADS)

    Čepický, Jáchym; Moreira de Sousa, Luís

    2016-06-01

    The OGC® Web Processing Service (WPS) Interface Standard provides rules for standardizing inputs and outputs (requests and responses) for geospatial processing services, such as polygon overlay. The standard also defines how a client can request the execution of a process, and how the output from the process is handled. It defines an interface that facilitates publishing of geospatial processes and client discovery of processes and and binding to those processes into workflows. Data required by a WPS can be delivered across a network or they can be available at a server. PyWPS was one of the first implementations of OGC WPS on the server side. It is written in the Python programming language and it tries to connect to all existing tools for geospatial data analysis, available on the Python platform. During the last two years, the PyWPS development team has written a new version (called PyWPS-4) completely from scratch. The analysis of large raster datasets poses several technical issues in implementing the WPS standard. The data format has to be defined and validated on the server side and binary data have to be encoded using some numeric representation. Pulling raster data from remote servers introduces security risks, in addition, running several processes in parallel has to be possible, so that system resources are used efficiently while preserving security. Here we discuss these topics and illustrate some of the solutions adopted within the PyWPS implementation.

  11. Semantic Web Technologies for Mobile Context-Aware Services

    DTIC Science & Technology

    2006-03-01

    FOR THE DIRECTOR: /s/ JAMES W. CUSACK Chief, Information Systems Division Information Directorate...Sheshagiri, Marie desJardins, and Timothy Finin, A Planner for Composing Services described in DAML-S, Workshop on Planning for Web Services, Trento

  12. Experience using web services for biological sequence analysis

    PubMed Central

    Attwood, Teresa; Chohan, Shahid Nadeem; Côté, Richard; Cudré-Mauroux, Philippe; Falquet, Laurent; Fernandes, Pedro; Finn, Robert D.; Hupponen, Taavi; Korpelainen, Eija; Labarga, Alberto; Laugraud, Aurelie; Lima, Tania; Pafilis, Evangelos; Pagni, Marco; Pettifer, Steve; Phan, Isabelle; Rahman, Nazim

    2008-01-01

    Programmatic access to data and tools through the web using so-called web services has an important role to play in bioinformatics. In this article, we discuss the most popular approaches based on SOAP/WS-I and REST and describe our, a cross section of the community, experiences with providing and using web services in the context of biological sequence analysis. We briefly review main technological approaches as well as best practice hints that are useful for both users and developers. Finally, syntactic and semantic data integration issues with multiple web services are discussed. PMID:18621748

  13. A Smart Web Platform for Telematics Services Toward Ubiquitous Environments

    DTIC Science & Technology

    2005-07-25

    A Smart Web Platform for Telematics Services toward Ubiquitous Environments Eunkyu Lee, Inhak Joo, Mijeong Kim, and Minsoo Kim Telematics·USN...web architecture for Telematics services on ubiquitous environments. Telematics has become one of upcoming convergence fields where many kinds of...services are now be operated or planned to be launched. However, most of Telematics services are currently operated in a closed architecture: they

  14. SCALEUS: Semantic Web Services Integration for Biomedical Applications.

    PubMed

    Sernadela, Pedro; González-Castro, Lorena; Oliveira, José Luís

    2017-04-01

    In recent years, we have witnessed an explosion of biological data resulting largely from the demands of life science research. The vast majority of these data are freely available via diverse bioinformatics platforms, including relational databases and conventional keyword search applications. This type of approach has achieved great results in the last few years, but proved to be unfeasible when information needs to be combined or shared among different and scattered sources. During recent years, many of these data distribution challenges have been solved with the adoption of semantic web. Despite the evident benefits of this technology, its adoption introduced new challenges related with the migration process, from existent systems to the semantic level. To facilitate this transition, we have developed Scaleus, a semantic web migration tool that can be deployed on top of traditional systems in order to bring knowledge, inference rules, and query federation to the existent data. Targeted at the biomedical domain, this web-based platform offers, in a single package, straightforward data integration and semantic web services that help developers and researchers in the creation process of new semantically enhanced information systems. SCALEUS is available as open source at http://bioinformatics-ua.github.io/scaleus/ .

  15. Web 2.0 Strategy in Libraries and Information Services

    ERIC Educational Resources Information Center

    Byrne, Alex

    2008-01-01

    Web 2.0 challenges libraries to change from their predominantly centralised service models with integrated library management systems at the hub. Implementation of Web 2.0 technologies and the accompanying attitudinal shifts will demand reconceptualisation of the nature of library and information service around a dynamic, ever changing, networked,…

  16. Web 2.0 Strategy in Libraries and Information Services

    ERIC Educational Resources Information Center

    Byrne, Alex

    2008-01-01

    Web 2.0 challenges libraries to change from their predominantly centralised service models with integrated library management systems at the hub. Implementation of Web 2.0 technologies and the accompanying attitudinal shifts will demand reconceptualisation of the nature of library and information service around a dynamic, ever changing, networked,…

  17. Data partitioning enables the use of standard SOAP Web Services in genome-scale workflows.

    PubMed

    Sztromwasser, Pawel; Puntervoll, Pål; Petersen, Kjell

    2011-07-26

    Biological databases and computational biology tools are provided by research groups around the world, and made accessible on the Web. Combining these resources is a common practice in bioinformatics, but integration of heterogeneous and often distributed tools and datasets can be challenging. To date, this challenge has been commonly addressed in a pragmatic way, by tedious and error-prone scripting. Recently however a more reliable technique has been identified and proposed as the platform that would tie together bioinformatics resources, namely Web Services. In the last decade the Web Services have spread wide in bioinformatics, and earned the title of recommended technology. However, in the era of high-throughput experimentation, a major concern regarding Web Services is their ability to handle large-scale data traffic. We propose a stream-like communication pattern for standard SOAP Web Services, that enables efficient flow of large data traffic between a workflow orchestrator and Web Services. We evaluated the data-partitioning strategy by comparing it with typical communication patterns on an example pipeline for genomic sequence annotation. The results show that data-partitioning lowers resource demands of services and increases their throughput, which in consequence allows to execute in-silico experiments on genome-scale, using standard SOAP Web Services and workflows. As a proof-of-principle we annotated an RNA-seq dataset using a plain BPEL workflow engine.

  18. Semantic Web Service Framework to Intelligent Distributed Manufacturing

    SciTech Connect

    Kulvatunyou, Boonserm

    2005-12-01

    As markets become unexpectedly turbulent with a shortened product life cycle and a power shift towards buyers, the need for methods to develop products, production facilities, and supporting software rapidly and cost-effectively is becoming urgent. The use of a loosely integrated virtual enterprise based framework holds the potential of surviving changing market needs. However, its success requires reliable and large-scale interoperation among trading partners via a semantic web of trading partners services whose properties, capabilities, and interfaces are encoded in an unambiguous as well as computer-understandable form. This paper demonstrates a promising approach to integration and interoperation between a design house and a manufacturer that may or may not have prior relationship by developing semantic web services for business and engineering transactions. To this end, detailed activity and information flow diagrams are developed, in which the two trading partners exchange messages and documents. The properties and capabilities of the manufacturer sites are defined using DARPA Agent Markup Language (DAML) ontology definition language. The prototype development of semantic webs shows that enterprises can interoperate widely in an unambiguous and autonomous manner. This contributes towards the realization of virtual enterprises at a low cost.

  19. Implementation of the OGC Web Processing Service for Use in Spatial Web Portal

    NASA Astrophysics Data System (ADS)

    Sun, M.; Huang, Q.; Li, J.; Yang, C.

    2010-12-01

    Data intensive and computing intensive are now two critical issues for Earth sciences. Spatial analytical processing, which are known for computing intensive, demands better solutions to meet the challenges. Such computing requirements are often beyond the capacities of stand-alone computers. OGC Web Processing Service (WPS) is a new standard way to provide distributed GIS functions to users through the network, instead of local computers. Then these distributed analytical functions can be bond with the spatial web portal which is supported by clouding computing on the background (e.g. spatial web portal by CISC, GMU). The bridging between generic computing and spatial processing for Earth sciences might be solved by the power of cloud computing. WPS for some basic GIS functions (e.g. buffer, overlay, intersect) or domain-specific geoprocessing has been published. Through integrating all sorts of basic functions, specialists can process the applications across different domains. However, there are two problems: the limited functions provided by the existing WPS are only tips of the powerful GIS analytical functions, they cannot effectively satisfy intended analyzing demands well; Also the processing for large data and complex computation might be very slow. Thus, the study is in the purpose of setting up on-line spatial analytical functions in the spatial web portal, supported by cloud computing, which can chain the data management, search, spatial analysis and visualization together.

  20. Enhancing the AliEn Web Service Authentication

    NASA Astrophysics Data System (ADS)

    Zhu, Jianlin; Saiz, Pablo; Carminati, Federico; Betev, Latchezar; Zhou, Daicui; Mendez Lorenzo, Patricia; Grigoras, Alina Gabriela; Grigoras, Costin; Furano, Fabrizio; Schreiner, Steffen; Vladimirovna Datskova, Olga; Sankar Banerjee, Subho; Zhang, Guoping

    2011-12-01

    Web Services are an XML based technology that allow applications to communicate with each other across disparate systems. Web Services are becoming the de facto standard that enable inter operability between heterogeneous processes and systems. AliEn2 is a grid environment based on web services. The AliEn2 services can be divided in three categories: Central services, deployed once per organization; Site services, deployed on each of the participating centers; Job Agents running on the worker nodes automatically. A security model to protect these services is essential for the whole system. Current implementations of web server, such as Apache, are not suitable to be used within the grid environment. Apache with the mod_ssl and OpenSSL only supports the X.509 certificates. But in the grid environment, the common credential is the proxy certificate for the purpose of providing restricted proxy and delegation. An Authentication framework was taken for AliEn2 web services to add the ability to accept X.509 certificates and proxy certificates from client-side to Apache Web Server. The authentication framework could also allow the generation of access control policies to limit access to the AliEn2 web services.

  1. Web-based visualization services for the Geosciences

    NASA Astrophysics Data System (ADS)

    Erlebacher, G.; Yuen, D. A.

    2002-12-01

    The size of geophysical datasets keeps increasing without apparent end in sight, collaboration between researchers of disciplines is on the rise, and their primary institutions are often geographically dispersed. As a consequence it is very important to develop tools that ease collaborative efforts. Our aim is to provide services that allow researchers with access to a web browser to perform data analysis and visualization tasks from anywhere at anytime. We present several web services related to visualization, meant to be eventually integrated into the portal work developed by Geoffrey Fox. We describe herein a remote visualization tool, a video creation tool, and a data querying tool, all accessible from the World Wide Web. We have chosen the package Amira to display our geophysical datasets. A new web-based interface to Amira that allows users to execute existing scripts, create their own scripts interactively, and retrieve images generated by Amira on the server. generated by Amira running on the server This tool allows the user to explore complex datasets without access to high-powered visualization tools. Animations of large-scale geophysical datasets (e.g., mantle convection, earthquake simulation data) are created from a large number of static images combined into an appropriate movie format. We describe a Linux-based video creation tool that allows the user to roam directories, view images, and view/create animations from most web browsers. Visualization programs often run on servers and are not available to clients. We have implemented a tool to video stream the output of OpenGL programs running on a Linux server to a variety of Linux clients, including PDA's across wireless networks. Finally, we describe a Java applet aimed at querying large-scale geophysical datasets. Large datasets reside on the server, and cross sections are downloaded to a client PC or PDA. The applet provides a series of analysis tools to compute histograms over localized spatial

  2. Process model-based atomic service discovery and composition of composite semantic web services using web ontology language for services (OWL-S)

    NASA Astrophysics Data System (ADS)

    Paulraj, D.; Swamynathan, S.; Madhaiyan, M.

    2012-11-01

    Web Service composition has become indispensable as a single web service cannot satisfy complex functional requirements. Composition of services has received much interest to support business-to-business (B2B) or enterprise application integration. An important component of the service composition is the discovery of relevant services. In Semantic Web Services (SWS), service discovery is generally achieved by using service profile of Ontology Web Languages for Services (OWL-S). The profile of the service is a derived and concise description but not a functional part of the service. The information contained in the service profile is sufficient for atomic service discovery, but it is not sufficient for the discovery of composite semantic web services (CSWS). The purpose of this article is two-fold: first to prove that the process model is a better choice than the service profile for service discovery. Second, to facilitate the composition of inter-organisational CSWS by proposing a new composition method which uses process ontology. The proposed service composition approach uses an algorithm which performs a fine grained match at the level of atomic process rather than at the level of the entire service in a composite semantic web service. Many works carried out in this area have proposed solutions only for the composition of atomic services and this article proposes a solution for the composition of composite semantic web services.

  3. Constraint Web Service Composition Based on Discrete Particle Swarm Optimization

    NASA Astrophysics Data System (ADS)

    Fang, Xianwen; Fan, Xiaoqin; Yin, Zhixiang

    Web service composition provides an open, standards-based approach for connecting web services together to create higher-level business processes. The Standards are designed to reduce the complexity required to compose web services, hence reducing time and costs, and increase overall efficiency in businesses. This paper present independent global constrains web service composition optimization methods based on Discrete Particle Swarm Optimization (DPSO) and associate Petri net (APN). Combining with the properties of APN, an efficient DPSO algorithm is presented which is used to search a legal firing sequence in the APN model. Using legal firing sequences of the Petri net makes the service composition locating space based on DPSO shrink greatly. Finally, for comparing our methods with the approximating methods, the simulation experiment is given out. Theoretical analysis and experimental results indicate that this method owns both lower computation cost and higher success ratio of service composition.

  4. ballaxy: web services for structural bioinformatics.

    PubMed

    Hildebrandt, Anna Katharina; Stöckel, Daniel; Fischer, Nina M; de la Garza, Luis; Krüger, Jens; Nickels, Stefan; Röttig, Marc; Schärfe, Charlotta; Schumann, Marcel; Thiel, Philipp; Lenhof, Hans-Peter; Kohlbacher, Oliver; Hildebrandt, Andreas

    2015-01-01

    Web-based workflow systems have gained considerable momentum in sequence-oriented bioinformatics. In structural bioinformatics, however, such systems are still relatively rare; while commercial stand-alone workflow applications are common in the pharmaceutical industry, academic researchers often still rely on command-line scripting to glue individual tools together. In this work, we address the problem of building a web-based system for workflows in structural bioinformatics. For the underlying molecular modelling engine, we opted for the BALL framework because of its extensive and well-tested functionality in the field of structural bioinformatics. The large number of molecular data structures and algorithms implemented in BALL allows for elegant and sophisticated development of new approaches in the field. We hence connected the versatile BALL library and its visualization and editing front end BALLView with the Galaxy workflow framework. The result, which we call ballaxy, enables the user to simply and intuitively create sophisticated pipelines for applications in structure-based computational biology, integrated into a standard tool for molecular modelling.  ballaxy consists of three parts: some minor modifications to the Galaxy system, a collection of tools and an integration into the BALL framework and the BALLView application for molecular modelling. Modifications to Galaxy will be submitted to the Galaxy project, and the BALL and BALLView integrations will be integrated in the next major BALL release. After acceptance of the modifications into the Galaxy project, we will publish all ballaxy tools via the Galaxy toolshed. In the meantime, all three components are available from http://www.ball-project.org/ballaxy. Also, docker images for ballaxy are available at https://registry.hub.docker.com/u/anhi/ballaxy/dockerfile/. ballaxy is licensed under the terms of the GPL. © The Author 2014. Published by Oxford University Press. All rights reserved. For

  5. Region 9 2010 Census Web Service

    EPA Pesticide Factsheets

    This web service displays data collected during the 2010 U.S. Census. The data are organized into layers representing Tract, Block, and Block Group visualizations. Geography The TIGER Line Files are feature classes and related database files that are an extract of selected geographic and cartographic information from the U.S. Census Bureau's Master Address File / Topologically Integrated Geographic Encoding and Referencing (MAF/TIGER) Database (MTDB). The MTDB represents a seamless national file with no overlaps or gaps between parts, however, each TIGER Line File is designed to stand alone as an independent data set, or they can be combined to cover the entire nation. Census tracts are small, relatively permanent statistical subdivisions of a county or equivalent entity, and were defined by local participants as part of the 2010 Census Participant Statistical Areas Program. The Census Bureau delineated the census tracts in situations where no local participant existed or where all the potential participants declined to participate. The primary purpose of census tracts is to provide a stable set of geographic units for the presentation of census data and comparison back to previous decennial censuses. Census tracts generally have a population size between 1,200 and 8,000 people, with an optimum size of 4,000 people. When first delineated, census tracts were designed to be homogeneous with respect to population characteristics, economic status

  6. Web Service Reputation Evaluation Based on QoS Measurement

    PubMed Central

    Zhang, Haiteng; Shao, Zhiqing; Zheng, Hong; Zhai, Jie

    2014-01-01

    In the early service transactions, quality of service (QoS) information was published by service provider which was not always true and credible. For better verification the trust of the QoS information was provided by the Web service. In this paper, the factual QoS running data are collected by our WS-QoS measurement tool; based on these objectivity data, an algorithm compares the difference of the offered and measured quality data of the service and gives the similarity, and then a reputation evaluation method computes the reputation level of the Web service based on the similarity. The initial implementation and experiment with three Web services' example show that this approach is feasible and these values can act as the references for subsequent consumers to select the service. PMID:24977194

  7. Web service reputation evaluation based on QoS measurement.

    PubMed

    Zhang, Haiteng; Shao, Zhiqing; Zheng, Hong; Zhai, Jie

    2014-01-01

    In the early service transactions, quality of service (QoS) information was published by service provider which was not always true and credible. For better verification the trust of the QoS information was provided by the Web service. In this paper, the factual QoS running data are collected by our WS-QoS measurement tool; based on these objectivity data, an algorithm compares the difference of the offered and measured quality data of the service and gives the similarity, and then a reputation evaluation method computes the reputation level of the Web service based on the similarity. The initial implementation and experiment with three Web services' example show that this approach is feasible and these values can act as the references for subsequent consumers to select the service.

  8. Processing biological literature with customizable Web services supporting interoperable formats

    PubMed Central

    Rak, Rafal; Batista-Navarro, Riza Theresa; Carter, Jacob; Rowley, Andrew; Ananiadou, Sophia

    2014-01-01

    Web services have become a popular means of interconnecting solutions for processing a body of scientific literature. This has fuelled research on high-level data exchange formats suitable for a given domain and ensuring the interoperability of Web services. In this article, we focus on the biological domain and consider four interoperability formats, BioC, BioNLP, XMI and RDF, that represent domain-specific and generic representations and include well-established as well as emerging specifications. We use the formats in the context of customizable Web services created in our Web-based, text-mining workbench Argo that features an ever-growing library of elementary analytics and capabilities to build and deploy Web services straight from a convenient graphical user interface. We demonstrate a 2-fold customization of Web services: by building task-specific processing pipelines from a repository of available analytics, and by configuring services to accept and produce a combination of input and output data interchange formats. We provide qualitative evaluation of the formats as well as quantitative evaluation of automatic analytics. The latter was carried out as part of our participation in the fourth edition of the BioCreative challenge. Our analytics built into Web services for recognizing biochemical concepts in BioC collections achieved the highest combined scores out of 10 participating teams. Database URL: http://argo.nactem.ac.uk. PMID:25006225

  9. Processing biological literature with customizable Web services supporting interoperable formats.

    PubMed

    Rak, Rafal; Batista-Navarro, Riza Theresa; Carter, Jacob; Rowley, Andrew; Ananiadou, Sophia

    2014-01-01

    Web services have become a popular means of interconnecting solutions for processing a body of scientific literature. This has fuelled research on high-level data exchange formats suitable for a given domain and ensuring the interoperability of Web services. In this article, we focus on the biological domain and consider four interoperability formats, BioC, BioNLP, XMI and RDF, that represent domain-specific and generic representations and include well-established as well as emerging specifications. We use the formats in the context of customizable Web services created in our Web-based, text-mining workbench Argo that features an ever-growing library of elementary analytics and capabilities to build and deploy Web services straight from a convenient graphical user interface. We demonstrate a 2-fold customization of Web services: by building task-specific processing pipelines from a repository of available analytics, and by configuring services to accept and produce a combination of input and output data interchange formats. We provide qualitative evaluation of the formats as well as quantitative evaluation of automatic analytics. The latter was carried out as part of our participation in the fourth edition of the BioCreative challenge. Our analytics built into Web services for recognizing biochemical concepts in BioC collections achieved the highest combined scores out of 10 participating teams. Database URL: http://argo.nactem.ac.uk.

  10. The impact of web services at the IRIS DMC

    NASA Astrophysics Data System (ADS)

    Weekly, R. T.; Trabant, C. M.; Ahern, T. K.; Stults, M.; Suleiman, Y. Y.; Van Fossen, M.; Weertman, B.

    2015-12-01

    The IRIS Data Management Center (DMC) has served the seismological community for nearly 25 years. In that time we have offered data and information from our archive using a variety of mechanisms ranging from email-based to desktop applications to web applications and web services. Of these, web services have quickly become the primary method for data extraction at the DMC. In 2011, the first full year of operation, web services accounted for over 40% of the data shipped from the DMC. In 2014, over ~450 TB of data was delivered directly to users through web services, representing nearly 70% of all shipments from the DMC that year. In addition to handling requests directly from users, the DMC switched all data extraction methods to use web services in 2014. On average the DMC now handles between 10 and 20 million requests per day submitted to web service interfaces. The rapid adoption of web services is attributed to the many advantages they bring. For users, they provide on-demand data using an interface technology, HTTP, that is widely supported in nearly every computing environment and language. These characteristics, combined with human-readable documentation and existing tools make integration of data access into existing workflows relatively easy. For the DMC, the web services provide an abstraction layer to internal repositories allowing for concentrated optimization of extraction workflow and easier evolution of those repositories. Lending further support to DMC's push in this direction, the core web services for station metadata, timeseries data and event parameters were adopted as standards by the International Federation of Digital Seismograph Networks (FDSN). We expect to continue enhancing existing services and building new capabilities for this platform. For example, the DMC has created a federation system and tools allowing researchers to discover and collect seismic data from data centers running the FDSN-standardized services. A future capability

  11. Storage Viability and Optimization Web Service

    SciTech Connect

    Stadler, Michael; Marnay, Christ; Lai, Judy; Siddiqui, Afzal; Limpaitoon, Tanachai; Phan, Trucy; Megel, Olivier; Chang, Jessica; DeForest, Nicholas

    2010-10-11

    Non-residential sectors offer many promising applications for electrical storage (batteries) and photovoltaics (PVs). However, choosing and operating storage under complex tariff structures poses a daunting technical and economic problem that may discourage potential customers and result in lost carbon and economic savings. Equipment vendors are unlikely to provide adequate environmental analysis or unbiased economic results to potential clients, and are even less likely to completely describe the robustness of choices in the face of changing fuel prices and tariffs. Given these considerations, researchers at Lawrence Berkeley National Laboratory (LBNL) have designed the Storage Viability and Optimization Web Service (SVOW): a tool that helps building owners, operators and managers to decide if storage technologies and PVs merit deeper analysis. SVOW is an open access, web-based energy storage and PV analysis calculator, accessible by secure remote login. Upon first login, the user sees an overview of the parameters: load profile, tariff, technologies, and solar radiation location. Each parameter has a pull-down list of possible predefined inputs and users may upload their own as necessary. Since the non-residential sectors encompass a broad range of facilities with fundamentally different characteristics, the tool starts by asking the users to select a load profile from a limited cohort group of example facilities. The example facilities are categorized according to their North American Industry Classification System (NAICS) code. After the load profile selection, users select a predefined tariff or use the widget to create their own. The technologies and solar radiation menus operate in a similar fashion. After these four parameters have been inputted, the users have to select an optimization setting as well as an optimization objective. The analytic engine of SVOW is LBNL?s Distributed Energy Resources Customer Adoption Model (DER-CAM), which is a mixed

  12. Mining biological pathways using WikiPathways web services.

    PubMed

    Kelder, Thomas; Pico, Alexander R; Hanspers, Kristina; van Iersel, Martijn P; Evelo, Chris; Conklin, Bruce R

    2009-07-30

    WikiPathways is a platform for creating, updating, and sharing biological pathways [1]. Pathways can be edited and downloaded using the wiki-style website. Here we present a SOAP web service that provides programmatic access to WikiPathways that is complementary to the website. We describe the functionality that this web service offers and discuss several use cases in detail. Exposing WikiPathways through a web service opens up new ways of utilizing pathway information and assisting the community curation process.

  13. Large orb-webs adapted to maximise total biomass not rare, large prey

    PubMed Central

    Harmer, Aaron M. T.; Clausen, Philip D.; Wroe, Stephen; Madin, Joshua S.

    2015-01-01

    Spider orb-webs are the ultimate anti-ballistic devices, capable of dissipating the relatively massive kinetic energy of flying prey. Increased web size and prey stopping capacity have co-evolved in a number orb-web taxa, but the selective forces driving web size and performance increases are under debate. The rare, large prey hypothesis maintains that the energetic benefits of rare, very large prey are so much greater than the gains from smaller, more common prey that smaller prey are irrelevant for reproduction. Here, we integrate biophysical and ecological data and models to test a major prediction of the rare, large prey hypothesis, that selection should favour webs with increased stopping capacity and that large prey should comprise a significant proportion of prey stopped by a web. We find that larger webs indeed have a greater capacity to stop large prey. However, based on prey ecology, we also find that these large prey make up a tiny fraction of the total biomass (=energy) potentially captured. We conclude that large webs are adapted to stop more total biomass, and that the capacity to stop rare, but very large, prey is an incidental consequence of the longer radial silks that scale with web size. PMID:26374379

  14. Large orb-webs adapted to maximise total biomass not rare, large prey.

    PubMed

    Harmer, Aaron M T; Clausen, Philip D; Wroe, Stephen; Madin, Joshua S

    2015-09-16

    Spider orb-webs are the ultimate anti-ballistic devices, capable of dissipating the relatively massive kinetic energy of flying prey. Increased web size and prey stopping capacity have co-evolved in a number orb-web taxa, but the selective forces driving web size and performance increases are under debate. The rare, large prey hypothesis maintains that the energetic benefits of rare, very large prey are so much greater than the gains from smaller, more common prey that smaller prey are irrelevant for reproduction. Here, we integrate biophysical and ecological data and models to test a major prediction of the rare, large prey hypothesis, that selection should favour webs with increased stopping capacity and that large prey should comprise a significant proportion of prey stopped by a web. We find that larger webs indeed have a greater capacity to stop large prey. However, based on prey ecology, we also find that these large prey make up a tiny fraction of the total biomass (=energy) potentially captured. We conclude that large webs are adapted to stop more total biomass, and that the capacity to stop rare, but very large, prey is an incidental consequence of the longer radial silks that scale with web size.

  15. Going, Going, Still There: Using the WebCite Service to Permanently Archive Cited Web Pages

    PubMed Central

    Trudel, Mathieu

    2005-01-01

    Scholars are increasingly citing electronic “web references” which are not preserved in libraries or full text archives. WebCite is a new standard for citing web references. To “webcite” a document involves archiving the cited Web page through www.webcitation.org and citing the WebCite permalink instead of (or in addition to) the unstable live Web page. This journal has amended its “instructions for authors” accordingly, asking authors to archive cited Web pages before submitting a manuscript. Almost 200 other journals are already using the system. We discuss the rationale for WebCite, its technology, and how scholars, editors, and publishers can benefit from the service. Citing scholars initiate an archiving process of all cited Web references, ideally before they submit a manuscript. Authors of online documents and websites which are expected to be cited by others can ensure that their work is permanently available by creating an archived copy using WebCite and providing the citation information including the WebCite link on their Web document(s). Editors should ask their authors to cache all cited Web addresses (Uniform Resource Locators, or URLs) “prospectively” before submitting their manuscripts to their journal. Editors and publishers should also instruct their copyeditors to cache cited Web material if the author has not done so already. Finally, WebCite can process publisher submitted “citing articles” (submitted for example as eXtensible Markup Language [XML] documents) to automatically archive all cited Web pages shortly before or on publication. Finally, WebCite can act as a focussed crawler, caching retrospectively references of already published articles. Copyright issues are addressed by honouring respective Internet standards (robot exclusion files, no-cache and no-archive tags). Long-term preservation is ensured by agreements with libraries and digital preservation organizations. The resulting WebCite Index may also have

  16. Going, going, still there: using the WebCite service to permanently archive cited web pages.

    PubMed

    Eysenbach, Gunther; Trudel, Mathieu

    2005-12-30

    Scholars are increasingly citing electronic "web references" which are not preserved in libraries or full text archives. WebCite is a new standard for citing web references. To "webcite" a document involves archiving the cited Web page through www.webcitation.org and citing the WebCite permalink instead of (or in addition to) the unstable live Web page. This journal has amended its "instructions for authors" accordingly, asking authors to archive cited Web pages before submitting a manuscript. Almost 200 other journals are already using the system. We discuss the rationale for WebCite, its technology, and how scholars, editors, and publishers can benefit from the service. Citing scholars initiate an archiving process of all cited Web references, ideally before they submit a manuscript. Authors of online documents and websites which are expected to be cited by others can ensure that their work is permanently available by creating an archived copy using WebCite and providing the citation information including the WebCite link on their Web document(s). Editors should ask their authors to cache all cited Web addresses (Uniform Resource Locators, or URLs) "prospectively" before submitting their manuscripts to their journal. Editors and publishers should also instruct their copyeditors to cache cited Web material if the author has not done so already. Finally, WebCite can process publisher submitted "citing articles" (submitted for example as eXtensible Markup Language [XML] documents) to automatically archive all cited Web pages shortly before or on publication. Finally, WebCite can act as a focussed crawler, caching retrospectively references of already published articles. Copyright issues are addressed by honouring respective Internet standards (robot exclusion files, no-cache and no-archive tags). Long-term preservation is ensured by agreements with libraries and digital preservation organizations. The resulting WebCite Index may also have applications for research

  17. A Web Service and Interface for Remote Electronic Device Characterization

    ERIC Educational Resources Information Center

    Dutta, S.; Prakash, S.; Estrada, D.; Pop, E.

    2011-01-01

    A lightweight Web Service and a Web site interface have been developed, which enable remote measurements of electronic devices as a "virtual laboratory" for undergraduate engineering classes. Using standard browsers without additional plugins (such as Internet Explorer, Firefox, or even Safari on an iPhone), remote users can control a Keithley…

  18. A Web Service and Interface for Remote Electronic Device Characterization

    ERIC Educational Resources Information Center

    Dutta, S.; Prakash, S.; Estrada, D.; Pop, E.

    2011-01-01

    A lightweight Web Service and a Web site interface have been developed, which enable remote measurements of electronic devices as a "virtual laboratory" for undergraduate engineering classes. Using standard browsers without additional plugins (such as Internet Explorer, Firefox, or even Safari on an iPhone), remote users can control a Keithley…

  19. Service Learning and Building Community with the World Wide Web

    ERIC Educational Resources Information Center

    Longan, Michael W.

    2007-01-01

    The geography education literature touts the World Wide Web (Web) as a revolutionary educational tool, yet most accounts ignore its uses for public communication and creative expression. This article argues that students can be producers of content that is of service to local audiences. Drawing inspiration from the community networking movement,…

  20. Use and Evaluation of Web-Based Professional Development Services across Participant Levels of Support

    ERIC Educational Resources Information Center

    Whitaker, Steve; Kinzie, Mable; Kraft-Sayre, Marcia E.; Mashburn, Andrew; Pianta, Robert C.

    2007-01-01

    When participating in a large-scale, web-based professional development program, to what degree do teachers participate? How useful do they find the program? To what degree do they feel supported in their efforts? What are the associations between participation, evaluation of services, and the level of service teachers receive? MyTeachingPartner…

  1. Food-web dynamics in a large river discontinuum

    USGS Publications Warehouse

    Cross, Wyatt F.; Baxter, Colden V.; Rosi-Marshall, Emma J.; Hall, Robert O.; Kennedy, Theodore A.; Donner, Kevin C.; Kelly, Holly A. Wellard; Seegert, Sarah E.Z.; Behn, Kathrine E.; Yard, Michael D.

    2013-01-01

    Nearly all ecosystems have been altered by human activities, and most communities are now composed of interacting species that have not co-evolved. These changes may modify species interactions, energy and material flows, and food-web stability. Although structural changes to ecosystems have been widely reported, few studies have linked such changes to dynamic food-web attributes and patterns of energy flow. Moreover, there have been few tests of food-web stability theory in highly disturbed and intensely managed freshwater ecosystems. Such synthetic approaches are needed for predicting the future trajectory of ecosystems, including how they may respond to natural or anthropogenic perturbations. We constructed flow food webs at six locations along a 386-km segment of the Colorado River in Grand Canyon (Arizona, USA) for three years. We characterized food-web structure and production, trophic basis of production, energy efficiencies, and interaction-strength distributions across a spatial gradient of perturbation (i.e., distance from Glen Canyon Dam), as well as before and after an experimental flood. We found strong longitudinal patterns in food-web characteristics that strongly correlated with the spatial position of large tributaries. Above tributaries, food webs were dominated by nonnative New Zealand mudsnails (62% of production) and nonnative rainbow trout (100% of fish production). The simple structure of these food webs led to few dominant energy pathways (diatoms to few invertebrate taxa to rainbow trout), large energy inefficiencies (i.e., Below large tributaries, invertebrate production declined ∼18-fold, while fish production remained similar to upstream sites and comprised predominately native taxa (80–100% of production). Sites below large tributaries had increasingly reticulate and detritus-based food webs with a higher prevalence of omnivory, as well as interaction strength distributions more typical of theoretically stable food webs (i

  2. WIWS: a protein structure bioinformatics Web service collection

    PubMed Central

    Hekkelman, M. L.; te Beek, T. A. H.; Pettifer, S. R.; Thorne, D.; Attwood, T. K.; Vriend, G.

    2010-01-01

    The WHAT IF molecular-modelling and drug design program is widely distributed in the world of protein structure bioinformatics. Although originally designed as an interactive application, its highly modular design and inbuilt control language have recently enabled its deployment as a collection of programmatically accessible web services. We report here a collection of WHAT IF-based protein structure bioinformatics web services: these relate to structure quality, the use of symmetry in crystal structures, structure correction and optimization, adding hydrogens and optimizing hydrogen bonds and a series of geometric calculations. The freely accessible web services are based on the industry standard WS-I profile and the EMBRACE technical guidelines, and are available via both REST and SOAP paradigms. The web services run on a dedicated computational cluster; their function and availability is monitored daily. PMID:20501602

  3. Chapter 18: Web-based Tools - NED VO Services

    NASA Astrophysics Data System (ADS)

    Mazzarella, J. M.; NED Team

    The NASA/IPAC Extragalactic Database (NED) is a thematic, web-based research facility in widespread use by scientists, educators, space missions, and observatory operations for observation planning, data analysis, discovery, and publication of research about objects beyond our Milky Way galaxy. NED is a portal into a systematic fusion of data from hundreds of sky surveys and tens of thousands of research publications. The contents and services span the entire electromagnetic spectrum from gamma rays through radio frequencies, and are continuously updated to reflect the current literature and releases of large-scale sky survey catalogs. NED has been on the Internet since 1990, growing in content, automation and services with the evolution of information technology. NED is the world's largest database of crossidentified extragalactic objects. As of December 2006, the system contains approximately 10 million objects and 15 million multi-wavelength cross-IDs. Over 4 thousand catalogs and published lists covering the entire electromagnetic spectrum have had their objects cross-identified or associated, with fundamental data parameters federated for convenient queries and retrieval. This chapter describes the interoperability of NED services with other components of the Virtual Observatory (VO). Section 1 is a brief overview of the primary NED web services. Section 2 provides a tutorial for using NED services currently available through the NVO Registry. The "name resolver" provides VO portals and related internet services with celestial coordinates for objects specified by catalog identifier (name); any alias can be queried because this service is based on the source cross-IDs established by NED. All major services have been updated to provide output in VOTable (XML) format that can be accessed directly from the NED web interface or using the NVO registry. These include access to images via SIAP, Cone- Search queries, and services providing fundamental, multi

  4. SSWAP: A Simple Semantic Web Architecture and Protocol for Semantic Web Services

    USDA-ARS?s Scientific Manuscript database

    SSWAP (Simple Semantic Web Architecture and Protocol) is an architecture, protocol, and platform for using reasoning to semantically integrate heterogeneous disparate data and services on the web. SSWAP is the driving technology behind the Virtual Plant Information Network, an NSF-funded semantic w...

  5. WS/PIDS: standard interoperable PIDS in web services environments.

    PubMed

    Vasilescu, E; Dorobanţu, M; Govoni, S; Padh, S; Mun, S K

    2008-01-01

    An electronic health record depends on the consistent handling of people's identities within and outside healthcare organizations. Currently, the Person Identification Service (PIDS), a CORBA specification, is the only well-researched standard that meets these needs. In this paper, we introduce WS/PIDS, a PIDS specification for Web Services (WS) that closely matches the original PIDS and improves on it by providing explicit support for medical multimedia attributes. WS/PIDS is currently supported by a test implementation, layered on top of a PIDS back-end, with Java- and NET-based, and Web clients. WS/PIDS is interoperable among platforms; it preserves PIDS semantics to a large extent, and it is intended to be fully compliant with established and emerging WS standards. The specification is open source and immediately usable in dynamic clinical systems participating in grid environments. WS/PIDS has been tested successfully with a comprehensive set of use cases, and it is being used in a clinical research setting.

  6. A Security Architecture for Grid-enabling OGC Web Services

    NASA Astrophysics Data System (ADS)

    Angelini, Valerio; Petronzio, Luca

    2010-05-01

    In the proposed presentation we describe an architectural solution for enabling a secure access to Grids and possibly other large scale on-demand processing infrastructures through OGC (Open Geospatial Consortium) Web Services (OWS). This work has been carried out in the context of the security thread of the G-OWS Working Group. G-OWS (gLite enablement of OGC Web Services) is an international open initiative started in 2008 by the European CYCLOPS , GENESI-DR, and DORII Project Consortia in order to collect/coordinate experiences in the enablement of OWS's on top of the gLite Grid middleware. G-OWS investigates the problem of the development of Spatial Data and Information Infrastructures (SDI and SII) based on the Grid/Cloud capacity in order to enable Earth Science applications and tools. Concerning security issues, the integration of OWS compliant infrastructures and gLite Grids needs to address relevant challenges, due to their respective design principles. In fact OWS's are part of a Web based architecture that demands security aspects to other specifications, whereas the gLite middleware implements the Grid paradigm with a strong security model (the gLite Grid Security Infrastructure: GSI). In our work we propose a Security Architectural Framework allowing the seamless use of Grid-enabled OGC Web Services through the federation of existing security systems (mostly web based) with the gLite GSI. This is made possible mediating between different security realms, whose mutual trust is established in advance during the deployment of the system itself. Our architecture is composed of three different security tiers: the user's security system, a specific G-OWS security system, and the gLite Grid Security Infrastructure. Applying the separation-of-concerns principle, each of these tiers is responsible for controlling the access to a well-defined resource set, respectively: the user's organization resources, the geospatial resources and services, and the Grid

  7. The HNODC Management System: A Geospatial Web Services Application

    NASA Astrophysics Data System (ADS)

    Iona, S.; Lykiardopoulos, A.; Lakes, V.; Balopoulou, S.; Karagevrekis, P.; Batis, A.

    2009-04-01

    During the past fifteen years the Hellenic National Oceanographic Data Centre (HNODC) through its participation in several national and international projects has obtained a large archive of more than 300.000 observational in-situ stations of physical, chemical and biological parameters. For the efficient management and exploitation of these data a multidisciplinary oceanographic database has been developed using a relational database management system. All the information related to the data such as oceanographic cruises (ROSCOP), descriptions of environmental datasets (EDMED) and descriptions of monitoring systems (EDIOS) are also organized in relational databases compliant with internationally established standards for metadata and common vocabularies for data exchange as these are developed in the framework of the SeaDataNet Project (http://www.seadatanet.org). Both raw data and metadata are subjected to quality controls checks in conformity to ICES, IOC and EU recommendations. By exploiting the increasing capabilities of the Geospatial Web Services, HNODC has built a new integrated management system that follows the basic concepts of a Service Oriented Architecture (SOA). The main advantages of the new system are: a) inherit interoperability between data centers and data providers and this is an already ongoing implementation within SeaDataNet Project, b) interchange and combination of data sets with minimum programming efforts offering the capability of integration between oceanographic and other geospatial data (eg. land observations, satellite data, land networks, etc), c) production of comprehensive and self explained new data products combing various and diverse data sources and in the future version, WPS Services will be available in order to produce on demand "on-line" data products, and d) capability for end users to navigate through a wide range of information. The new system web interface is available at the address: http://hnodc.hcmr.gr/services.html.

  8. Provenance-Based Approaches to Semantic Web Service Discovery and Usage

    ERIC Educational Resources Information Center

    Narock, Thomas William

    2012-01-01

    The World Wide Web Consortium defines a Web Service as "a software system designed to support interoperable machine-to-machine interaction over a network." Web Services have become increasingly important both within and across organizational boundaries. With the recent advent of the Semantic Web, web services have evolved into semantic…

  9. Provenance-Based Approaches to Semantic Web Service Discovery and Usage

    ERIC Educational Resources Information Center

    Narock, Thomas William

    2012-01-01

    The World Wide Web Consortium defines a Web Service as "a software system designed to support interoperable machine-to-machine interaction over a network." Web Services have become increasingly important both within and across organizational boundaries. With the recent advent of the Semantic Web, web services have evolved into semantic…

  10. Reinforcement Learning Based Web Service Compositions for Mobile Business

    NASA Astrophysics Data System (ADS)

    Zhou, Juan; Chen, Shouming

    In this paper, we propose a new solution to Reactive Web Service Composition, via molding with Reinforcement Learning, and introducing modified (alterable) QoS variables into the model as elements in the Markov Decision Process tuple. Moreover, we give an example of Reactive-WSC-based mobile banking, to demonstrate the intrinsic capability of the solution in question of obtaining the optimized service composition, characterized by (alterable) target QoS variable sets with optimized values. Consequently, we come to the conclusion that the solution has decent potentials in boosting customer experiences and qualities of services in Web Services, and those in applications in the whole electronic commerce and business sector.

  11. Business Systems Branch Abilities, Capabilities, and Services Web Page

    NASA Technical Reports Server (NTRS)

    Cortes-Pena, Aida Yoguely

    2009-01-01

    During the INSPIRE summer internship I acted as the Business Systems Branch Capability Owner for the Kennedy Web-based Initiative for Communicating Capabilities System (KWICC), with the responsibility of creating a portal that describes the services provided by this Branch. This project will help others achieve a clear view ofthe services that the Business System Branch provides to NASA and the Kennedy Space Center. After collecting the data through the interviews with subject matter experts and the literature in Business World and other web sites I identified discrepancies, made the necessary corrections to the sites and placed the information from the report into the KWICC web page.

  12. Some Programs Should Not Run on Laptops - Providing Programmatic Access to Applications Via Web Services

    NASA Astrophysics Data System (ADS)

    Gupta, V.; Gupta, N.; Gupta, S.; Field, E.; Maechling, P.

    2003-12-01

    Modern laptop computers, and personal computers, can provide capabilities that are, in many ways, comparable to workstations or departmental servers. However, this doesn't mean we should run all computations on our local computers. We have identified several situations in which it preferable to implement our seismological application programs in a distributed, server-based, computing model. In this model, application programs on the user's laptop, or local computer, invoke programs that run on an organizational server, and the results are returned to the invoking system. Situations in which a server-based architecture may be preferred include: (a) a program is written in a language, or written for an operating environment, that is unsupported on the local computer, (b) software libraries or utilities required to execute a program are not available on the users computer, (c) a computational program is physically too large, or computationally too expensive, to run on a users computer, (d) a user community wants to enforce a consistent method of performing a computation by standardizing on a single implementation of a program, and (e) the computational program may require current information, that is not available to all client computers. Until recently, distributed, server-based, computational capabilities were implemented using client/server architectures. In these architectures, client programs were often written in the same language, and they executed in the same computing environment, as the servers. Recently, a new distributed computational model, called Web Services, has been developed. Web Services are based on Internet standards such as XML, SOAP, WDSL, and UDDI. Web Services offer the promise of platform, and language, independent distributed computing. To investigate this new computational model, and to provide useful services to the SCEC Community, we have implemented several computational and utility programs using a Web Service architecture. We have

  13. WebViz:A Web-based Collaborative Interactive Visualization System for large-Scale Data Sets

    NASA Astrophysics Data System (ADS)

    Yuen, D. A.; McArthur, E.; Weiss, R. M.; Zhou, J.; Yao, B.

    2010-12-01

    WebViz is a web-based application designed to conduct collaborative, interactive visualizations of large data sets for multiple users, allowing researchers situated all over the world to utilize the visualization services offered by the University of Minnesota’s Laboratory for Computational Sciences and Engineering (LCSE). This ongoing project has been built upon over the last 3 1/2 years .The motivation behind WebViz lies primarily with the need to parse through an increasing amount of data produced by the scientific community as a result of larger and faster multicore and massively parallel computers coming to the market, including the use of general purpose GPU computing. WebViz allows these large data sets to be visualized online by anyone with an account. The application allows users to save time and resources by visualizing data ‘on the fly’, wherever he or she may be located. By leveraging AJAX via the Google Web Toolkit (http://code.google.com/webtoolkit/), we are able to provide users with a remote, web portal to LCSE's (http://www.lcse.umn.edu) large-scale interactive visualization system already in place at the University of Minnesota. LCSE’s custom hierarchical volume rendering software provides high resolution visualizations on the order of 15 million pixels and has been employed for visualizing data primarily from simulations in astrophysics to geophysical fluid dynamics . In the current version of WebViz, we have implemented a highly extensible back-end framework built around HTTP "server push" technology. The web application is accessible via a variety of devices including netbooks, iPhones, and other web and javascript-enabled cell phones. Features in the current version include the ability for users to (1) securely login (2) launch multiple visualizations (3) conduct collaborative visualization sessions (4) delegate control aspects of a visualization to others and (5) engage in collaborative chats with other users within the user interface

  14. A SOAP Web Service for accessing MODIS land product subsets

    SciTech Connect

    SanthanaVannan, Suresh K; Cook, Robert B; Pan, Jerry Yun; Wilson, Bruce E

    2011-01-01

    Remote sensing data from satellites have provided valuable information on the state of the earth for several decades. Since March 2000, the Moderate Resolution Imaging Spectroradiometer (MODIS) sensor on board NASA s Terra and Aqua satellites have been providing estimates of several land parameters useful in understanding earth system processes at global, continental, and regional scales. However, the HDF-EOS file format, specialized software needed to process the HDF-EOS files, data volume, and the high spatial and temporal resolution of MODIS data make it difficult for users wanting to extract small but valuable amounts of information from the MODIS record. To overcome this usability issue, the NASA-funded Distributed Active Archive Center (DAAC) for Biogeochemical Dynamics at Oak Ridge National Laboratory (ORNL) developed a Web service that provides subsets of MODIS land products using Simple Object Access Protocol (SOAP). The ORNL DAAC MODIS subsetting Web service is a unique way of serving satellite data that exploits a fairly established and popular Internet protocol to allow users access to massive amounts of remote sensing data. The Web service provides MODIS land product subsets up to 201 x 201 km in a non-proprietary comma delimited text file format. Users can programmatically query the Web service to extract MODIS land parameters for real time data integration into models, decision support tools or connect to workflow software. Information regarding the MODIS SOAP subsetting Web service is available on the World Wide Web (WWW) at http://daac.ornl.gov/modiswebservice.

  15. BioServices: a common Python package to access biological Web Services programmatically.

    PubMed

    Cokelaer, Thomas; Pultz, Dennis; Harder, Lea M; Serra-Musach, Jordi; Saez-Rodriguez, Julio

    2013-12-15

    Web interfaces provide access to numerous biological databases. Many can be accessed to in a programmatic way thanks to Web Services. Building applications that combine several of them would benefit from a single framework. BioServices is a comprehensive Python framework that provides programmatic access to major bioinformatics Web Services (e.g. KEGG, UniProt, BioModels, ChEMBLdb). Wrapping additional Web Services based either on Representational State Transfer or Simple Object Access Protocol/Web Services Description Language technologies is eased by the usage of object-oriented programming. BioServices releases and documentation are available at http://pypi.python.org/pypi/bioservices under a GPL-v3 license.

  16. 78 FR 42537 - Agency Information Collection Activities: Online Survey of Web Services Employers; New...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-07-16

    ... of Web Services Employers; New Information Collection; Comment Request ACTION: 60-Day Notice. The... information collection. (2) Title of the Form/Collection: Online Survey of Web Services Employers. (3) Agency... obtains data on the E-Verify Program Web Services. Gaining an understanding of the Web Services process...

  17. geoknife: Reproducible web-processing of large gridded datasets

    USGS Publications Warehouse

    Read, Jordan S.; Walker, Jordan I.; Appling, Alison P.; Blodgett, David L.; Read, Emily K.; Winslow, Luke A.

    2016-01-01

    Geoprocessing of large gridded data according to overlap with irregular landscape features is common to many large-scale ecological analyses. The geoknife R package was created to facilitate reproducible analyses of gridded datasets found on the U.S. Geological Survey Geo Data Portal web application or elsewhere, using a web-enabled workflow that eliminates the need to download and store large datasets that are reliably hosted on the Internet. The package provides access to several data subset and summarization algorithms that are available on remote web processing servers. Outputs from geoknife include spatial and temporal data subsets, spatially-averaged time series values filtered by user-specified areas of interest, and categorical coverage fractions for various land-use types.

  18. Web Services Provide Access to SCEC Scientific Research Application Software

    NASA Astrophysics Data System (ADS)

    Gupta, N.; Gupta, V.; Okaya, D.; Kamb, L.; Maechling, P.

    2003-12-01

    Web services offer scientific communities a new paradigm for sharing research codes and communicating results. While there are formal technical definitions of what constitutes a web service, for a user community such as the Southern California Earthquake Center (SCEC), we may conceptually consider a web service to be functionality provided on-demand by an application which is run on a remote computer located elsewhere on the Internet. The value of a web service is that it can (1) run a scientific code without the user needing to install and learn the intricacies of running the code; (2) provide the technical framework which allows a user's computer to talk to the remote computer which performs the service; (3) provide the computational resources to run the code; and (4) bundle several analysis steps and provide the end results in digital or (post-processed) graphical form. Within an NSF-sponsored ITR project coordinated by SCEC, we are constructing web services using architectural protocols and programming languages (e.g., Java). However, because the SCEC community has a rich pool of scientific research software (written in traditional languages such as C and FORTRAN), we also emphasize making existing scientific codes available by constructing web service frameworks which wrap around and directly run these codes. In doing so we attempt to broaden community usage of these codes. Web service wrapping of a scientific code can be done using a "web servlet" construction or by using a SOAP/WSDL-based framework. This latter approach is widely adopted in IT circles although it is subject to rapid evolution. Our wrapping framework attempts to "honor" the original codes with as little modification as is possible. For versatility we identify three methods of user access: (A) a web-based GUI (written in HTML and/or Java applets); (B) a Linux/OSX/UNIX command line "initiator" utility (shell-scriptable); and (C) direct access from within any Java application (and with the

  19. Integrating geo web services for a user driven exploratory analysis

    NASA Astrophysics Data System (ADS)

    Moncrieff, Simon; Turdukulov, Ulanbek; Gulland, Elizabeth-Kate

    2016-04-01

    In data exploration, several online data sources may need to be dynamically aggregated or summarised over spatial region, time interval, or set of attributes. With respect to thematic data, web services are mainly used to present results leading to a supplier driven service model limiting the exploration of the data. In this paper we propose a user need driven service model based on geo web processing services. The aim of the framework is to provide a method for the scalable and interactive access to various geographic data sources on the web. The architecture combines a data query, processing technique and visualisation methodology to rapidly integrate and visually summarise properties of a dataset. We illustrate the environment on a health related use case that derives Age Standardised Rate - a dynamic index that needs integration of the existing interoperable web services of demographic data in conjunction with standalone non-spatial secure database servers used in health research. Although the example is specific to the health field, the architecture and the proposed approach are relevant and applicable to other fields that require integration and visualisation of geo datasets from various web services and thus, we believe is generic in its approach.

  20. SSWAP: A Simple Semantic Web Architecture and Protocol for semantic web services

    PubMed Central

    Gessler, Damian DG; Schiltz, Gary S; May, Greg D; Avraham, Shulamit; Town, Christopher D; Grant, David; Nelson, Rex T

    2009-01-01

    Background SSWAP (Simple Semantic Web Architecture and Protocol; pronounced "swap") is an architecture, protocol, and platform for using reasoning to semantically integrate heterogeneous disparate data and services on the web. SSWAP was developed as a hybrid semantic web services technology to overcome limitations found in both pure web service technologies and pure semantic web technologies. Results There are currently over 2400 resources published in SSWAP. Approximately two dozen are custom-written services for QTL (Quantitative Trait Loci) and mapping data for legumes and grasses (grains). The remaining are wrappers to Nucleic Acids Research Database and Web Server entries. As an architecture, SSWAP establishes how clients (users of data, services, and ontologies), providers (suppliers of data, services, and ontologies), and discovery servers (semantic search engines) interact to allow for the description, querying, discovery, invocation, and response of semantic web services. As a protocol, SSWAP provides the vocabulary and semantics to allow clients, providers, and discovery servers to engage in semantic web services. The protocol is based on the W3C-sanctioned first-order description logic language OWL DL. As an open source platform, a discovery server running at (as in to "swap info") uses the description logic reasoner Pellet to integrate semantic resources. The platform hosts an interactive guide to the protocol at , developer tools at , and a portal to third-party ontologies at (a "swap meet"). Conclusion SSWAP addresses the three basic requirements of a semantic web services architecture (i.e., a common syntax, shared semantic, and semantic discovery) while addressing three technology limitations common in distributed service systems: i.e., i) the fatal mutability of traditional interfaces, ii) the rigidity and fragility of static subsumption hierarchies, and iii) the confounding of content, structure, and presentation. SSWAP is novel by establishing

  1. SSWAP: A Simple Semantic Web Architecture and Protocol for semantic web services.

    PubMed

    Gessler, Damian D G; Schiltz, Gary S; May, Greg D; Avraham, Shulamit; Town, Christopher D; Grant, David; Nelson, Rex T

    2009-09-23

    SSWAP (Simple Semantic Web Architecture and Protocol; pronounced "swap") is an architecture, protocol, and platform for using reasoning to semantically integrate heterogeneous disparate data and services on the web. SSWAP was developed as a hybrid semantic web services technology to overcome limitations found in both pure web service technologies and pure semantic web technologies. There are currently over 2400 resources published in SSWAP. Approximately two dozen are custom-written services for QTL (Quantitative Trait Loci) and mapping data for legumes and grasses (grains). The remaining are wrappers to Nucleic Acids Research Database and Web Server entries. As an architecture, SSWAP establishes how clients (users of data, services, and ontologies), providers (suppliers of data, services, and ontologies), and discovery servers (semantic search engines) interact to allow for the description, querying, discovery, invocation, and response of semantic web services. As a protocol, SSWAP provides the vocabulary and semantics to allow clients, providers, and discovery servers to engage in semantic web services. The protocol is based on the W3C-sanctioned first-order description logic language OWL DL. As an open source platform, a discovery server running at http://sswap.info (as in to "swap info") uses the description logic reasoner Pellet to integrate semantic resources. The platform hosts an interactive guide to the protocol at http://sswap.info/protocol.jsp, developer tools at http://sswap.info/developer.jsp, and a portal to third-party ontologies at http://sswapmeet.sswap.info (a "swap meet"). SSWAP addresses the three basic requirements of a semantic web services architecture (i.e., a common syntax, shared semantic, and semantic discovery) while addressing three technology limitations common in distributed service systems: i.e., i) the fatal mutability of traditional interfaces, ii) the rigidity and fragility of static subsumption hierarchies, and iii) the

  2. MAPI: towards the integrated exploitation of bioinformatics Web Services

    PubMed Central

    2011-01-01

    Background Bioinformatics is commonly featured as a well assorted list of available web resources. Although diversity of services is positive in general, the proliferation of tools, their dispersion and heterogeneity complicate the integrated exploitation of such data processing capacity. Results To facilitate the construction of software clients and make integrated use of this variety of tools, we present a modular programmatic application interface (MAPI) that provides the necessary functionality for uniform representation of Web Services metadata descriptors including their management and invocation protocols of the services which they represent. This document describes the main functionality of the framework and how it can be used to facilitate the deployment of new software under a unified structure of bioinformatics Web Services. A notable feature of MAPI is the modular organization of the functionality into different modules associated with specific tasks. This means that only the modules needed for the client have to be installed, and that the module functionality can be extended without the need for re-writing the software client. Conclusions The potential utility and versatility of the software library has been demonstrated by the implementation of several currently available clients that cover different aspects of integrated data processing, ranging from service discovery to service invocation with advanced features such as workflows composition and asynchronous services calls to multiple types of Web Services including those registered in repositories (e.g. GRID-based, SOAP, BioMOBY, R-bioconductor, and others). PMID:22032807

  3. Architecture-Based Reliability Analysis of Web Services

    ERIC Educational Resources Information Center

    Rahmani, Cobra Mariam

    2012-01-01

    In a Service Oriented Architecture (SOA), the hierarchical complexity of Web Services (WS) and their interactions with the underlying Application Server (AS) create new challenges in providing a realistic estimate of WS performance and reliability. The current approaches often treat the entire WS environment as a black-box. Thus, the sensitivity…

  4. Architecture-Based Reliability Analysis of Web Services

    ERIC Educational Resources Information Center

    Rahmani, Cobra Mariam

    2012-01-01

    In a Service Oriented Architecture (SOA), the hierarchical complexity of Web Services (WS) and their interactions with the underlying Application Server (AS) create new challenges in providing a realistic estimate of WS performance and reliability. The current approaches often treat the entire WS environment as a black-box. Thus, the sensitivity…

  5. Advancing Your Library's Web-Based Services. ERIC Digest.

    ERIC Educational Resources Information Center

    Feldman, Sari; Strobel, Tracy

    This digest discusses the development of World Wide Web-based services for libraries and provides examples from the Cleveland Public Library (CPL). The first section highlights the importance of developing such services, steps to be followed for a successful project, and the importance of having the goal of replicating and enhancing traditional…

  6. Finding, Browsing and Getting Data Easily Using SPDF Web Services

    NASA Technical Reports Server (NTRS)

    Candey, R.; Chimiak, R.; Harris, B.; Johnson, R.; Kovalick, T.; Lal, N.; Leckner, H.; Liu, M.; McGuire, R.; Papitashvili, N.; Roberts, A.

    2010-01-01

    The NASA GSFC Space Physics Data Facility (5PDF) provides heliophysics science-enabling information services for enhancing scientific research and enabling integration of these services into the Heliophysics Data Environment paradigm, via standards-based approach (SOAP) and Representational State Transfer (REST) web services in addition to web browser, FTP, and OPeNDAP interfaces. We describe these interfaces and the philosophies behind these web services, and show how to call them from various languages, such as IDL and Perl. We are working towards a "one simple line to call" philosophy extolled in the recent VxO discussions. Combining data from many instruments and missions enables broad research analysis and correlation and coordination with other experiments and missions.

  7. Finding, Browsing and Getting Data Easily Using SPDF Web Services

    NASA Technical Reports Server (NTRS)

    Candey, R.; Chimiak, R.; Harris, B.; Johnson, R.; Kovalick, T.; Lal, N.; Leckner, H.; Liu, M.; McGuire, R.; Papitashvili, N.; hide

    2010-01-01

    The NASA GSFC Space Physics Data Facility (5PDF) provides heliophysics science-enabling information services for enhancing scientific research and enabling integration of these services into the Heliophysics Data Environment paradigm, via standards-based approach (SOAP) and Representational State Transfer (REST) web services in addition to web browser, FTP, and OPeNDAP interfaces. We describe these interfaces and the philosophies behind these web services, and show how to call them from various languages, such as IDL and Perl. We are working towards a "one simple line to call" philosophy extolled in the recent VxO discussions. Combining data from many instruments and missions enables broad research analysis and correlation and coordination with other experiments and missions.

  8. OntoGene web services for biomedical text mining

    PubMed Central

    2014-01-01

    Text mining services are rapidly becoming a crucial component of various knowledge management pipelines, for example in the process of database curation, or for exploration and enrichment of biomedical data within the pharmaceutical industry. Traditional architectures, based on monolithic applications, do not offer sufficient flexibility for a wide range of use case scenarios, and therefore open architectures, as provided by web services, are attracting increased interest. We present an approach towards providing advanced text mining capabilities through web services, using a recently proposed standard for textual data interchange (BioC). The web services leverage a state-of-the-art platform for text mining (OntoGene) which has been tested in several community-organized evaluation challenges, with top ranked results in several of them. PMID:25472638

  9. Security and Dependability Solutions for Web Services and Workflows

    NASA Astrophysics Data System (ADS)

    Kokolakis, Spyros; Rizomiliotis, Panagiotis; Benameur, Azzedine; Sinha, Smriti Kumar

    In this chapter we present an innovative approach towards the design and application of Security and Dependability (S&D) solutions for Web services and service-based workflows. Recently, several standards have been published that prescribe S&D solutions for Web services, e.g. OASIS WS-Security. However,the application of these solutions in specific contexts has been proven problematic. We propose a new framework for the application of such solutions based on the SERENITY S&D Pattern concept. An S&D Pattern comprises all the necessary information for the implementation, verification, deployment, and active monitoring of an S&D Solution. Thus, system developers may rely on proven solutions that are dynamically deployed and monitored by the Serenity Runtime Framework. Finally, we further extend this approach to cover the case of executable workflows which are realised through the orchestration of Web services.

  10. OntoGene web services for biomedical text mining.

    PubMed

    Rinaldi, Fabio; Clematide, Simon; Marques, Hernani; Ellendorff, Tilia; Romacker, Martin; Rodriguez-Esteban, Raul

    2014-01-01

    Text mining services are rapidly becoming a crucial component of various knowledge management pipelines, for example in the process of database curation, or for exploration and enrichment of biomedical data within the pharmaceutical industry. Traditional architectures, based on monolithic applications, do not offer sufficient flexibility for a wide range of use case scenarios, and therefore open architectures, as provided by web services, are attracting increased interest. We present an approach towards providing advanced text mining capabilities through web services, using a recently proposed standard for textual data interchange (BioC). The web services leverage a state-of-the-art platform for text mining (OntoGene) which has been tested in several community-organized evaluation challenges,with top ranked results in several of them.

  11. Operational Use of OGC Web Services at the Met Office

    NASA Astrophysics Data System (ADS)

    Wright, Bruce

    2010-05-01

    The Met Office has adopted the Service-Orientated Architecture paradigm to deliver services to a range of customers through Rich Internet Applications (RIAs). The approach uses standard Open Geospatial Consortium (OGC) web services to provide information to web-based applications through a range of generic data services. "Invent", the Met Office beta site, is used to showcase Met Office future plans for presenting web-based weather forecasts, product and information to the public. This currently hosts a freely accessible Weather Map Viewer, written in JavaScript, which accesses a Web Map Service (WMS), to deliver innovative web-based visualizations of weather and its potential impacts to the public. The intention is to engage the public in the development of new web-based services that more accurately meet their needs. As the service is intended for public use within the UK, it has been designed to support a user base of 5 million, the analysed level of UK web traffic reaching the Met Office's public weather information site. The required scalability has been realised through the use of multi-tier tile caching: - WMS requests are made for 256x256 tiles for fixed areas and zoom levels; - a Tile Cache, developed in house, efficiently serves tiles on demand, managing WMS request for the new tiles; - Edge Servers, externally hosted by Akamai, provide a highly scalable (UK-centric) service for pre-cached tiles, passing new requests to the Tile Cache; - the Invent Weather Map Viewer uses the Google Maps API to request tiles from Edge Servers. (We would expect to make use of the Web Map Tiling Service, when it becomes an OGC standard.) The Met Office delivers specialist commercial products to market sectors such as transport, utilities and defence, which exploit a Web Feature Service (WFS) for data relating forecasts and observations to specific geographic features, and a Web Coverage Service (WCS) for sub-selections of gridded data. These are locally rendered as maps or

  12. Semantic Web Services Challenge, Results from the First Year. Series: Semantic Web And Beyond, Volume 8.

    NASA Astrophysics Data System (ADS)

    Petrie, C.; Margaria, T.; Lausen, H.; Zaremba, M.

    Explores trade-offs among existing approaches. Reveals strengths and weaknesses of proposed approaches, as well as which aspects of the problem are not yet covered. Introduces software engineering approach to evaluating semantic web services. Service-Oriented Computing is one of the most promising software engineering trends because of the potential to reduce the programming effort for future distributed industrial systems. However, only a small part of this potential rests on the standardization of tools offered by the web services stack. The larger part of this potential rests upon the development of sufficient semantics to automate service orchestration. Currently there are many different approaches to semantic web service descriptions and many frameworks built around them. A common understanding, evaluation scheme, and test bed to compare and classify these frameworks in terms of their capabilities and shortcomings, is necessary to make progress in developing the full potential of Service-Oriented Computing. The Semantic Web Services Challenge is an open source initiative that provides a public evaluation and certification of multiple frameworks on common industrially-relevant problem sets. This edited volume reports on the first results in developing common understanding of the various technologies intended to facilitate the automation of mediation, choreography and discovery for Web Services using semantic annotations. Semantic Web Services Challenge: Results from the First Year is designed for a professional audience composed of practitioners and researchers in industry. Professionals can use this book to evaluate SWS technology for their potential practical use. The book is also suitable for advanced-level students in computer science.

  13. IKey+: a new single-access key generation web service.

    PubMed

    Burguiere, Thomas; Causse, Florian; Ung, Visotheary; Vignes-Lebbe, Régine

    2013-01-01

    Single-access keys are a major tool for biologists who need to identify specimens. The construction process of these keys is particularly complex (especially if the input data set is large) so having an automatic single-access key generation tool is essential. As part of the European project ViBRANT, our aim was to develop such a tool as a web service, thus allowing end-users to integrate it directly into their workflow. IKey+generates single-access keys on demand, for single users or research institutions. It receives user input data (using the standard SDD format), accepts several key-generation parameters (affecting the key topology and representation), and supports several output formats. IKey+is freely available (sources and binary packages) at www.identificationkey.fr. Furthermore, it is deployed on our server and can be queried (for testing purposes) through a simple web client also available at www.identificationkey.fr (last accessed 13 August 2012). Finally, a client plugin will be integrated to the Scratchpads biodiversity networking tool (scratchpads.eu).

  14. A Generic Evaluation Model for Semantic Web Services

    NASA Astrophysics Data System (ADS)

    Shafiq, Omair

    Semantic Web Services research has gained momentum over the last few Years and by now several realizations exist. They are being used in a number of industrial use-cases. Soon software developers will be expected to use this infrastructure to build their B2B applications requiring dynamic integration. However, there is still a lack of guidelines for the evaluation of tools developed to realize Semantic Web Services and applications built on top of them. In normal software engineering practice such guidelines can already be found for traditional component-based systems. Also some efforts are being made to build performance models for servicebased systems. Drawing on these related efforts in component-oriented and servicebased systems, we identified the need for a generic evaluation model for Semantic Web Services applicable to any realization. The generic evaluation model will help users and customers to orient their systems and solutions towards using Semantic Web Services. In this chapter, we have presented the requirements for the generic evaluation model for Semantic Web Services and further discussed the initial steps that we took to sketch such a model. Finally, we discuss related activities for evaluating semantic technologies.

  15. A web-services approach to modeling global fluid flux

    NASA Astrophysics Data System (ADS)

    Wood, W. T.; Martin, K. M.; Sample, J.; Owens, R.; Jung, W.; Calantoni, J.; Boyd, T. J.; Coffin, R. B.

    2013-12-01

    Regional and global estimates of fluid and solute accumulation and transport require aspects of physics, chemistry, and biology that manifest as geospatial data sets. Recent developments in computer sciences known as web-services allow a new approach to earth modeling that allows data and models from different sources and on different platforms to be linked - allowing continual updates as data are acquired or models upgraded. NRL has begun constructing a such a generic earth modeling system (GEMS) based on OGC and WD3 compliant web-services data exchange, and designed to take advantage of newly developing web-service based data repositories funded by NSF, NOAA, USGS and others. Specifically, global data sets such as those found in the World Ocean Atlas (2009), sediment thickness, crust age, and seafloor temperature that have been used previously to estimate methane hydrate content in the World's ocean can now be combined with models of sedimentary accretion to generate estimates of fluid flux along margins. The data are served up as independent web coverage services, so they can be independently updated as new data arrives. We anticipate the web services approach to will allow a more flexible, dynamic, and resilient global model of fluid and solute flux than was previously possible.

  16. Analyzing the Web Services and UniFrame Paradigms

    DTIC Science & Technology

    2003-04-01

    Service provider business application Service consumer business application Publish Links to Web Services Description Language (WSDL) documents...Jersey 07458 [5] Dhingra, V., � Business -to- Business Ecommerce ,� http://projects.bus.lsu.edu/independent_study/vdhing1/b2b. [6] A Darwin Partners and...lever ( business logic level) and provide a new platform to build software for a distributed environment. UniFrame is a research project that aims to

  17. Real-time medical collaboration services over the web.

    PubMed

    Andrikos, Christos; Rassias, Georgios; Tsanakas, Panayiotis; Maglogiannis, Ilias

    2015-08-01

    The gradual shift in modern medical practice, from working alone clinical doctors to MDTs (Multi-Disciplinary Teams), raises the need of online real-time collaboration among geographically distributed medical personnel. The paper presents a Web-based platform, featuring an efficient medical data management and exchange, for hosting real-time collaborative services. The presented work leverages state-of-the-art features of the web (technologies and APIs) to support client-side medical data processing. Moreover, to address the typical bandwidth bottleneck and known scalability issues of centralized data sharing, an indirect RPC (Remote Process Call) scheme is introduced through object synchronization over the WebRTC paradigm.

  18. WebAUGUSTUS—a web service for training AUGUSTUS and predicting genes in eukaryotes

    PubMed Central

    Hoff, Katharina J.; Stanke, Mario

    2013-01-01

    The prediction of protein coding genes is an important step in the annotation of newly sequenced and assembled genomes. AUGUSTUS is one of the most accurate tools for eukaryotic gene prediction. Here, we present WebAUGUSTUS, a web interface for training AUGUSTUS and predicting genes with AUGUSTUS. Depending on the needs of the user, WebAUGUSTUS generates training gene structures automatically. Besides a genome file, either a file with expressed sequence tags or a file with protein sequences is required for this step. Alternatively, it is possible to submit an externally generated training gene structure file and a genome file. The web service optimizes AUGUSTUS parameters and predicts genes with those parameters. WebAUGUSTUS is available at http://bioinf.uni-greifswald.de/webaugustus. PMID:23700307

  19. WebAUGUSTUS--a web service for training AUGUSTUS and predicting genes in eukaryotes.

    PubMed

    Hoff, Katharina J; Stanke, Mario

    2013-07-01

    The prediction of protein coding genes is an important step in the annotation of newly sequenced and assembled genomes. AUGUSTUS is one of the most accurate tools for eukaryotic gene prediction. Here, we present WebAUGUSTUS, a web interface for training AUGUSTUS and predicting genes with AUGUSTUS. Depending on the needs of the user, WebAUGUSTUS generates training gene structures automatically. Besides a genome file, either a file with expressed sequence tags or a file with protein sequences is required for this step. Alternatively, it is possible to submit an externally generated training gene structure file and a genome file. The web service optimizes AUGUSTUS parameters and predicts genes with those parameters. WebAUGUSTUS is available at http://bioinf.uni-greifswald.de/webaugustus.

  20. A Method of EC Model Implementation Using Web Service Functions

    NASA Astrophysics Data System (ADS)

    Kurihara, Jun; Koizumi, Hisao; Ishikawa, Toshiyuki; Dasai, Takashi

    In recent years, advances in computer and communication technology and the associated rapid increase in the number of Internet users are encouraging advances in Electronic Commerce (EC). Business models of EC are being actively developed by many different enterprises and engineers, and implemented in many kinds of fields. Meanwhile Web services that reuse remote components over the Internet are drawing attention. Web services are based on SOAP/WSDL/UDDI and are given an important position as the infrastructure of the EC systems. The article analyzes the functions and structures of various business models, establishing the patterns of their distinctive and common features, and proposes a method of determining the implementation specifications of business models utilizing these patterns and Web service functions. This method has been applied to a parts purchasing system, which is a typical pattern of the B to B (Business to Business) EC applications. The article also discusses the results of evaluating this prototype system.

  1. Web-based services for drug design and discovery.

    PubMed

    Frey, Jeremy G; Bird, Colin L

    2011-09-01

    Reviews of the development of drug discovery through the 20(th) century recognised the importance of chemistry and increasingly bioinformatics, but had relatively little to say about the importance of computing and networked computing in particular. However, the design and discovery of new drugs is arguably the most significant single application of bioinformatics and cheminformatics to have benefitted from the increases in the range and power of the computational techniques since the emergence of the World Wide Web, commonly now referred to as simply 'the Web'. Web services have enabled researchers to access shared resources and to deploy standardized calculations in their search for new drugs. This article first considers the fundamental principles of Web services and workflows, and then explores the facilities and resources that have evolved to meet the specific needs of chem- and bio-informatics. This strategy leads to a more detailed examination of the basic components that characterise molecules and the essential predictive techniques, followed by a discussion of the emerging networked services that transcend the basic provisions, and the growing trend towards embracing modern techniques, in particular the Semantic Web. In the opinion of the authors, the issues that require community action are: increasing the amount of chemical data available for open access; validating the data as provided; and developing more efficient links between the worlds of cheminformatics and bioinformatics. The goal is to create ever better drug design services.

  2. Web services for open meteorological data in British Columbia

    NASA Astrophysics Data System (ADS)

    Hiebert, J.; Anslow, F. S.

    2012-12-01

    Until recently, British Columbia suffered from a dearth of publicly and easily accessible (open) meteorological data. While Environment Canada (EC) maintains approximately 250 active in situ weather stations, the remaining meteorological and climate data -- which represent the majority of observations made in the province -- have been gathered by the provincial government within several disparate, ministry-specific networks. Those observations have traditionally been either inaccessible to non-government employees or only available on a network-by-network basis by contacting network managers and requesting custom data queries. Under a collaborative agreement between several provincial ministries, private industry and the Pacific Climate Impacts Consortium (PCIC) and with support from EC, the entire province's meteorological archive has been collected into a single database at PCIC and made publicly accessible via web services and open data protocols. In this paper, we describe our web services, built on open-source software, which provide users access to the full catalogue of BC's meteorological observations through a simple user interface. Our geographic web services provide users access to station locations using Open Geospatial Consortium's Web Mapping Service and Web Feature Service protocols. We use OpenDAP to provide users download access to over a century of weather observations through a variety of open formats such as NetCDF, HDF, ASCII, and others. The goals of these web services are twofold. We primarily aim to provide planners, scientists and researchers with timely and comprehensive climate data as conveniently and efficiently as possible. A natural consequence of this is to enable the flexibility to expand the volume and types of data served and to facilitate more sophisticated analysis regarding past and future climate.

  3. Accessing the SEED genome databases via Web services API: tools for programmers.

    PubMed

    Disz, Terry; Akhter, Sajia; Cuevas, Daniel; Olson, Robert; Overbeek, Ross; Vonstein, Veronika; Stevens, Rick; Edwards, Robert A

    2010-06-14

    The SEED integrates many publicly available genome sequences into a single resource. The database contains accurate and up-to-date annotations based on the subsystems concept that leverages clustering between genomes and other clues to accurately and efficiently annotate microbial genomes. The backend is used as the foundation for many genome annotation tools, such as the Rapid Annotation using Subsystems Technology (RAST) server for whole genome annotation, the metagenomics RAST server for random community genome annotations, and the annotation clearinghouse for exchanging annotations from different resources. In addition to a web user interface, the SEED also provides Web services based API for programmatic access to the data in the SEED, allowing the development of third-party tools and mash-ups. The currently exposed Web services encompass over forty different methods for accessing data related to microbial genome annotations. The Web services provide comprehensive access to the database back end, allowing any programmer access to the most consistent and accurate genome annotations available. The Web services are deployed using a platform independent service-oriented approach that allows the user to choose the most suitable programming platform for their application. Example code demonstrate that Web services can be used to access the SEED using common bioinformatics programming languages such as Perl, Python, and Java. We present a novel approach to access the SEED database. Using Web services, a robust API for access to genomics data is provided, without requiring large volume downloads all at once. The API ensures timely access to the most current datasets available, including the new genomes as soon as they come online.

  4. Accessing the SEED Genome Databases via Web Services API: Tools for Programmers

    PubMed Central

    2010-01-01

    Background The SEED integrates many publicly available genome sequences into a single resource. The database contains accurate and up-to-date annotations based on the subsystems concept that leverages clustering between genomes and other clues to accurately and efficiently annotate microbial genomes. The backend is used as the foundation for many genome annotation tools, such as the Rapid Annotation using Subsystems Technology (RAST) server for whole genome annotation, the metagenomics RAST server for random community genome annotations, and the annotation clearinghouse for exchanging annotations from different resources. In addition to a web user interface, the SEED also provides Web services based API for programmatic access to the data in the SEED, allowing the development of third-party tools and mash-ups. Results The currently exposed Web services encompass over forty different methods for accessing data related to microbial genome annotations. The Web services provide comprehensive access to the database back end, allowing any programmer access to the most consistent and accurate genome annotations available. The Web services are deployed using a platform independent service-oriented approach that allows the user to choose the most suitable programming platform for their application. Example code demonstrate that Web services can be used to access the SEED using common bioinformatics programming languages such as Perl, Python, and Java. Conclusions We present a novel approach to access the SEED database. Using Web services, a robust API for access to genomics data is provided, without requiring large volume downloads all at once. The API ensures timely access to the most current datasets available, including the new genomes as soon as they come online. PMID:20546611

  5. InterMine: extensive web services for modern biology

    PubMed Central

    Kalderimis, Alex; Lyne, Rachel; Butano, Daniela; Contrino, Sergio; Lyne, Mike; Heimbach, Joshua; Hu, Fengyuan; Smith, Richard; Štěpán, Radek; Sullivan, Julie; Micklem, Gos

    2014-01-01

    InterMine (www.intermine.org) is a biological data warehousing system providing extensive automatically generated and configurable RESTful web services that underpin the web interface and can be re-used in many other applications: to find and filter data; export it in a flexible and structured way; to upload, use, manipulate and analyze lists; to provide services for flexible retrieval of sequence segments, and for other statistical and analysis tools. Here we describe these features and discuss how they can be used separately or in combinations to support integrative and comparative analysis. PMID:24753429

  6. Next generation of weather generators on web service framework

    NASA Astrophysics Data System (ADS)

    Chinnachodteeranun, R.; Hung, N. D.; Honda, K.; Ines, A. V. M.

    2016-12-01

    Weather generator is a statistical model that synthesizes possible realization of long-term historical weather in future. It generates several tens to hundreds of realizations stochastically based on statistical analysis. Realization is essential information as a crop modeling's input for simulating crop growth and yield. Moreover, they can be contributed to analyzing uncertainty of weather to crop development stage and to decision support system on e.g. water management and fertilizer management. Performing crop modeling requires multidisciplinary skills which limit the usage of weather generator only in a research group who developed it as well as a barrier for newcomers. To improve the procedures of performing weather generators as well as the methodology to acquire the realization in a standard way, we implemented a framework for providing weather generators as web services, which support service interoperability. Legacy weather generator programs were wrapped in the web service framework. The service interfaces were implemented based on an international standard that was Sensor Observation Service (SOS) defined by Open Geospatial Consortium (OGC). Clients can request realizations generated by the model through SOS Web service. Hierarchical data preparation processes required for weather generator are also implemented as web services and seamlessly wired. Analysts and applications can invoke services over a network easily. The services facilitate the development of agricultural applications and also reduce the workload of analysts on iterative data preparation and handle legacy weather generator program. This architectural design and implementation can be a prototype for constructing further services on top of interoperable sensor network system. This framework opens an opportunity for other sectors such as application developers and scientists in other fields to utilize weather generators.

  7. Performance Issues Related to Web Service Usage for Remote Data Access

    SciTech Connect

    Pais, V. F.; Stancalie, V.; Mihailescu, F. A.; Totolici, M. C.

    2008-04-07

    Web services are starting to be widely used in applications for remotely accessing data. This is of special interest for research based on small and medium scale fusion devices, since scientists participating remotely to experiments are accessing large amounts of data over the Internet. Recent tests were conducted to see how the new network traffic, generated by the use of web services, can be integrated in the existing infrastructure and what would be the impact over existing applications, especially those used in a remote participation scenario.

  8. Magallanes: a web services discovery and automatic workflow composition tool

    PubMed Central

    Ríos, Javier; Karlsson, Johan; Trelles, Oswaldo

    2009-01-01

    Background To aid in bioinformatics data processing and analysis, an increasing number of web-based applications are being deployed. Although this is a positive circumstance in general, the proliferation of tools makes it difficult to find the right tool, or more importantly, the right set of tools that can work together to solve real complex problems. Results Magallanes (Magellan) is a versatile, platform-independent Java library of algorithms aimed at discovering bioinformatics web services and associated data types. A second important feature of Magallanes is its ability to connect available and compatible web services into workflows that can process data sequentially to reach a desired output given a particular input. Magallanes' capabilities can be exploited both as an API or directly accessed through a graphic user interface. The Magallanes' API is freely available for academic use, and together with Magallanes application has been tested in MS-Windows™ XP and Unix-like operating systems. Detailed implementation information, including user manuals and tutorials, is available at . Conclusion Different implementations of the same client (web page, desktop applications, web services, etc.) have been deployed and are currently in use in real installations such as the National Institute of Bioinformatics (Spain) and the ACGT-EU project. This shows the potential utility and versatility of the software library, including the integration of novel tools in the domain and with strong evidences in the line of facilitate the automatic discovering and composition of workflows. PMID:19832968

  9. Building a print on demand web service

    NASA Astrophysics Data System (ADS)

    Reddy, Prakash; Rozario, Benedict; Dudekula, Shariff; V, Anil Dev

    2011-03-01

    There is considerable effort underway to digitize all books that have ever been printed. There is need for a service that can take raw book scans and convert them into Print on Demand (POD) books. Such a service definitely augments the digitization effort and enables broader access to a wider audience. To make this service practical we have identified three key challenges that needed to be addressed. These are: a) produce high quality image images by eliminating artifacts that exist due to the age of the document or those that are introduced during the scanning process b) develop an efficient automated system to process book scans with minimum human intervention; and c) build an eco system which allows us the target audience to discover these books.

  10. A Web Service Framework for Interactive Analysis of Metabolomics Data.

    PubMed

    Lyutvinskiy, Yaroslav; Watrous, Jeramie D; Jain, Mohit; Nilsson, Roland

    2017-06-06

    Analyzing mass spectrometry-based metabolomics data presents a major challenge to metabolism researchers, as it requires downloading and processing large data volumes through complex "pipelines", even in cases where only a single metabolite or peak is of interest. This presents a significant hurdle for data sharing, reanalysis, or meta-analysis of existing data sets, whether locally stored or available from public repositories. Here we introduce mzAccess, a software system that provides interactive, online access to primary mass spectrometry data in real-time via a Web service protocol, circumventing the need for bulk data processing. mzAccess allows querying instrument data for spectra, chromatograms, or two-dimensional MZ-RT areas in either profile or centroid modes through a simple, uniform interface that is independent of vendor or instrument type. Using a cache mechanism, mzAccess achieves response times in the millisecond range for typical liquid chromatography-mass spectrometry (LC-MS) peaks, enabling real-time browsing of large data sets with hundreds or even thousands of samples. By simplifying access to metabolite data, we hope that this system will help enable data sharing and reanalysis in the metabolomics field.

  11. Consuming Web Services: A Yahoo! Newsfeed Reader

    ERIC Educational Resources Information Center

    Dadashzadeh, Mohammad

    2010-01-01

    Service Oriented Architecture (SOA) shows demonstrable signs of simplifying software integration. It provides the necessary framework for building applications that can be integrated and can reduce the cost of integration significantly. Organizations are beginning to architect new integration solutions following the SOA approach. As such,…

  12. Consuming Web Services: A Yahoo! Newsfeed Reader

    ERIC Educational Resources Information Center

    Dadashzadeh, Mohammad

    2010-01-01

    Service Oriented Architecture (SOA) shows demonstrable signs of simplifying software integration. It provides the necessary framework for building applications that can be integrated and can reduce the cost of integration significantly. Organizations are beginning to architect new integration solutions following the SOA approach. As such,…

  13. A demanding web-based PACS supported by web services technology

    NASA Astrophysics Data System (ADS)

    Costa, Carlos M. A.; Silva, Augusto; Oliveira, José L.; Ribeiro, Vasco G.; Ribeiro, José

    2006-03-01

    During the last years, the ubiquity of web interfaces have pushed practically all PACS suppliers to develop client applications in which clinical practitioners can receive and analyze medical images, using conventional personal computers and Web browsers. However, due to security and performance issues, the utilization of these software packages has been restricted to Intranets. Paradigmatically, one of the most important advantages of digital image systems is to simplify the widespread sharing and remote access of medical data between healthcare institutions. This paper analyses the traditional PACS drawbacks that contribute to their reduced usage in the Internet and describes a PACS based on Web Services technology that supports a customized DICOM encoding syntax and a specific compression scheme providing all historical patient data in a unique Web interface.

  14. 3D Medical Volume Reconstruction Using Web Services

    PubMed Central

    Kooper, Rob; Shirk, Andrew; Lee, Sang-Chul; Lin, Amy; Folberg, Robert; Bajcsy, Peter

    2008-01-01

    We address the problem of 3D medical volume reconstruction using web services. The use of proposed web services is motivated by the fact that the problem of 3D medical volume reconstruction requires significant computer resources and human expertise in medical and computer science areas. Web services are implemented as an additional layer to a dataflow framework called Data to Knowledge. In the collaboration between UIC and NCSA, pre-processed input images at NCSA are made accessible to medical collaborators for registration. Every time UIC medical collaborators inspected images and selected corresponding features for registration, the web service at NCSA is contacted and the registration processing query is executed using the Image to Knowledge library of registration methods. Co-registered frames are returned for verification by medical collaborators in a new window. In this paper, we present 3D volume reconstruction problem requirements and the architecture of the developed prototype system at http://isda.ncsa.uiuc.edu/MedVolume. We also explain the tradeoffs of our system design and provide experimental data to support our system implementation. The prototype system has been used for multiple 3D volume reconstructions of blood vessels and vasculogenic mimicry patterns in histological sections of uveal melanoma studied by fluorescent confocal laser scanning microscope. PMID:18336808

  15. WSGB: A Web Service-Based Growing Book

    ERIC Educational Resources Information Center

    Dow, C. R.; Huang, L. H.; Chen, K. H.; Chiu, J. C.; Lin, C. M.

    2006-01-01

    Growing Book refers to an electronic textbook that is co-developed, and has the ability to be constantly maintained, by groups of independent authors, thus creating a rich and ever-growing learning environment that can be conveniently accessible from anywhere. This work designs and implements a Web Service-based Growing Book that has the merits of…

  16. Incorporating Web services into Earth Science Computational Environments

    NASA Astrophysics Data System (ADS)

    Fox, G.

    2002-12-01

    Grid technology promises to greatly enhance the analysis of data and their integration into all Earth Science fields. To prepare for this, one should "package" applications as Web Services using standards develop by the computer industry and W3C consortium. We report on some early experience with several earthquake simulation programs.

  17. Academic Public Service Web Sites and the Future of Virtual Academic Public Service

    ERIC Educational Resources Information Center

    Cohn, Ellen; Hibbitts, Bernard

    2005-01-01

    Some faculty have started to use the Internet as a bridge to the public instead of merely to each other. Leveraging their specialist knowledge and their academic authority against perceived public needs, they have created another type of academic Web site on their institutional servers--the academic public service Web site (APSWS). APSWS is an…

  18. Integration of RFID and web service for assisted living.

    PubMed

    Unluturk, Mehmet S; Kurtel, Kaan

    2012-08-01

    The number of people over 65 years old throughout most stable and prosperous countries in the world is increasing. Availability of their care in their own homes is imperative because of the economic reasons and their choices where to live (World Health Organization, Definition of an older or elderly person. http://www.who.int/healthinfo/survey/ageingdefnolder/en/ ; EQUIP-European Framework for Qualifications in Home Care Services for Older People, http://www.equip-project.com ; Salonen, 2009). "Recent advancement in wireless communications and electronics has enabled the development of low-cost sensor networks. The sensor networks can be utilized in various application areas." (Akyildiz, et al. 2002) These two statements show that there is a great promise in wireless technology and utilizing it in assisted living might be very beneficial to the elderly people. In this paper, we propose software architecture called Location Windows Service (LWS) which integrates the Radio Frequency Identification (RFID) technology and the web service to build an assisted living system for elderly people at home. This architecture monitors the location of elderly people without interfering in their daily activities. Location information messages that are generated as the elderly move from room to room indicate that the elderly person is fit and healthy and going about their normal life. The communication must be timely enough to follow elderly people as they move from room to room without missing a location. Unacknowledged publishing, subscription filtering and short location change messages are also included in this software model to reduce the network traffic in large homes. We propose some defense schemes being applied to the network environment of the assisted living system to prevent any external attacks.

  19. The Fondue Web Service toward the Virtual Observatory for Planetology

    NASA Astrophysics Data System (ADS)

    Sarkissian, Alain

    2012-07-01

    The FONDUE (Fully On-line Data Centre for Ultraviolet Emissions) web service was developed in the frame of the ISSI (International Space Science Institute) working group "Cross-calibration of past FUV experiments: Application to more than 30 years of interplanetary background data, including data from Voyager, Pioneer, Pioneer Venus, Cassini, Galileo, HST, SOHO, Mars-Express and Venus-Express". The goal was to put together data related to interplanetary background UV radiation and thereafter, to provide the tools to explore them with a global access. Our approach, "by science case" instead of "by instrument" (several instruments are present in our data collection but selected by their relevance to belong to our scientific subject) is justified by the complexity to regroup over one hat selected informations coming from a large variety of space experiments. Then the access to this information presented in the form of observational data bases, auxiliary data, numerical simulations and laboratory data is in continuity to what the scientist/student/ or simple curious would like to have with easy access and with the tools needed to explore it altogether. This service is made in the frame of i) the ISSI working group "Cross-calibration of past FUV experiments: Application to more than 30 years of interplanetary background data, including data from Voyager, Pioneer, Pioneer Venus, Cassini, Galileo, HST, SOHO, Mars-Express and Venus-Express", ii) the european EUROPLANET Research Initiative and its "Planetary Atmospheres" and "Small Bodies and Dust" nodes of the Integrated and Distributed Information Service - IDIS, iii) the astronomical International Virtual Observatory Alliance - IVOA and iv) the International Planetary Data Alliance - IPDA.

  20. Wysiwyg Geoprocessing: Coupling Sensor Web and Geoprocessing Services in Virtual Globes

    NASA Astrophysics Data System (ADS)

    Zhai, X.; Gong, J.; Yue, P.; Sun, Z.; Lu, X.

    2011-08-01

    We propose to advance the scientific understanding and applications of geospatial data by coupling Sensor Web and Geoprocessing Services in Virtual Globes for higher-education teaching and research. The vision is the concept of "What You See is What You Get" geoprocessing, shortly known as WYSIWYG geoprocessing. Virtual Globes offer tremendous opportunities, such as providing a learning tool to help educational users and researchers digest global-scale geospatial information about the world, and acting as WYSIWYG platforms, where domain experts can see what their fingertips act in an interactive three-dimensional virtual environment. In the meantime, Sensor Web and Web Service technologies make a large amount of Earth observing sensors and geoprocessing functionalities easily accessible to educational users and researchers like their local resources. Coupling Sensor Web and geoprocessing Services in Virtual Globes will bring a virtual learning and research environment to the desktops of students and professors, empowering them with WYSIWYG geoprocessing capabilities. The implementation combines the visualization and communication power of Virtual Globes with the on-demand data collection and analysis functionalities of Sensor Web and geoprocessing services, to help students and researchers investigate various scientific problems in an environment with natural and intuitive user experiences. The work will contribute to the scientific and educational activities of geoinformatic communities in that they will have a platform that are easily accessible and help themselves perceive world space and perform live geoscientific processes.

  1. Tactical Web Services: Using XML and Java Web Services to Conduct Real-Time Net-Centric Sonar Visualization

    DTIC Science & Technology

    2004-09-01

    for a standard way to move and share data more reliably, securely, and quickly. The capabilities imbedded in Extensible Markup Language ( XML ) and...46 C. WEB SERVICE TECHNOLOGIES............................................................47 1. Extensible Markup Language ( XML ... XML Extensible Markup Language XMSF Extensible Modeling and Simulation Framework XSBC XML Schema-based Binary Compression XSLT

  2. Towards Thematic Web Services for Generic Data Visualization and Analysis

    NASA Astrophysics Data System (ADS)

    Horanont, T.; Basa, M.; Shibasaki, R.

    2012-07-01

    Spatial analysis packages and thematic mapping are available in a number of traditional desktop GIS. However, visualizing thematic maps through the Internet is still limited to fix contents and restrict changes of the input data. The users with limited GIS knowledge or people who do not own digital map data are normally having difficulties to create output thematic maps from generic data. In this study, we developed thematic mapping services that can be applied to non-spatial data format served through powerful map services solutions. Novice users who have no GIS software experience or have no digital base map can simply input a plain text file with location identifier field such as place name or gazetteer to generate thematic maps online. We implemented a prototype by using web service standards recommended by the Open Geospatial Consortium (OGC) such as Web Map Service (WMS), Web Feature Service (WFS) and Styled Layer Descriptor (SLD) to provide a principle for communication and allow users to visualize spatial information as thematic maps. The system dedicates a great deal of effort to the initial study of geospatial analysis and visualization for novice users including those with no past experience using Geographic Information Systems.

  3. Clinical Predictive Modeling Development and Deployment through FHIR Web Services

    PubMed Central

    Khalilia, Mohammed; Choi, Myung; Henderson, Amelia; Iyengar, Sneha; Braunstein, Mark; Sun, Jimeng

    2015-01-01

    Clinical predictive modeling involves two challenging tasks: model development and model deployment. In this paper we demonstrate a software architecture for developing and deploying clinical predictive models using web services via the Health Level 7 (HL7) Fast Healthcare Interoperability Resources (FHIR) standard. The services enable model development using electronic health records (EHRs) stored in OMOP CDM databases and model deployment for scoring individual patients through FHIR resources. The MIMIC2 ICU dataset and a synthetic outpatient dataset were transformed into OMOP CDM databases for predictive model development. The resulting predictive models are deployed as FHIR resources, which receive requests of patient information, perform prediction against the deployed predictive model and respond with prediction scores. To assess the practicality of this approach we evaluated the response and prediction time of the FHIR modeling web services. We found the system to be reasonably fast with one second total response time per patient prediction. PMID:26958207

  4. Clearing your Desk! Software and Data Services for Collaborative Web Based GIS Analysis

    NASA Astrophysics Data System (ADS)

    Tarboton, D. G.; Idaszak, R.; Horsburgh, J. S.; Ames, D. P.; Goodall, J. L.; Band, L. E.; Merwade, V.; Couch, A.; Hooper, R. P.; Maidment, D. R.; Dash, P. K.; Stealey, M.; Yi, H.; Gan, T.; Gichamo, T.; Yildirim, A. A.; Liu, Y.

    2015-12-01

    Can your desktop computer crunch the large GIS datasets that are becoming increasingly common across the geosciences? Do you have access to or the know-how to take advantage of advanced high performance computing (HPC) capability? Web based cyberinfrastructure takes work off your desk or laptop computer and onto infrastructure or "cloud" based data and processing servers. This talk will describe the HydroShare collaborative environment and web based services being developed to support the sharing and processing of hydrologic data and models. HydroShare supports the upload, storage, and sharing of a broad class of hydrologic data including time series, geographic features and raster datasets, multidimensional space-time data, and other structured collections of data. Web service tools and a Python client library provide researchers with access to HPC resources without requiring them to become HPC experts. This reduces the time and effort spent in finding and organizing the data required to prepare the inputs for hydrologic models and facilitates the management of online data and execution of models on HPC systems. This presentation will illustrate the use of web based data and computation services from both the browser and desktop client software. These web-based services implement the Terrain Analysis Using Digital Elevation Model (TauDEM) tools for watershed delineation, generation of hydrology-based terrain information, and preparation of hydrologic model inputs. They allow users to develop scripts on their desktop computer that call analytical functions that are executed completely in the cloud, on HPC resources using input datasets stored in the cloud, without installing specialized software, learning how to use HPC, or transferring large datasets back to the user's desktop. These cases serve as examples for how this approach can be extended to other models to enhance the use of web and data services in the geosciences.

  5. A new reference implementation of the PSICQUIC web service.

    PubMed

    del-Toro, Noemi; Dumousseau, Marine; Orchard, Sandra; Jimenez, Rafael C; Galeota, Eugenia; Launay, Guillaume; Goll, Johannes; Breuer, Karin; Ono, Keiichiro; Salwinski, Lukasz; Hermjakob, Henning

    2013-07-01

    The Proteomics Standard Initiative Common QUery InterfaCe (PSICQUIC) specification was created by the Human Proteome Organization Proteomics Standards Initiative (HUPO-PSI) to enable computational access to molecular-interaction data resources by means of a standard Web Service and query language. Currently providing >150 million binary interaction evidences from 28 servers globally, the PSICQUIC interface allows the concurrent search of multiple molecular-interaction information resources using a single query. Here, we present an extension of the PSICQUIC specification (version 1.3), which has been released to be compliant with the enhanced standards in molecular interactions. The new release also includes a new reference implementation of the PSICQUIC server available to the data providers. It offers augmented web service capabilities and improves the user experience. PSICQUIC has been running for almost 5 years, with a user base growing from only 4 data providers to 28 (April 2013) allowing access to 151 310 109 binary interactions. The power of this web service is shown in PSICQUIC View web application, an example of how to simultaneously query, browse and download results from the different PSICQUIC servers. This application is free and open to all users with no login requirement (http://www.ebi.ac.uk/Tools/webservices/psicquic/view/main.xhtml).

  6. Taking advantage of Google's Web-based applications and services.

    PubMed

    Brigham, Tara J

    2014-01-01

    Google is a company that is constantly expanding and growing its services and products. While most librarians possess a "love/hate" relationship with Google, there are a number of reasons you should consider exploring some of the tools Google has created and made freely available. Applications and services such as Google Docs, Slides, and Google+ are functional and dynamic without the cost of comparable products. This column will address some of the issues users should be aware of before signing up to use Google's tools, and a description of some of Google's Web applications and services, plus how they can be useful to librarians in health care.

  7. Enabling Web-Based Analysis of CUAHSI HIS Hydrologic Data Using R and Web Processing Services

    NASA Astrophysics Data System (ADS)

    Ames, D. P.; Kadlec, J.; Bayles, M.; Seul, M.; Hooper, R. P.; Cummings, B.

    2015-12-01

    The CUAHSI Hydrologic Information System (CUAHSI HIS) provides open access to a large number of hydrological time series observation and modeled data from many parts of the world. Several software tools have been designed to simplify searching and access to the CUAHSI HIS datasets. These software tools include: Desktop client software (HydroDesktop, HydroExcel), developer libraries (WaterML R Package, OWSLib, ulmo), and the new interactive search website, http://data.cuahsi.org. An issue with using the time series data from CUAHSI HIS for further analysis by hydrologists (for example for verification of hydrological and snowpack models) is the large heterogeneity of the time series data. The time series may be regular or irregular, contain missing data, have different time support, and be recorded in different units. R is a widely used computational environment for statistical analysis of time series and spatio-temporal data that can be used to assess fitness and perform scientific analyses on observation data. R includes the ability to record a data analysis in the form of a reusable script. The R script together with the input time series dataset can be shared with other users, making the analysis more reproducible. The major goal of this study is to examine the use of R as a Web Processing Service for transforming time series data from the CUAHSI HIS and sharing the results on the Internet within HydroShare. HydroShare is an online data repository and social network for sharing large hydrological data sets such as time series, raster datasets, and multi-dimensional data. It can be used as a permanent cloud storage space for saving the time series analysis results. We examine the issues associated with running R scripts online: including code validation, saving of outputs, reporting progress, and provenance management. An explicit goal is that the script which is run locally should produce exactly the same results as the script run on the Internet. Our design can

  8. Web services in the U.S. geological survey streamstats web application

    USGS Publications Warehouse

    Guthrie, J.D.; Dartiguenave, C.; Ries, Kernell G.

    2009-01-01

    StreamStats is a U.S. Geological Survey Web-based GIS application developed as a tool for waterresources planning and management, engineering design, and other applications. StreamStats' primary functionality allows users to obtain drainage-basin boundaries, basin characteristics, and streamflow statistics for gaged and ungaged sites. Recently, Web services have been developed that provide the capability to remote users and applications to access comprehensive GIS tools that are available in StreamStats, including delineating drainage-basin boundaries, computing basin characteristics, estimating streamflow statistics for user-selected locations, and determining point features that coincide with a National Hydrography Dataset (NHD) reach address. For the state of Kentucky, a web service also has been developed that provides users the ability to estimate daily time series of drainage-basin average values of daily precipitation and temperature. The use of web services allows the user to take full advantage of the datasets and processes behind the Stream Stats application without having to develop and maintain them. ?? 2009 IEEE.

  9. Web service activities at the IRIS DMC to support federated and multidisciplinary access

    NASA Astrophysics Data System (ADS)

    Trabant, Chad; Ahern, Timothy K.

    2013-04-01

    At the IRIS Data Management Center (DMC) we have developed a suite of web service interfaces to access our large archive of, primarily seismological, time series data and related metadata. The goals of these web services include providing: a) next-generation and easily used access interfaces for our current users, b) access to data holdings in a form usable for non-seismologists, c) programmatic access to facilitate integration into data processing workflows and d) a foundation for participation in federated data discovery and access systems. To support our current users, our services provide access to the raw time series data and metadata or conversions of the raw data to commonly used formats. Our services also support simple, on-the-fly signal processing options that are common first steps in many workflows. Additionally, high-level data products derived from raw data are available via service interfaces. To support data access by researchers unfamiliar with seismic data we offer conversion of the data to broadly usable formats (e.g. ASCII text) and data processing to convert the data to Earth units. By their very nature, web services are programmatic interfaces. Combined with ubiquitous support for web technologies in programming & scripting languages and support in many computing environments, web services are very well suited for integrating data access into data processing workflows. As programmatic interfaces that can return data in both discipline-specific and broadly usable formats, our services are also well suited for participation in federated and brokered systems either specific to seismology or multidisciplinary. Working within the International Federation of Digital Seismograph Networks, the DMC collaborated on the specification of standardized web service interfaces for use at any seismological data center. These data access interfaces, when supported by multiple data centers, will form a foundation on which to build discovery and access mechanisms

  10. Programmatic access to data and information at the IRIS DMC via web services

    NASA Astrophysics Data System (ADS)

    Weertman, B. R.; Trabant, C.; Karstens, R.; Suleiman, Y. Y.; Ahern, T. K.; Casey, R.; Benson, R. B.

    2011-12-01

    The IRIS Data Management Center (DMC) has developed a suite of web services that provide access to the DMC's time series holdings, their related metadata and earthquake catalogs. In addition, services are available to perform simple, on-demand time series processing at the DMC prior to being shipped to the user. The primary goal is to provide programmatic access to data and processing services in a manner usable by and useful to the research community. The web services are relatively simple to understand and use and will form the foundation on which future DMC access tools will be built. Based on standard Web technologies they can be accessed programmatically with a wide range of programming languages (e.g. Perl, Python, Java), command line utilities such as wget and curl or with any web browser. We anticipate these services being used for everything from simple command line access, used in shell scripts and higher programming languages to being integrated within complex data processing software. In addition to improving access to our data by the seismological community the web services will also make our data more accessible to other disciplines. The web services available from the DMC include ws-bulkdataselect for the retrieval of large volumes of miniSEED data, ws-timeseries for the retrieval of individual segments of time series data in a variety of formats (miniSEED, SAC, ASCII, audio WAVE, and PNG plots) with optional signal processing, ws-station for station metadata in StationXML format, ws-resp for the retrieval of instrument response in RESP format, ws-sacpz for the retrieval of sensor response in the SAC poles and zeros convention and ws-event for the retrieval of earthquake catalogs. To make the services even easier to use, the DMC is developing a library that allows Java programmers to seamlessly retrieve and integrate DMC information into their own programs. The library will handle all aspects of dealing with the services and will parse the returned

  11. The EarthServer Geology Service: web coverage services for geosciences

    NASA Astrophysics Data System (ADS)

    Laxton, John; Sen, Marcus; Passmore, James

    2014-05-01

    The EarthServer FP7 project is implementing web coverage services using the OGC WCS and WCPS standards for a range of earth science domains: cryospheric; atmospheric; oceanographic; planetary; and geological. BGS is providing the geological service (http://earthserver.bgs.ac.uk/). Geoscience has used remote sensed data from satellites and planes for some considerable time, but other areas of geosciences are less familiar with the use of coverage data. This is rapidly changing with the development of new sensor networks and the move from geological maps to geological spatial models. The BGS geology service is designed initially to address two coverage data use cases and three levels of data access restriction. Databases of remote sensed data are typically very large and commonly held offline, making it time-consuming for users to assess and then download data. The service is designed to allow the spatial selection, editing and display of Landsat and aerial photographic imagery, including band selection and contrast stretching. This enables users to rapidly view data, assess is usefulness for their purposes, and then enhance and download it if it is suitable. At present the service contains six band Landsat 7 (Blue, Green, Red, NIR 1, NIR 2, MIR) and three band false colour aerial photography (NIR, green, blue), totalling around 1Tb. Increasingly 3D spatial models are being produced in place of traditional geological maps. Models make explicit spatial information implicit on maps and thus are seen as a better way of delivering geosciences information to non-geoscientists. However web delivery of models, including the provision of suitable visualisation clients, has proved more challenging than delivering maps. The EarthServer geology service is delivering 35 surfaces as coverages, comprising the modelled superficial deposits of the Glasgow area. These can be viewed using a 3D web client developed in the EarthServer project by Fraunhofer. As well as remote sensed

  12. [Consumer health web service at DIMDI].

    PubMed

    Hasky-Günther, K

    2004-10-01

    The German Institute of Medical Documentation and Information (DIMDI) extended its Internet services targeted at patients in order to meet the rising interest of the public for understandable, high-quality medical information. Medical terminology is made clear to nonprofessionals by voluminous reference books such as the Roche Encyclopedia of Medicine. By using free offers, such as the possibilities to search in up-to-date medical literature and studies, laypersons can find valuable and quality assured information on their fields of interest. Graphic and film material, which is offered in the virtual medical video shop (VVFM), covers the en-tire spectrum of specific medical fields and brings the areas of prevention, diagnostics, therapy, aftercare as well as nursing care up for discussion. It is easy to find physicians, hospitals, and self-help groups. Future plans include an extension of the offer to a substantial database-supported information portal for health-related subjects, which will provide the public with simple and speedy access to the health information of the DIM-DI and other trustworthy providers under one interface.

  13. Information Retrieval System for Japanese Standard Disease-Code Master Using XML Web Service

    PubMed Central

    Hatano, Kenji; Ohe, Kazuhiko

    2003-01-01

    Information retrieval system of Japanese Standard Disease-Code Master Using XML Web Service is developed. XML Web Service is a new distributed processing system by standard internet technologies. With seamless remote method invocation of XML Web Service, users are able to get the latest disease code master information from their rich desktop applications or internet web sites, which refer to this service. PMID:14728364

  14. Rchemcpp: a web service for structural analoging in ChEMBL, Drugbank and the Connectivity Map.

    PubMed

    Klambauer, Günter; Wischenbart, Martin; Mahr, Michael; Unterthiner, Thomas; Mayr, Andreas; Hochreiter, Sepp

    2015-10-15

    We have developed Rchempp, a web service that identifies structurally similar compounds (structural analogs) in large-scale molecule databases. The service allows compounds to be queried in the widely used ChEMBL, DrugBank and the Connectivity Map databases. Rchemcpp utilizes the best performing similarity functions, i.e. molecule kernels, as measures for structural similarity. Molecule kernels have proven superior performance over other similarity measures and are currently excelling at machine learning challenges. To considerably reduce computational time, and thereby make it feasible as a web service, a novel efficient prefiltering strategy has been developed, which maintains the sensitivity of the method. By exploiting information contained in public databases, the web service facilitates many applications crucial for the drug development process, such as prioritizing compounds after screening or reducing adverse side effects during late phases. Rchemcpp was used in the DeepTox pipeline that has won the Tox21 Data Challenge and is frequently used by researchers in pharmaceutical companies. The web service and the R package are freely available via http://shiny.bioinf.jku.at/Analoging/ and via Bioconductor. hochreit@bioinf.jku.at Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  15. Web-based 2-d Visualization with Large Datasets

    NASA Astrophysics Data System (ADS)

    Goldina, T.; Roby, W.; Wu, X.; Ly, L.

    2015-09-01

    Modern astronomical surveys produce large catalogs. Modern archives are web-based. As the science becomes more and more data driven, the pressure on visualization tools to support large datasets increases. While tables can render one page at a time, image overlays showing the returned catalog entries or XY plots showing the relationship between table columns must cover all of the rows to be meaningful. The large data set could easily overwhelm the browsers capabilities. Therefore the amount of data to be transported or rendered must be reduced. IRSA's catalog visualization is based on Firefly package, developed in IPAC (Roby 2013). Firefly is used by multiple web-based tools and archives, maintained by IRSA: Catalog Search, Spitzer, WISE, Plank, etc. Its distinctive feature is the tri-view: table, image overlay, and XY plot. All three highly interactive components are integrated together. The tri-view presentation allows an astronomer to dissect a dataset in various ways and to detect underlying structure and anomalies in the data, which makes it a handy tool for data exploration. Many challenges are encountered when only a subset of data is used in place of the full data set. Preserving coherence and maintaining the ability to select and filter data become issues. This talk addresses how we have solved problems in large dataset visualization.

  16. WebDISCO: a web service for distributed cox model learning without patient-level data sharing.

    PubMed

    Lu, Chia-Lun; Wang, Shuang; Ji, Zhanglong; Wu, Yuan; Xiong, Li; Jiang, Xiaoqian; Ohno-Machado, Lucila

    2015-11-01

    The Cox proportional hazards model is a widely used method for analyzing survival data. To achieve sufficient statistical power in a survival analysis, it usually requires a large amount of data. Data sharing across institutions could be a potential workaround for providing this added power. The authors develop a web service for distributed Cox model learning (WebDISCO), which focuses on the proof-of-concept and algorithm development for federated survival analysis. The sensitive patient-level data can be processed locally and only the less-sensitive intermediate statistics are exchanged to build a global Cox model. Mathematical derivation shows that the proposed distributed algorithm is identical to the centralized Cox model. The authors evaluated the proposed framework at the University of California, San Diego (UCSD), Emory, and Duke. The experimental results show that both distributed and centralized models result in near-identical model coefficients with differences in the range [Formula: see text] to [Formula: see text]. The results confirm the mathematical derivation and show that the implementation of the distributed model can achieve the same results as the centralized implementation. The proposed method serves as a proof of concept, in which a publicly available dataset was used to evaluate the performance. The authors do not intend to suggest that this method can resolve policy and engineering issues related to the federated use of institutional data, but they should serve as evidence of the technical feasibility of the proposed approach.Conclusions WebDISCO (Web-based Distributed Cox Regression Model; https://webdisco.ucsd-dbmi.org:8443/cox/) provides a proof-of-concept web service that implements a distributed algorithm to conduct distributed survival analysis without sharing patient level data. © The Author 2015. Published by Oxford University Press on behalf of the American Medical Informatics Association. All rights reserved. For Permissions

  17. WebDISCO: a web service for distributed cox model learning without patient-level data sharing

    PubMed Central

    Lu, Chia-Lun; Wang, Shuang; Ji, Zhanglong; Wu, Yuan; Xiong, Li; Jiang, Xiaoqian; Ohno-Machado, Lucila

    2015-01-01

    Objective The Cox proportional hazards model is a widely used method for analyzing survival data. To achieve sufficient statistical power in a survival analysis, it usually requires a large amount of data. Data sharing across institutions could be a potential workaround for providing this added power. Methods and materials The authors develop a web service for distributed Cox model learning (WebDISCO), which focuses on the proof-of-concept and algorithm development for federated survival analysis. The sensitive patient-level data can be processed locally and only the less-sensitive intermediate statistics are exchanged to build a global Cox model. Mathematical derivation shows that the proposed distributed algorithm is identical to the centralized Cox model. Results The authors evaluated the proposed framework at the University of California, San Diego (UCSD), Emory, and Duke. The experimental results show that both distributed and centralized models result in near-identical model coefficients with differences in the range 10−15 to 10−12. The results confirm the mathematical derivation and show that the implementation of the distributed model can achieve the same results as the centralized implementation. Limitation The proposed method serves as a proof of concept, in which a publicly available dataset was used to evaluate the performance. The authors do not intend to suggest that this method can resolve policy and engineering issues related to the federated use of institutional data, but they should serve as evidence of the technical feasibility of the proposed approach. Conclusions WebDISCO (Web-based Distributed Cox Regression Model; https://webdisco.ucsd-dbmi.org:8443/cox/) provides a proof-of-concept web service that implements a distributed algorithm to conduct distributed survival analysis without sharing patient level data. PMID:26159465

  18. DAVID-WS: a stateful web service to facilitate gene/protein list analysis.

    PubMed

    Jiao, Xiaoli; Sherman, Brad T; Huang, Da Wei; Stephens, Robert; Baseler, Michael W; Lane, H Clifford; Lempicki, Richard A

    2012-07-01

    The database for annotation, visualization and integrated discovery (DAVID), which can be freely accessed at http://david.abcc.ncifcrf.gov/, is a web-based online bioinformatics resource that aims to provide tools for the functional interpretation of large lists of genes/proteins. It has been used by researchers from more than 5000 institutes worldwide, with a daily submission rate of ∼1200 gene lists from ∼400 unique researchers, and has been cited by more than 6000 scientific publications. However, the current web interface does not support programmatic access to DAVID, and the uniform resource locator (URL)-based application programming interface (API) has a limit on URL size and is stateless in nature as it uses URL request and response messages to communicate with the server, without keeping any state-related details. DAVID-WS (web service) has been developed to automate user tasks by providing stateful web services to access DAVID programmatically without the need for human interactions. The web service and sample clients (written in Java, Perl, Python and Matlab) are made freely available under the DAVID License at http://david.abcc.ncifcrf.gov/content.jsp?file=WS.html.

  19. WebGIS based community services architecture by griddization managements and crowdsourcing services

    NASA Astrophysics Data System (ADS)

    Wang, Haiyin; Wan, Jianhua; Zeng, Zhe; Zhou, Shengchuan

    2016-11-01

    Along with the fast economic development of cities, rapid urbanization, population surge, in China, the social community service mechanisms need to be rationalized and the policy standards need to be unified, which results in various types of conflicts and challenges for community services of government. Based on the WebGIS technology, the article provides a community service architecture by gridding management and crowdsourcing service. The WEBGIS service architecture includes two parts: the cloud part and the mobile part. The cloud part refers to community service centres, which can instantaneously response the emergency, visualize the scene of the emergency, and analyse the data from the emergency. The mobile part refers to the mobile terminal, which can call the centre, report the event, collect data and verify the feedback. This WebGIS based community service systems for Huangdao District of Qingdao, were awarded the “2015’ national innovation of social governance case of typical cases”.

  20. Biomedical cloud computing with Amazon Web Services.

    PubMed

    Fusaro, Vincent A; Patil, Prasad; Gafni, Erik; Wall, Dennis P; Tonellato, Peter J

    2011-08-01

    In this overview to biomedical computing in the cloud, we discussed two primary ways to use the cloud (a single instance or cluster), provided a detailed example using NGS mapping, and highlighted the associated costs. While many users new to the cloud may assume that entry is as straightforward as uploading an application and selecting an instance type and storage options, we illustrated that there is substantial up-front effort required before an application can make full use of the cloud's vast resources. Our intention was to provide a set of best practices and to illustrate how those apply to a typical application pipeline for biomedical informatics, but also general enough for extrapolation to other types of computational problems. Our mapping example was intended to illustrate how to develop a scalable project and not to compare and contrast alignment algorithms for read mapping and genome assembly. Indeed, with a newer aligner such as Bowtie, it is possible to map the entire African genome using one m2.2xlarge instance in 48 hours for a total cost of approximately $48 in computation time. In our example, we were not concerned with data transfer rates, which are heavily influenced by the amount of available bandwidth, connection latency, and network availability. When transferring large amounts of data to the cloud, bandwidth limitations can be a major bottleneck, and in some cases it is more efficient to simply mail a storage device containing the data to AWS (http://aws.amazon.com/importexport/). More information about cloud computing, detailed cost analysis, and security can be found in references.

  1. Chapter 17: Web-based Tools - Spectrum and Filter Services for the VO

    NASA Astrophysics Data System (ADS)

    Dobos, L.; Budavari, T.

    We present the Filter and Spectrum Services consisting of easy-to-use web applications and web services for searching, plotting and managing large collections of spectral energy distribution data and filter profiles as well as for performing various scientific operations on spectra in a unified framework. The services provide keyword search, advanced query forms and SQL query possibilities for selecting spectra or bandpass curves which may be retrieved in a variety of file formats including XML, VOTable and ASCII. All SDSS DR1-DR5 spectra had been loaded into a database as well as the entire 2dF catalog that adds up to more than 2.5 million SEDs of about a million spatial objects, but registered users can upload their own data making it available for the rest of the community and are free to modify or delete them at any time. Theoretical catalogs, such as the Bruzual-Charlot stochastic burst model spectrum library (100k spectra) and the BaSeL stellar library are also available. Scientific services allow building rest-frame composite spectra out of selected spectra; calculating synthetic magnitudes by convolving spectra with an arbitrary set of bandpass curves of optical instrument filters to generate simulated photometric catalogs on-thefly; galactic extinction correction, fitting of the continuum using different set of templates (Bruzual-Charlot '03 templates, SDSS eigenspectra), line fitting. All scientific functionality is available from the web user interface and via the SOAP web services for programmers. MySpectrum is a cross-platform version of the spectrum web service for setting up your own spectrum repository. It integrates into the main service allowing easy access to your data for the whole VO community. The main idea behind our web services is to move scientific functionality physically close to the database in order to spare network bandwidth. This way scientists may do research without setting up expensive hardware, downloading large datasets for days

  2. UkrVO Astroinformatics Software and Web-services

    NASA Astrophysics Data System (ADS)

    Vavilova, I. B.; Yatskiv, Ya. S.; Pakuliak, L. K.; Andronov, I. L.; Andruk, V. M.; Protsyuk, Yu. I.; Savanevych, V. E.; Savchenko, D. O.; Savchenko, V. S.

    2017-06-01

    The aim of this paper is to introduce the software and astronomical web-services developed in frame of the Ukraine Virtual Observatory (UkrVO) and VIrtual Roentgen and Gamma Observatory (VIRGO) to the broad astronomical community. We report briefly on such web-services as the public databases ``Sky Maps'' of X-ray observations by XMM-Newton, the Earth Orbital Parameters for International Earth Rotation System, and the UkrVO Joint Digitized Archive of astroplates. We refer to such software as the ``Multi-Column View'', ``Variable Stars Calculator'', ``FrameSmooth'' for variable star's research and ``Collection Light Technology'' (CoLiTec) software for search and discovery of new Solar System bodies.

  3. Secure password-based authenticated key exchange for web services

    SciTech Connect

    Liang, Fang; Meder, Samuel; Chevassut, Olivier; Siebenlist, Frank

    2004-11-22

    This paper discusses an implementation of an authenticated key-exchange method rendered on message primitives defined in the WS-Trust and WS-SecureConversation specifications. This IEEE-specified cryptographic method (AuthA) is proven-secure for password-based authentication and key exchange, while the WS-Trust and WS-Secure Conversation are emerging Web Services Security specifications that extend the WS-Security specification. A prototype of the presented protocol is integrated in the WSRF-compliant Globus Toolkit V4. Further hardening of the implementation is expected to result in a version that will be shipped with future Globus Toolkit releases. This could help to address the current unavailability of decent shared-secret-based authentication options in the Web Services and Grid world. Future work will be to integrate One-Time-Password (OTP) features in the authentication protocol.

  4. 75 FR 57086 - Submission for Review: Federal Cyber Service: Scholarship for Service (SFS) Registration Web Site

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-09-17

    ... From the Federal Register Online via the Government Publishing Office OFFICE OF PERSONNEL MANAGEMENT Submission for Review: Federal Cyber Service: Scholarship for Service (SFS) Registration Web Site AGENCY: Office of Personnel Management. ACTION: 30-Day Notice and request for comments. SUMMARY: The...

  5. 75 FR 20400 - Submission for Review: Federal Cyber Service: Scholarship for Service (SFS) Registration Web Site

    Federal Register 2010, 2011, 2012, 2013, 2014

    2010-04-19

    ... From the Federal Register Online via the Government Publishing Office ] OFFICE OF PERSONNEL MANAGEMENT Submission for Review: Federal Cyber Service: Scholarship for Service (SFS) Registration Web Site AGENCY: U.S. Office of Personnel Management. ACTION: 60-Day Notice and request for comments. SUMMARY: The...

  6. Augmenting Basic Web Data Services with Middleware Services to Facilitate Usability and Interoperability

    NASA Astrophysics Data System (ADS)

    Werpy, J.; Torbert, C.

    2014-12-01

    Over the past few years many Data Providers have implemented services that allow for web based (HTTP) interfaces to manipulate, organize, modify, and deliver Earth Science Data. This web architecture provides the foundation for streamlining of Earth Science Users utilization of and interaction with the Data. However, critical components are missing and need to be developed in order to increase the capabilities, potential, and reach of these services. Middleware services represent a class of Data Services that are able to communicate their capabilities more clearly and effectively with Science Data Users while also leveraging the more raw web services on the back end. A Middleware layer of a services architecture functions to coordinate the interactions of the users with the core web services. This simplifies execution, parameter selection, data integration, data delivery, and data analysis activities. This presentation will outline how the Land Processes Distributed Active Archive Center (LP DAAC) has utilized core services to provide basic access to data, data manipulation, and processing. Beyond that, the presentation will also detail the enhancement of those efforts through the development and implementation of Middleware to augment capabilities and create workflows necessary to enable Science Users to perform meaningful science activities and analysis faster than before. The Middleware layer acts as the "glue" that allows all these separate services to work together. By moving the algorithms that process and organize data closer to the Data Archive and enabling access to them via web services fronted by Middleware services, the LP DAAC helps Science users to do better, less expensive, and more expansive science much faster than they ever could before.

  7. mGene.web: a web service for accurate computational gene finding.

    PubMed

    Schweikert, Gabriele; Behr, Jonas; Zien, Alexander; Zeller, Georg; Ong, Cheng Soon; Sonnenburg, Sören; Rätsch, Gunnar

    2009-07-01

    We describe mGene.web, a web service for the genome-wide prediction of protein coding genes from eukaryotic DNA sequences. It offers pre-trained models for the recognition of gene structures including untranslated regions in an increasing number of organisms. With mGene.web, users have the additional possibility to train the system with their own data for other organisms on the push of a button, a functionality that will greatly accelerate the annotation of newly sequenced genomes. The system is built in a highly modular way, such that individual components of the framework, like the promoter prediction tool or the splice site predictor, can be used autonomously. The underlying gene finding system mGene is based on discriminative machine learning techniques and its high accuracy has been demonstrated in an international competition on nematode genomes. mGene.web is available at http://www.mgene.org/web, it is free of charge and can be used for eukaryotic genomes of small to moderate size (several hundred Mbp).

  8. GWASS: GRASS web application software system based on the GeoBrain web service

    NASA Astrophysics Data System (ADS)

    Qiu, Fang; Ni, Feng; Chastain, Bryan; Huang, Haiting; Zhao, Peisheng; Han, Weiguo; Di, Liping

    2012-10-01

    GRASS is a well-known geographic information system developed more than 30 years ago. As one of the earliest GIS systems, GRASS has currently survived mainly as free, open-source desktop GIS software, with users primarily limited to the research community or among programmers who use it to create customized functions. To allow average GIS end users to continue taking advantage of this widely-used software, we developed a GRASS Web Application Software System (GWASS), a distributed, web-based, multi-tiered Geospatial Information System (GIS) built on top of the GeoBrain web service, a project sponsored by NASA using the latest service oriented architecture (SOA). This SOA enabled system offers an effective and practical alternative to current commercial desktop GIS solutions. With GWASS, all geospatial processing and analyses are conducted by the server, so users are not required to install any software at the client side, which reduces the cost of access for users. The only resource needed to use GWASS is an access to the Internet, and anyone who knows how to use a web browser can operate the system. The SOA framework is revitalizing the GRASS as a new means to bring powerful geospatial analysis and resources to more users with concurrent access.

  9. HTN Planning for Web Service Composition Using SHOP2

    DTIC Science & Technology

    2004-06-22

    knowledge base consists of operators and methods (plus, various non-action related facts and axioms). Each operator is a description of what needs to...for our research. In Section 3, we give the background knowledge about OWL-S process ontology and SHOP2. In Section 5, we present our approach for...effects that execution of a Web- service has on the world. Inputs and Outputs correspond to knowledge precondi- tions and effects. That is, necessary

  10. Design of an Integrated Web Services Brokering System

    DTIC Science & Technology

    2009-01-01

    Naval Meteorology and Oceanography Command, Stennis Space Center, USA Kalyan Moy Gupta, Knexus Research, USA Philip Moore, Knexus Research, USA David...specific context we illustrate here is the domain of meteorological and oceanographic (MetOc) Web Services. Our approach includes the use of specific...implemented different versions of a community standard interface. A specific context we illustrate here is the domain of meteorological and oceanographic

  11. The BCube Crawler: Web Scale Data and Service Discovery for EarthCube.

    NASA Astrophysics Data System (ADS)

    Lopez, L. A.; Khalsa, S. J. S.; Duerr, R.; Tayachow, A.; Mingo, E.

    2014-12-01

    Web-crawling, a core component of the NSF-funded BCube project, is researching and applying the use of big data technologies to find and characterize different types of web services, catalog interfaces, and data feeds such as the ESIP OpenSearch, OGC W*S, THREDDS, and OAI-PMH that describe or provide access to scientific datasets. Given the scale of the Internet, which challenges even large search providers such as Google, the BCube plan for discovering these web accessible services is to subdivide the problem into three smaller, more tractable issues. The first, to be able to discover likely sites where relevant data and data services might be found, the second, to be able to deeply crawl the sites discovered to find any data and services which might be present. Lastly, to leverage the use of semantic technologies to characterize the services and data found, and to filter out everything but those relevant to the geosciences. To address the first two challenges BCube uses an adapted version of Apache Nutch (which originated Hadoop), a web scale crawler, and Amazon's ElasticMapReduce service for flexibility and cost effectiveness. For characterization of the services found, BCube is examining existing web service ontologies for their applicability to our needs and will re-use and/or extend these in order to query for services with specific well-defined characteristics in scientific datasets such as the use of geospatial namespaces. The original proposal for the crawler won a grant from Amazon's academic program, which allowed us to become operational; we successfully tested the Bcube Crawler at web scale obtaining a significant corpus, sizeable enough to enable work on characterization of the services and data found. There is still plenty of work to be done, doing "smart crawls" by managing the frontier, developing and enhancing our scoring algorithms and fully implementing the semantic characterization technologies. We describe the current status of the project

  12. SAS- Semantic Annotation Service for Geoscience resources on the web

    NASA Astrophysics Data System (ADS)

    Elag, M.; Kumar, P.; Marini, L.; Li, R.; Jiang, P.

    2015-12-01

    There is a growing need for increased integration across the data and model resources that are disseminated on the web to advance their reuse across different earth science applications. Meaningful reuse of resources requires semantic metadata to realize the semantic web vision for allowing pragmatic linkage and integration among resources. Semantic metadata associates standard metadata with resources to turn them into semantically-enabled resources on the web. However, the lack of a common standardized metadata framework as well as the uncoordinated use of metadata fields across different geo-information systems, has led to a situation in which standards and related Standard Names abound. To address this need, we have designed SAS to provide a bridge between the core ontologies required to annotate resources and information systems in order to enable queries and analysis over annotation from a single environment (web). SAS is one of the services that are provided by the Geosematnic framework, which is a decentralized semantic framework to support the integration between models and data and allow semantically heterogeneous to interact with minimum human intervention. Here we present the design of SAS and demonstrate its application for annotating data and models. First we describe how predicates and their attributes are extracted from standards and ingested in the knowledge-base of the Geosemantic framework. Then we illustrate the application of SAS in annotating data managed by SEAD and annotating simulation models that have web interface. SAS is a step in a broader approach to raise the quality of geoscience data and models that are published on the web and allow users to better search, access, and use of the existing resources based on standard vocabularies that are encoded and published using semantic technologies.

  13. A RESTful interface to pseudonymization services in modern web applications.

    PubMed

    Lablans, Martin; Borg, Andreas; Ückert, Frank

    2015-02-07

    Medical research networks rely on record linkage and pseudonymization to determine which records from different sources relate to the same patient. To establish informational separation of powers, the required identifying data are redirected to a trusted third party that has, in turn, no access to medical data. This pseudonymization service receives identifying data, compares them with a list of already reported patient records and replies with a (new or existing) pseudonym. We found existing solutions to be technically outdated, complex to implement or not suitable for internet-based research infrastructures. In this article, we propose a new RESTful pseudonymization interface tailored for use in web applications accessed by modern web browsers. The interface is modelled as a resource-oriented architecture, which is based on the representational state transfer (REST) architectural style. We translated typical use-cases into resources to be manipulated with well-known HTTP verbs. Patients can be re-identified in real-time by authorized users' web browsers using temporary identifiers. We encourage the use of PID strings for pseudonyms and the EpiLink algorithm for record linkage. As a proof of concept, we developed a Java Servlet as reference implementation. The following resources have been identified: Sessions allow data associated with a client to be stored beyond a single request while still maintaining statelessness. Tokens authorize for a specified action and thus allow the delegation of authentication. Patients are identified by one or more pseudonyms and carry identifying fields. Relying on HTTP calls alone, the interface is firewall-friendly. The reference implementation has proven to be production stable. The RESTful pseudonymization interface fits the requirements of web-based scenarios and allows building applications that make pseudonymization transparent to the user using ordinary web technology. The open-source reference implementation implements the

  14. Leveling the Playing Field for Users with Web Services

    NASA Astrophysics Data System (ADS)

    Trabant, C. M.; Ahern, T. K.; Karstens, R.; Weertman, B.; Suleiman, Y. Y.

    2013-12-01

    The dawn of digital seismological data recording began approximately 4 decades ago. Since then multiple networks of seismological recording stations have and continue to exist. It is common for each network to operate a data center to store and distribute the collected data. Increasingly there are data centers that archive and distribute data produced by multiple networks and organizations. The modern landscape for seismological data users consists of many data centers spread across the globe offering a variety of data. Luckily most of these centers exchange data in standard formats defined by the International Federation of Digital Seismograph Networks (FDSN). Working with our partners in the FDSN, the IRIS Data Management Center (DMC) developed specifications for 3 standard web service interfaces that are intended to provide an abstraction layer on each center's customized data management system. These services provide access to seismological time series data, related metadata and event (earthquake) parameters. An important part of the interface design is to adhere to web standards and common conventions, which allows use of ubiquitous web client software and toolkits. Another critical design criteria is simple usage, we recognize that our user base is scientific data consumers and not necessarily technologists. The IRIS DMC has implemented each of these 3 service interfaces and made the common software components freely available. Under the NSF's EarthScope program and within the international COOPEUS project, the DMC worked with European partners to help install these standardized interfaces on their own data management systems. One key development was the addition of these web services to the SeisComP3 data handling system, which is common in many seismological data centers, especially in Europe. The combination of standardized data formats and access interfaces removes the need for complex request brokers that translate between centers. Instead, it allows

  15. SEABED: Small molEcule activity scanner weB servicE baseD.

    PubMed

    Fenollosa, Carlos; Otón, Marcel; Andrio, Pau; Cortés, Jorge; Orozco, Modesto; Goñi, J Ramon

    2015-03-01

    The SEABED web server integrates a variety of docking and QSAR techniques in a user-friendly environment. SEABED goes beyond the basic docking and QSAR web tools and implements extended functionalities like receptor preparation, library editing, flexible ensemble docking, hybrid docking/QSAR experiments or virtual screening on protein mutants. SEABED is not a monolithic workflow tool but Software as a Service platform. SEABED is a free web server available at http://www.bsc.es/SEABED. © The Author 2014. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  16. Web-Based Self-Service Systems for Managed IT Support: Service Provider Perspectives of Stakeholder-Based Issues

    NASA Astrophysics Data System (ADS)

    Cooper, Vanessa A.; Lichtenstein, Sharman; Smith, Ross

    This chapter explores the provision of after-sales information technology (IT) support services using Web-based self-service systems (WSSs) in a business-to-business (B2B) context. A recent study conducted at six large multi-national IT support organisations revealed a number of critical success factors (CSFs) and stakeholder-based issues. To better identify and understand these important enablers and barriers, we explain how WSSs should be considered within a complex network of service providers, business partners and customer firms. The CSFs and stakeholder-based issues are discussed. The chapter highlights that for more successful service provision using WSSs, IT service providers should collaborate more effectively with enterprise customers and business partners and should better integrate their WSSs.

  17. Web-based visualization of very large scientific astronomy imagery

    NASA Astrophysics Data System (ADS)

    Bertin, E.; Pillay, R.; Marmo, C.

    2015-04-01

    Visualizing and navigating through large astronomy images from a remote location with current astronomy display tools can be a frustrating experience in terms of speed and ergonomics, especially on mobile devices. In this paper, we present a high performance, versatile and robust client-server system for remote visualization and analysis of extremely large scientific images. Applications of this work include survey image quality control, interactive data query and exploration, citizen science, as well as public outreach. The proposed software is entirely open source and is designed to be generic and applicable to a variety of datasets. It provides access to floating point data at terabyte scales, with the ability to precisely adjust image settings in real-time. The proposed clients are light-weight, platform-independent web applications built on standard HTML5 web technologies and compatible with both touch and mouse-based devices. We put the system to the test and assess the performance of the system and show that a single server can comfortably handle more than a hundred simultaneous users accessing full precision 32 bit astronomy data.

  18. Stakeholder Expectations of Service Quality in a University Web Portal

    NASA Astrophysics Data System (ADS)

    Tate, Mary; Evermann, Joerg; Hope, Beverley; Barnes, Stuart

    Online service quality is a much-studied concept. There is considerable evidence that user expectations and perceptions of self-service and online service quality differ in different business domains. In addition, the nature of online services is continually changing and universities have been at the forefront of this change, with university websites increasingly acting as a portal for a wide range of online transactions for a wide range of stakeholders. In this qualitative study, we conduct focus groups with a range of stakeholders in a university web portal. Our study offers a number of insights into the changing nature of the relationship between organisations and customers. New technologies are influencing customer expectations. Customers increasingly expect organisations to have integrated information systems, and to utilise new technologies such as SMS and web portals. Organisations can be slow to adopt a customer-centric viewpoint, and persist in providing interfaces that are inconsistent or require inside knowledge of organisational structures and processes. This has a negative effect on customer perceptions.

  19. Geovisualization in the HydroProg web map service

    NASA Astrophysics Data System (ADS)

    Spallek, Waldemar; Wieczorek, Malgorzata; Szymanowski, Mariusz; Niedzielski, Tomasz; Swierczynska, Malgorzata

    2016-04-01

    The HydroProg system, built at the University of Wroclaw (Poland) in frame of the research project no. 2011/01/D/ST10/04171 financed by the National Science Centre of Poland, has been designed for computing predictions of river stages in real time on a basis of multimodelling. This experimental system works on the upper Nysa Klodzka basin (SW Poland) above the gauge in the town of Bardo, with the catchment area of 1744 square kilometres. The system operates in association with the Local System for Flood Monitoring of Klodzko County (LSOP), and produces hydrograph prognoses as well as inundation predictions. For presenting the up-to-date predictions and their statistics in the online mode, the dedicated real-time web map service has been designed. Geovisualisation in the HydroProg map service concerns: interactive maps of study area, interactive spaghetti hydrograms of water level forecasts along with observed river stages, animated images of inundation. The LSOP network offers a high spatial and temporal resolution of observations, as the length of the sampling interval is equal to 15 minutes. The main environmental elements related to hydrological modelling are shown on the main map. This includes elevation data (hillshading and hypsometric tints), rivers and reservoirs as well as catchment boundaries. Furthermore, we added main towns, roads as well as political and administrative boundaries for better map understanding. The web map was designed as a multi-scale representation, with levels of detail and zooming according to scales: 1:100 000, 1:250 000 and 1:500 000. Observations of water level in LSOP are shown on interactive hydrographs for each gauge. Additionally, predictions and some of their statistical characteristics (like prediction errors and Nash-Sutcliffe efficiency) are shown for selected gauges. Finally, predictions of inundation are presented on animated maps which have been added for four experimental sites. The HydroProg system is a strictly

  20. Electronic personal maternity records: Both web and smartphone services.

    PubMed

    Chang, Chung-Wei; Ma, Tien-Yan; Choi, Mei-San; Hsu, Yu-Yun; Tsai, Yi-Jing; Hou, Ting-Wei

    2015-08-01

    This study develops an antenatal care information system to assist women during pregnancy. We designed and implemented the system as both a web-based service and a multi-platform application for smartphones and tablets. The proposed system has three novel features: (1) web-based maternity records, which contains concise explanations of various antenatal screening and diagnostic tests; (2) self-care journals, which allow pregnant women to keep track of their gestational weight gains, blood pressure, fetal movements, and contractions; and (3) health education, which automatically presents detailed information on antenatal care and other pregnancy-related knowledge according to the women's gestational age. A survey was conducted among pregnant women to evaluate the usability and acceptance of the proposed system. In order to prove that the antenatal care was effective, clinical outcomes should be provided and the results are focused on a usability evaluation. Copyright © 2015 Elsevier Ireland Ltd. All rights reserved.

  1. Web based aphasia test using service oriented architecture (SOA)

    NASA Astrophysics Data System (ADS)

    Voos, J. A.; Vigliecca, N. S.; Gonzalez, E. A.

    2007-11-01

    Based on an aphasia test for Spanish speakers which analyze the patient's basic resources of verbal communication, a web-enabled software was developed to automate its execution. A clinical database was designed as a complement, in order to evaluate the antecedents (risk factors, pharmacological and medical backgrounds, neurological or psychiatric symptoms, brain injury -anatomical and physiological characteristics, etc) which are necessary to carry out a multi-factor statistical analysis in different samples of patients. The automated test was developed following service oriented architecture and implemented in a web site which contains a tests suite, which would allow both integrating the aphasia test with other neuropsychological instruments and increasing the available site information for scientific research. The test design, the database and the study of its psychometric properties (validity, reliability and objectivity) were made in conjunction with neuropsychological researchers, who participate actively in the software design, based on the patients or other subjects of investigation feedback.

  2. Large-Scale Multiobjective Static Test Generation for Web-Based Testing with Integer Programming

    ERIC Educational Resources Information Center

    Nguyen, M. L.; Hui, Siu Cheung; Fong, A. C. M.

    2013-01-01

    Web-based testing has become a ubiquitous self-assessment method for online learning. One useful feature that is missing from today's web-based testing systems is the reliable capability to fulfill different assessment requirements of students based on a large-scale question data set. A promising approach for supporting large-scale web-based…

  3. Large-Scale Multiobjective Static Test Generation for Web-Based Testing with Integer Programming

    ERIC Educational Resources Information Center

    Nguyen, M. L.; Hui, Siu Cheung; Fong, A. C. M.

    2013-01-01

    Web-based testing has become a ubiquitous self-assessment method for online learning. One useful feature that is missing from today's web-based testing systems is the reliable capability to fulfill different assessment requirements of students based on a large-scale question data set. A promising approach for supporting large-scale web-based…

  4. 78 FR 60303 - Agency Information Collection Activities: Online Survey of Web Services Employers; New...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2013-10-01

    ... of Web Services Employers; New Information Collection ACTION: 30-Day Notice. SUMMARY: The Department... via the Federal eRulemaking Portal Web site at http://www.Regulations.gov under e-Docket ID number... collection. (2) Title of the Form/Collection: Online Survey of Web Services Employers. (3) Agency form number...

  5. MaXIC-Q Web: a fully automated web service using statistical and computational methods for protein quantitation based on stable isotope labeling and LC-MS.

    PubMed

    Tsou, Chih-Chiang; Tsui, Yin-Hao; Yian, Yi-Hwa; Chen, Yi-Ju; Yang, Han-Yin; Yu, Chuan-Yih; Lynn, Ke-Shiuan; Chen, Yu-Ju; Sung, Ting-Yi; Hsu, Wen-Lian

    2009-07-01

    Isotope labeling combined with liquid chromatography-mass spectrometry (LC-MS) provides a robust platform for analyzing differential protein expression in proteomics research. We present a web service, called MaXIC-Q Web (http://ms.iis.sinica.edu.tw/MaXIC-Q_Web/), for quantitation analysis of large-scale datasets generated from proteomics experiments using various stable isotope-labeling techniques, e.g. SILAC, ICAT and user-developed labeling methods. It accepts spectral files in the standard mzXML format and search results from SEQUEST, Mascot and ProteinProphet as input. Furthermore, MaXIC-Q Web uses statistical and computational methods to construct two kinds of elution profiles for each ion, namely, PIMS (projected ion mass spectrum) and XIC (extracted ion chromatogram) from MS data. Toward accurate quantitation, a stringent validation procedure is performed on PIMSs to filter out peptide ions interfered with co-eluting peptides or noise. The areas of XICs determine ion abundances, which are used to calculate peptide and protein ratios. Since MaXIC-Q Web adopts stringent validation on spectral data, it achieves high accuracy so that manual validation effort can be substantially reduced. Furthermore, it provides various visualization diagrams and comprehensive quantitation reports so that users can conveniently inspect quantitation results. In summary, MaXIC-Q Web is a user-friendly, interactive, robust, generic web service for quantitation based on ICAT and SILAC labeling techniques.

  6. The Plate Boundary Observatory: Community Focused Web Services

    NASA Astrophysics Data System (ADS)

    Matykiewicz, J.; Anderson, G.; Lee, E.; Hoyt, B.; Hodgkinson, K.; Persson, E.; Wright, J.; Torrez, D.; Jackson, M.

    2006-12-01

    The Plate Boundary Observatory (PBO), part of the NSF-funded EarthScope project, is designed to study the three-dimensional strain field resulting from deformation across the active boundary zone between the Pacific and North American plates in the western United States. To meet these goals, PBO will install 852 continuous GPS stations, 103 borehole strainmeter stations, 28 tiltmeters, and five laser strainmeters, as well as manage data for 209 previously existing continuous GPS stations. UNAVCO provides access to data products from these stations, as well as general information about the PBO project, via the PBO web site (http://pboweb.unavco.org). GPS and strainmeter data products can be found using a variety of channels, including map searches, text searches, and station specific data retrieval. In addition, the PBO construction status is available via multiple mapping interfaces, including custom web based map widgets and Google Earth. Additional construction details can be accessed from PBO operational pages and station specific home pages. The current state of health for the PBO network is available with the statistical snap-shot, full map interfaces, tabular web based reports, and automatic data mining and alerts. UNAVCO is currently working to enhance the community access to this information by developing a web service framework for the discovery of data products, interfacing with operational engineers, and exposing data services to third party participants. In addition, UNAVCO, through the PBO project, provides advanced data management and monitoring systems for use by the community in operating geodetic networks in the United States and beyond. We will demonstrate these systems during the AGU meeting, and we welcome inquiries from the community at any time.

  7. MALINA: a web service for visual analytics of human gut microbiota whole-genome metagenomic reads.

    PubMed

    Tyakht, Alexander V; Popenko, Anna S; Belenikin, Maxim S; Altukhov, Ilya A; Pavlenko, Alexander V; Kostryukova, Elena S; Selezneva, Oksana V; Larin, Andrei K; Karpova, Irina Y; Alexeev, Dmitry G

    2012-12-07

    MALINA is a web service for bioinformatic analysis of whole-genome metagenomic data obtained from human gut microbiota sequencing. As input data, it accepts metagenomic reads of various sequencing technologies, including long reads (such as Sanger and 454 sequencing) and next-generation (including SOLiD and Illumina). It is the first metagenomic web service that is capable of processing SOLiD color-space reads, to authors' knowledge. The web service allows phylogenetic and functional profiling of metagenomic samples using coverage depth resulting from the alignment of the reads to the catalogue of reference sequences which are built into the pipeline and contain prevalent microbial genomes and genes of human gut microbiota. The obtained metagenomic composition vectors are processed by the statistical analysis and visualization module containing methods for clustering, dimension reduction and group comparison. Additionally, the MALINA database includes vectors of bacterial and functional composition for human gut microbiota samples from a large number of existing studies allowing their comparative analysis together with user samples, namely datasets from Russian Metagenome project, MetaHIT and Human Microbiome Project (downloaded from http://hmpdacc.org). MALINA is made freely available on the web at http://malina.metagenome.ru. The website is implemented in JavaScript (using Ext JS), Microsoft .NET Framework, MS SQL, Python, with all major browsers supported.

  8. Study of test script design methods for Web Service performance testing

    NASA Astrophysics Data System (ADS)

    Xu, Peng

    2017-09-01

    Web Service interface technology is more and more widely applied in information system. And more requirements of Web Service performance testing are demanded. Nevertheless, designing the test script for performance testing is hard to take into practice. In this paper, two kinds of test script design methods for Web Service performance testing are presented by using LoadRunner and SOAP UI tools. That is The Service Call Method and The SOAP Method.

  9. Web services interface for Space Weather: NeQuick 2 web and experimental TEC Calibration

    NASA Astrophysics Data System (ADS)

    Migoya Orue, Yenca O.; Nava, Bruno; Radicella, Sandro M.; Alazo Cuartas, Katy; Luigi, Ciraolo

    2013-04-01

    A web front-end has been recently developed and released to allow retrieving and plotting ionospheric parameters computed by the latest version of the model, NeQuick 2. NeQuick is a quick-run ionospheric electron density model particularly designed for trans-ionospheric propagation applications. It has been developed at the Aeronomy and Radiopropagation Laboratory (now T/ICT4D Laboratory) of the Abdus Salam International Centre for Theoretical Physics (ICTP) - Trieste, Italy with the collaboration of the Institute for Geophysics, Astrophysics and Meteorology (IGAM) of the University of Graz, Austria. To describe the electron density of the ionosphere up to the peak of the F2 layer, NeQuick uses a profile formulation which includes five semi-Epstein layers with modelled thickness parameters. Through a simple web interface users can exploit all the model features including the possibility of computing the electron density and visualizing the corresponding Total Electron Content (TEC) along any ground-to-satellite straight line ray-path. Indeed, the TEC is the ionospheric parameter retrieved from the GPS measurements. It complements the experimental data obtained with diverse kinds of sensors and can be considered a major source of ionospheric information. Since the TEC is not a direct measurement, a "de-biasing" procedure or calibration has to be applied to obtain the relevant values from the raw GPS observables. Using the observation and navigation RINEX files corresponding to a single receiver as input data, the web application allows the user to compute the slant and/or vertical TEC following the concept of the "arc-by-arc" offsets estimation. The combined use of both tools, freely available from the T/ICT4D Web site, will allow the comparison of experimentally derived slant and vertical TEC with modelled values. An online demonstration of the capabilities of the mentioned web services will be illustrated.

  10. Optimizing medical data quality based on multiagent web service framework.

    PubMed

    Wu, Ching-Seh; Khoury, Ibrahim; Shah, Hemant

    2012-07-01

    One of the most important issues in e-healthcare information systems is to optimize the medical data quality extracted from distributed and heterogeneous environments, which can extremely improve diagnostic and treatment decision making. This paper proposes a multiagent web service framework based on service-oriented architecture for the optimization of medical data quality in the e-healthcare information system. Based on the design of the multiagent web service framework, an evolutionary algorithm (EA) for the dynamic optimization of the medical data quality is proposed. The framework consists of two main components; first, an EA will be used to dynamically optimize the composition of medical processes into optimal task sequence according to specific quality attributes. Second, a multiagent framework will be proposed to discover, monitor, and report any inconstancy between the optimized task sequence and the actual medical records. To demonstrate the proposed framework, experimental results for a breast cancer case study are provided. Furthermore, to show the unique performance of our algorithm, a comparison with other works in the literature review will be presented.

  11. Diy Geospatial Web Service Chains: Geochaining Make it Easy

    NASA Astrophysics Data System (ADS)

    Wu, H.; You, L.; Gui, Z.

    2011-08-01

    It is a great challenge for beginners to create, deploy and utilize a Geospatial Web Service Chain (GWSC). People in Computer Science are usually not familiar with geospatial domain knowledge. Geospatial practitioners may lack the knowledge about web services and service chains. The end users may lack both. However, integrated visual editing interfaces, validation tools, and oneclick deployment wizards may help to lower the learning curve and improve modelling skills so beginners will have a better experience. GeoChaining is a GWSC modelling tool designed and developed based on these ideas. GeoChaining integrates visual editing, validation, deployment, execution etc. into a unified platform. By employing a Virtual Globe, users can intuitively visualize raw data and results produced by GeoChaining. All of these features allow users to easily start using GWSC, regardless of their professional background and computer skills. Further, GeoChaining supports GWSC model reuse, meaning that an entire GWSC model created or even a specific part can be directly reused in a new model. This greatly improves the efficiency of creating a new GWSC, and also contributes to the sharing and interoperability of GWSC.

  12. Free Factories: Unified Infrastructure for Data Intensive Web Services

    PubMed Central

    Zaranek, Alexander Wait; Clegg, Tom; Vandewege, Ward; Church, George M.

    2010-01-01

    We introduce the Free Factory, a platform for deploying data-intensive web services using small clusters of commodity hardware and free software. Independently administered virtual machines called Freegols give application developers the flexibility of a general purpose web server, along with access to distributed batch processing, cache and storage services. Each cluster exploits idle RAM and disk space for cache, and reserves disks in each node for high bandwidth storage. The batch processing service uses a variation of the MapReduce model. Virtualization allows every CPU in the cluster to participate in batch jobs. Each 48-node cluster can achieve 4-8 gigabytes per second of disk I/O. Our intent is to use multiple clusters to process hundreds of simultaneous requests on multi-hundred terabyte data sets. Currently, our applications achieve 1 gigabyte per second of I/O with 123 disks by scheduling batch jobs on two clusters, one of which is located in a remote data center. PMID:20514356

  13. Rich Linguistic Structure from Large-Scale Web Data

    ERIC Educational Resources Information Center

    Yamangil, Elif

    2013-01-01

    The past two decades have shown an unexpected effectiveness of "Web-scale" data in natural language processing. Even the simplest models, when paired with unprecedented amounts of unstructured and unlabeled Web data, have been shown to outperform sophisticated ones. It has been argued that the effectiveness of Web-scale data has…

  14. FROG: Time Series Analysis for the Web Service Era

    NASA Astrophysics Data System (ADS)

    Allan, A.

    2005-12-01

    The FROG application is part of the next generation Starlink{http://www.starlink.ac.uk} software work (Draper et al. 2005) and released under the GNU Public License{http://www.gnu.org/copyleft/gpl.html} (GPL). Written in Java, it has been designed for the Web and Grid Service era as an extensible, pluggable, tool for time series analysis and display. With an integrated SOAP server the packages functionality is exposed to the user for use in their own code, and to be used remotely over the Grid, as part of the Virtual Observatory (VO).

  15. On the Use of Social Networks in Web Services: Application to the Discovery Stage

    NASA Astrophysics Data System (ADS)

    Maamar, Zakaria; Wives, Leandro Krug; Boukadi, Khouloud

    This chapter discusses the use of social networks in Web services with focus on the discovery stage that characterizes the life cycle of these Web services. Other stages in this life cycle include description, publication, invocation, and composition. Web services are software applications that end users or other peers can invoke and compose to satisfy different needs such as hotel booking and car rental. Discovering the relevant Web services is, and continues to be, a major challenge due to the dynamic nature of these Web services. Indeed, Web services appear/disappear or suspend/resume operations without prior notice. Traditional discovery techniques are based on registries such as Universal Description, Discovery and Integration (UDDI) and Electronic Business using eXtensible Markup Language (ebXML). Unfortunately, despite the different improvements that these techniques have been subject to, they still suffer from various limitations that could slow down the acceptance trend of Web services by the IT community. Social networks seem to offer solutions to some of these limitations but raise, at the same time, some issues that are discussed in this chapter. The contributions of this chapter are three: social network definition in the particular context of Web services; mechanisms that support Web services build, use, and maintain their respective social networks; and social networks adoption to discover Web services.

  16. Reliable Execution Based on CPN and Skyline Optimization for Web Service Composition

    PubMed Central

    Ha, Weitao; Zhang, Guojun

    2013-01-01

    With development of SOA, the complex problem can be solved by combining available individual services and ordering them to best suit user's requirements. Web services composition is widely used in business environment. With the features of inherent autonomy and heterogeneity for component web services, it is difficult to predict the behavior of the overall composite service. Therefore, transactional properties and nonfunctional quality of service (QoS) properties are crucial for selecting the web services to take part in the composition. Transactional properties ensure reliability of composite Web service, and QoS properties can identify the best candidate web services from a set of functionally equivalent services. In this paper we define a Colored Petri Net (CPN) model which involves transactional properties of web services in the composition process. To ensure reliable and correct execution, unfolding processes of the CPN are followed. The execution of transactional composition Web service (TCWS) is formalized by CPN properties. To identify the best services of QoS properties from candidate service sets formed in the TCSW-CPN, we use skyline computation to retrieve dominant Web service. It can overcome that the reduction of individual scores to an overall similarity leads to significant information loss. We evaluate our approach experimentally using both real and synthetically generated datasets. PMID:23935431

  17. Reliable execution based on CPN and skyline optimization for Web service composition.

    PubMed

    Chen, Liping; Ha, Weitao; Zhang, Guojun

    2013-01-01

    With development of SOA, the complex problem can be solved by combining available individual services and ordering them to best suit user's requirements. Web services composition is widely used in business environment. With the features of inherent autonomy and heterogeneity for component web services, it is difficult to predict the behavior of the overall composite service. Therefore, transactional properties and nonfunctional quality of service (QoS) properties are crucial for selecting the web services to take part in the composition. Transactional properties ensure reliability of composite Web service, and QoS properties can identify the best candidate web services from a set of functionally equivalent services. In this paper we define a Colored Petri Net (CPN) model which involves transactional properties of web services in the composition process. To ensure reliable and correct execution, unfolding processes of the CPN are followed. The execution of transactional composition Web service (TCWS) is formalized by CPN properties. To identify the best services of QoS properties from candidate service sets formed in the TCSW-CPN, we use skyline computation to retrieve dominant Web service. It can overcome that the reduction of individual scores to an overall similarity leads to significant information loss. We evaluate our approach experimentally using both real and synthetically generated datasets.

  18. Visualization of cloud physical properties derived from Meteosat using OGC Web Map Services.

    NASA Astrophysics Data System (ADS)

    Plieger, M.; Vegte, J. vd; Meirink, J. F.; Roebeling, R.

    2012-04-01

    The Cloud Physical Properties (CPP) algorithm is being developed at KNMI to derive cloud, precipitation and radiation products from satellite instruments such as SEVIRI onboard the METEOSAT Second Generation (MSG). The CPP algorithm development is largely done inside EUMETSAT's Climate Monitoring Satellite Application Facility (CM-SAF), but also in research projects like EURO4M, SYNTHESIS, MSGSIM, and SICCS. In the MSG-CPP project, data is converted to the network common data format (NetCDF) with Climate and Forecast conventions (CF conventions). Data can be accessed by using web services defined by the Open Geospatial Consortium (OGC). Web Map Services are offered for data visualization and Web Coverage Services are offered for data conversion and access (WMS & WCS). The OGC services can be accessed in the ADAGUC portal, a JavaScript based web tool which runs in most modern browsers. The portal allows viewing, zooming, querying and downloading of the data. Interesting situations can be captured and sent to others by creating status hyperlinks, and the data can be displayed in Google Earth if desired. The high resolution of the images and the large data volumes are challenging for real-time and web based visualization services. During the MSG-CPP project the ADAGUC OGC server has been optimized to enable quick rendering of visualizations from NetCDF data, the server reads the NetCDF4 files directly and interpolates the data to the desired geographic projection and location. A new feature of the server is the support for NetCDF flag values and flag meanings as specified in the Climate and Forecast conventions. Flag values and flag meanings allow for visualization of data with discrete values. This feature is used in the visualization of thermodynamic phase of particles at the top of the cloud, which values are indicated with meanings like no_cloud, liquid, ice and mixed. The legend of the WMS service displays these meanings individually and the getfeatureinfo

  19. Visualization of data in radiotherapy using web services for optimization of workflow.

    PubMed

    Kirrmann, Stefan; Gainey, Mark; Röhner, Fred; Hall, Markus; Bruggmoser, Gregor; Schmucker, Marianne; Heinemann, Felix E

    2015-01-20

    Every day a large amount of data is produced within a radiotherapy department. Although this data is available in one form or other within the centralised systems, it is often not in the form which is of interest to the departmental staff. This work presents a flexible browser based reporting and visualization system for clinical and scientific use, not currently found in commercially available software such as MOSAIQ(TM) or ARIA(TM). Moreover, the majority of user merely wish to retrieve data and not record and/or modify data. Thus the idea was conceived, to present the user with all relevant information in a simple and effective manner in the form of web-services. Due to the widespread availability of the internet, most people can master the use of a web-browser. Ultimately the aim is to optimize clinical procedures, enhance transparency and improve revenue. Our working group (BAS) examined many internal procedures, to find out whether relevant information suitable for our purposes lay therein. After the results were collated, it was necessary to select an effective software platform. After a more detailed analysis of all data, it became clear that the implementation of web-services was appropriate. In our institute several such web-based information services had already been developed over the last few years, with which we gained invaluable experience. Moreover, we strived for high acceptance amongst staff members. By employing web-services, we attained high effectiveness, transparency and efficient information processing for the user. Furthermore, we achieved an almost maintenance-free and low support system. The aim of the project, making web-based information available to the user from the departmental system MOSAIQ, physician letter system MEDATEC(R) and the central finding server MiraPlus (laboratory, pathology and radiology) were implemented without restrictions. Due to widespread use of web-based technology the training effort was effectively nil, since

  20. NaviCell Web Service for network-based data visualization.

    PubMed

    Bonnet, Eric; Viara, Eric; Kuperstein, Inna; Calzone, Laurence; Cohen, David P A; Barillot, Emmanuel; Zinovyev, Andrei

    2015-07-01

    Data visualization is an essential element of biological research, required for obtaining insights and formulating new hypotheses on mechanisms of health and disease. NaviCell Web Service is a tool for network-based visualization of 'omics' data which implements several data visual representation methods and utilities for combining them together. NaviCell Web Service uses Google Maps and semantic zooming to browse large biological network maps, represented in various formats, together with different types of the molecular data mapped on top of them. For achieving this, the tool provides standard heatmaps, barplots and glyphs as well as the novel map staining technique for grasping large-scale trends in numerical values (such as whole transcriptome) projected onto a pathway map. The web service provides a server mode, which allows automating visualization tasks and retrieving data from maps via RESTful (standard HTTP) calls. Bindings to different programming languages are provided (Python and R). We illustrate the purpose of the tool with several case studies using pathway maps created by different research groups, in which data visualization provides new insights into molecular mechanisms involved in systemic diseases such as cancer and neurodegenerative diseases. © The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research.

  1. NaviCell Web Service for network-based data visualization

    PubMed Central

    Bonnet, Eric; Viara, Eric; Kuperstein, Inna; Calzone, Laurence; Cohen, David P. A.; Barillot, Emmanuel; Zinovyev, Andrei

    2015-01-01

    Data visualization is an essential element of biological research, required for obtaining insights and formulating new hypotheses on mechanisms of health and disease. NaviCell Web Service is a tool for network-based visualization of ‘omics’ data which implements several data visual representation methods and utilities for combining them together. NaviCell Web Service uses Google Maps and semantic zooming to browse large biological network maps, represented in various formats, together with different types of the molecular data mapped on top of them. For achieving this, the tool provides standard heatmaps, barplots and glyphs as well as the novel map staining technique for grasping large-scale trends in numerical values (such as whole transcriptome) projected onto a pathway map. The web service provides a server mode, which allows automating visualization tasks and retrieving data from maps via RESTful (standard HTTP) calls. Bindings to different programming languages are provided (Python and R). We illustrate the purpose of the tool with several case studies using pathway maps created by different research groups, in which data visualization provides new insights into molecular mechanisms involved in systemic diseases such as cancer and neurodegenerative diseases. PMID:25958393

  2. Beyond accuracy: creating interoperable and scalable text-mining web services.

    PubMed

    Wei, Chih-Hsuan; Leaman, Robert; Lu, Zhiyong

    2016-06-15

    The biomedical literature is a knowledge-rich resource and an important foundation for future research. With over 24 million articles in PubMed and an increasing growth rate, research in automated text processing is becoming increasingly important. We report here our recently developed web-based text mining services for biomedical concept recognition and normalization. Unlike most text-mining software tools, our web services integrate several state-of-the-art entity tagging systems (DNorm, GNormPlus, SR4GN, tmChem and tmVar) and offer a batch-processing mode able to process arbitrary text input (e.g. scholarly publications, patents and medical records) in multiple formats (e.g. BioC). We support multiple standards to make our service interoperable and allow simpler integration with other text-processing pipelines. To maximize scalability, we have preprocessed all PubMed articles, and use a computer cluster for processing large requests of arbitrary text. Our text-mining web service is freely available at http://www.ncbi.nlm.nih.gov/CBBresearch/Lu/Demo/tmTools/#curl : Zhiyong.Lu@nih.gov. Published by Oxford University Press 2016. This work is written by US Government employees and is in the public domain in the US.

  3. NASA`s ECS Data Pool: OGC Compliant Web Services for Every User and Every Pocket

    NASA Astrophysics Data System (ADS)

    Bories, C.; Marley, S. R.

    2005-12-01

    The NASA Earth Observing System (EOS), supports operations for several satellites including Landsat 7, Terra, and Aqua. ECS (EOSDIS Core System) is a vast archival and distribution system and includes several Distributed Active Archive Centers (DAACs) located around the United States whose combined holdings now exceed 3.5 petabytes, with a daily distribution of 3.5TB. In response to evolutionary changes in technology, the user access services have been moving a substantial part of its distribution capability away from distribution from near-line tape archives to large on-line disk caches that hold several 10's of terabytes of high-value data that allow users to obtain products via electronic download using a web or ftp clients. Although these basic access services are valuable, the need for more advanced services such as data reformatting and subsetting was seen as key to the interoperability and broader adoption of NASA's data with current Decision Support and Geographical Information Systems. Therefore, in 2003, Raytheon was funded to initiate the development of an in-house demonstration prototype that integrated OGC web services (Mapping and Coverage) with reformatting capability (HDF-EOS to GeoTIFF). The experience obtained from that first prototype, led to the formulation of a generalized interoperable architecture, which incorporated a catalog service. Two operational prototypes are now deployed for NASA. The first, utilizing IONIC Software's OGC services is designed to serve large data volumes (up to 50000 pieces of inventory of 10 MODIS data types), and to offer faster access performance. The second prototype was developed from a combination of open-source web services, freeware, and hosted in commodity platforms (Linux based PCs), and had as a main objective to provide a low entry cost services, for potential new data providers. For example, a small University research team, which could find difficult to afford the elevated cost of COTS licenses or

  4. A Different Web-Based Geocoding Service Using Fuzzy Techniques

    NASA Astrophysics Data System (ADS)

    Pahlavani, P.; Abbaspour, R. A.; Zare Zadiny, A.

    2015-12-01

    Geocoding - the process of finding position based on descriptive data such as address or postal code - is considered as one of the most commonly used spatial analyses. Many online map providers such as Google Maps, Bing Maps and Yahoo Maps present geocoding as one of their basic capabilities. Despite the diversity of geocoding services, users usually face some limitations when they use available online geocoding services. In existing geocoding services, proximity and nearness concept is not modelled appropriately as well as these services search address only by address matching based on descriptive data. In addition there are also some limitations in display searching results. Resolving these limitations can enhance efficiency of the existing geocoding services. This paper proposes the idea of integrating fuzzy technique with geocoding process to resolve these limitations. In order to implement the proposed method, a web-based system is designed. In proposed method, nearness to places is defined by fuzzy membership functions and multiple fuzzy distance maps are created. Then these fuzzy distance maps are integrated using fuzzy overlay technique for obtain the results. Proposed methods provides different capabilities for users such as ability to search multi-part addresses, searching places based on their location, non-point representation of results as well as displaying search results based on their priority.

  5. Building Geospatial Web Services for Ecological Monitoring and Forecasting

    NASA Astrophysics Data System (ADS)

    Hiatt, S. H.; Hashimoto, H.; Melton, F. S.; Michaelis, A. R.; Milesi, C.; Nemani, R. R.; Wang, W.

    2008-12-01

    The Terrestrial Observation and Prediction System (TOPS) at NASA Ames Research Center is a modeling system that generates a suite of gridded data products in near real-time that are designed to enhance management decisions related to floods, droughts, forest fires, human health, as well as crop, range, and forest production. While these data products introduce great possibilities for assisting management decisions and informing further research, realization of their full potential is complicated by their shear volume and by the need for a necessary infrastructure for remotely browsing, visualizing, and analyzing the data. In order to address these difficulties we have built an OGC-compliant WMS and WCS server based on an open source software stack that provides standardized access to our archive of data. This server is built using the open source Java library GeoTools which achieves efficient I/O and image rendering through Java Advanced Imaging. We developed spatio-temporal raster management capabilities using the PostGrid raster indexation engine. We provide visualization and browsing capabilities through a customized Ajax web interface derived from the kaMap project. This interface allows resource managers to quickly assess ecosystem conditions and identify significant trends and anomalies from within their web browser without the need to download source data or install special software. Our standardized web services also expose TOPS data to a range of potential clients, from web mapping applications to virtual globes and desktop GIS packages. However, support for managing the temporal dimension of our data is currently limited in existing software systems. Future work will attempt to overcome this shortcoming by building time-series visualization and analysis tools that can be integrated with existing geospatial software.

  6. A Real-Time Web Services Hub to Improve Situation Awareness during Flash Flood Events

    NASA Astrophysics Data System (ADS)

    Salas, F. R.; Liu, F.; Maidment, D. R.; Hodges, B. R.

    2011-12-01

    The central Texas corridor is one of the most flash flood-prone regions in the United States. Over the years, flash floods have resulted in hundreds of flood fatalities and billions of dollars in property damage. In order to mitigate risk to residents and infrastructure during flood events, both citizens and emergency responders need to exhibit proactive behavior instead of reactive. Real-time and forecasted flood information is fairly limited and hard to come by at varying spatial scales. The University of Texas at Austin has collaborated with IBM Research-Austin and ESRI to build a distributed real-time flood information system through a framework that leverages large scale data management and distribution, Open Geospatial Consortium standardized web services, and smart map applications. Within this paradigm, observed precipitation data encoded in WaterML is ingested into HEC-HMS and then delivered to a high performance hydraulic routing software package developed by IBM that utilizes the latest advancements in VLSI design, numerical linear algebra and numerical integration techniques on contemporary multicore architecture to solve fully dynamic Saint Venant equations at both small and large scales. In this paper we present a real-time flood inundation map application that in conjunction with a web services Hub, seamlessly integrates hydrologic information available through both public and private data services, model services and mapping services. As a case study for this project, we demonstrate how this system has been implemented in the City of Austin, Texas.

  7. OneGeology-Europe: architecture, portal and web services to provide a European geological map

    NASA Astrophysics Data System (ADS)

    Tellez-Arenas, Agnès.; Serrano, Jean-Jacques; Tertre, François; Laxton, John

    2010-05-01

    OneGeology-Europe is a large ambitious project to make geological spatial data further known and accessible. The OneGeology-Europe project develops an integrated system of data to create and make accessible for the first time through the internet the geological map of the whole of Europe. The architecture implemented by the project is web services oriented, based on the OGC standards: the geological map is not a centralized database but is composed by several web services, each of them hosted by a European country involved in the project. Since geological data are elaborated differently from country to country, they are difficult to share. OneGeology-Europe, while providing more detailed and complete information, will foster even beyond the geological community an easier exchange of data within Europe and globally. This implies an important work regarding the harmonization of the data, both model and the content. OneGeology-Europe is characterised by the high technological capacity of the EU Member States, and has the final goal to achieve the harmonisation of European geological survey data according to common standards. As a direct consequence Europe will make a further step in terms of innovation and information dissemination, continuing to play a world leading role in the development of geosciences information. The scope of the common harmonized data model was defined primarily by the requirements of the geological map of Europe, but in addition users were consulted and the requirements of both INSPIRE and ‘high-resolution' geological maps were considered. The data model is based on GeoSciML, developed since 2006 by a group of Geological Surveys. The data providers involved in the project implemented a new component that allows the web services to deliver the geological map expressed into GeoSciML. In order to capture the information describing the geological units of the map of Europe the scope of the data model needs to include lithology; age; genesis and

  8. WBSA: web service for bisulfite sequencing data analysis.

    PubMed

    Liang, Fang; Tang, Bixia; Wang, Yanqing; Wang, Jianfeng; Yu, Caixia; Chen, Xu; Zhu, Junwei; Yan, Jiangwei; Zhao, Wenming; Li, Rujiao

    2014-01-01

    Whole-Genome Bisulfite Sequencing (WGBS) and genome-wide Reduced Representation Bisulfite Sequencing (RRBS) are widely used to study DNA methylation. However, data analysis is complicated, lengthy, and hampered by a lack of seamless analytical pipelines. To address these issues, we developed a convenient, stable, and efficient web service called Web Service for Bisulfite Sequencing Data Analysis (WBSA) to analyze bisulfate sequencing data. WBSA focuses on not only CpG methylation, which is the most common biochemical modification in eukaryotic DNA, but also non-CG methylation, which have been observed in plants, iPS cells, oocytes, neurons and stem cells of human. WBSA comprises three main modules as follows: WGBS data analysis, RRBS data analysis, and differentially methylated region (DMR) identification. The WGBS and RRBS modules execute read mapping, methylation site identification, annotation, and advanced analysis, whereas the DMR module identifies actual DMRs and annotates their correlations to genes. WBSA can be accessed and used without charge either online or local version. WBSA also includes the executables of the Portable Batch System (PBS) and standalone versions that can be downloaded from the website together with the installation instructions. WBSA is available at no charge for academic users at http://wbsa.big.ac.cn.

  9. WBSA: Web Service for Bisulfite Sequencing Data Analysis

    PubMed Central

    Wang, Yanqing; Wang, Jianfeng; Yu, Caixia; Chen, Xu; Zhu, Junwei; Yan, Jiangwei; Zhao, Wenming; Li, Rujiao

    2014-01-01

    Whole-Genome Bisulfite Sequencing (WGBS) and genome-wide Reduced Representation Bisulfite Sequencing (RRBS) are widely used to study DNA methylation. However, data analysis is complicated, lengthy, and hampered by a lack of seamless analytical pipelines. To address these issues, we developed a convenient, stable, and efficient web service called Web Service for Bisulfite Sequencing Data Analysis (WBSA) to analyze bisulfate sequencing data. WBSA focuses on not only CpG methylation, which is the most common biochemical modification in eukaryotic DNA, but also non-CG methylation, which have been observed in plants, iPS cells, oocytes, neurons and stem cells of human. WBSA comprises three main modules as follows: WGBS data analysis, RRBS data analysis, and differentially methylated region (DMR) identification. The WGBS and RRBS modules execute read mapping, methylation site identification, annotation, and advanced analysis, whereas the DMR module identifies actual DMRs and annotates their correlations to genes. WBSA can be accessed and used without charge either online or local version. WBSA also includes the executables of the Portable Batch System (PBS) and standalone versions that can be downloaded from the website together with the installation instructions. WBSA is available at no charge for academic users at http://wbsa.big.ac.cn. PMID:24497972

  10. Maintenance and Exchange of Learning Objects in a Web Services Based e-Learning System

    ERIC Educational Resources Information Center

    Vossen, Gottfried; Westerkamp, Peter

    2004-01-01

    "Web services" enable partners to exploit applications via the Internet. Individual services can be composed to build new and more complex ones with additional and more comprehensive functionality. In this paper, we apply the Web service paradigm to electronic learning, and show how to exchange and maintain learning objects is a…

  11. Increasing access to terrestrial ecology and remote sensing (MODIS) data through Web services and visualization tools

    NASA Astrophysics Data System (ADS)

    Santhana Vannan, S.; Cook, R. B.; Wei, Y.

    2012-12-01

    In recent years user access to data and information is increasingly handled through tools, services, and applications. Standards-based services have facilitated this development. These service-based methods to access data has boosted the use of data and in increasingly complex ways. The Oak Ridge National Laboratory Distributed Active Archive Center (ORNL DAAC) has taken the approach of service-based access to data and visualization for distribution and visualization of its terrestrial ecology data, including MODIS (Moderate Resolution Imaging Spectroradiometer) remote sensing data products. The MODIS data products are highly useful for field research. The spectral, spatial and temporal characteristics of MODIS products have made them an important data source for analyzing key science questions relating to Earth system processes at multiple spatial and temporal scales. However, MODIS data volume and the complexity in data format make it less usable in some cases. To solve this usability issue, the ORNL DAAC has developed a system that prepares and distributes subsets of selected MODIS land products in a scale and format useful for field researchers. Web and Web service tools provide MODIS subsets in comma-delimited text format and in GIS compatible GeoTIFF format. Users can download and visualize MODIS subsets for a set of pre-defined locations, order MODIS subsets for any land location or automate the process of subset extraction using a SOAP-based Web service. The MODIS tools and services can be extended to support the large volume of data that would be produced by the various decadal survey missions. http://daac.ornl.gov/MODIS . The ORNL DAAC has also created a Web-based Spatial Data Access Tool (SDAT) that enables users to browse, visualize, and download a wide variety of geospatial data in various user-selected spatial/temporal extents, formats, and projections. SDAT is based on Open Geospatial Consortium (OGC) Web service standards that allows users to

  12. Large area sheet task: Advanced Dendritic Web Growth Development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.; Hopkins, R. H.; Meier, D.; Schruben, J.

    1981-01-01

    A melt level control system was implemented to provide stepless silicon feed rates from zero to rates exactly matching the silicon consumed during web growth. Bench tests of the unit were successfully completed and the system mounted in a web furnace for operational verification. Tests of long term temperature drift correction techniques were made; web width monitoring seems most appropriate for feedback purposes. A system to program the initiation of the web growth cycle was successfully tested. A low cost temperature controller was tested which functions as well as units four times as expensive.

  13. Lexical Link Analysis (LLA) Application: Improving Web Service to Defense Acquisition Visibility Environment

    DTIC Science & Technology

    2015-09-30

    SPONSORED REPORT SERIES Lexical Link Analysis (LLA) Application: Improving Web Service to Defense Acquisition Visibility Environment 30...Lexical Link Analysis (LLA) Application: Improving Web Service to Defense Acquisition Visibility Environment 30 September 2015 Dr. Ying Zhao, Research...tasks completed this year. Task 1. We worked with the OSD OUSD ATL (US) to install the LLA/SSA/CLA system as a web service in the Defense

  14. ClicO FS: an interactive web-based service of Circos.

    PubMed

    Cheong, Wei-Hien; Tan, Yung-Chie; Yap, Soon-Joo; Ng, Kee-Peng

    2015-11-15

    : We present ClicO Free Service, an online web-service based on Circos, which provides a user-friendly, interactive web-based interface with configurable features to generate Circos circular plots. Online web-service is freely available at http://clicofs.codoncloud.com : soonjoo.yap@codongenomics.com Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press.

  15. Design and implementation of CUAHSI WaterML and WaterOneFlow Web Services

    NASA Astrophysics Data System (ADS)

    Valentine, D. W.; Zaslavsky, I.; Whitenack, T.; Maidment, D.

    2007-12-01

    WaterOneFlow is a term for a group of web services created by and for the Consortium of Universities for the Advancement of Hydrologic Science, Inc. (CUAHSI) community. CUAHSI web services facilitate the retrieval of hydrologic observations information from online data sources using the SOAP protocol. CUAHSI Water Markup Language (below referred to as WaterML) is an XML schema defining the format of messages returned by the WaterOneFlow web services. \

  16. Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases.

    PubMed

    Wollbrett, Julien; Larmande, Pierre; de Lamotte, Frédéric; Ruiz, Manuel

    2013-04-15

    In recent years, a large amount of "-omics" data have been produced. However, these data are stored in many different species-specific databases that are managed by different institutes and laboratories. Biologists often need to find and assemble data from disparate sources to perform certain analyses. Searching for these data and assembling them is a time-consuming task. The Semantic Web helps to facilitate interoperability across databases. A common approach involves the development of wrapper systems that map a relational database schema onto existing domain ontologies. However, few attempts have been made to automate the creation of such wrappers. We developed a framework, named BioSemantic, for the creation of Semantic Web Services that are applicable to relational biological databases. This framework makes use of both Semantic Web and Web Services technologies and can be divided into two main parts: (i) the generation and semi-automatic annotation of an RDF view; and (ii) the automatic generation of SPARQL queries and their integration into Semantic Web Services backbones. We have used our framework to integrate genomic data from different plant databases. BioSemantic is a framework that was designed to speed integration of relational databases. We present how it can be used to speed the development of Semantic Web Services for existing relational biological databases. Currently, it creates and annotates RDF views that enable the automatic generation of SPARQL queries. Web Services are also created and deployed automatically, and the semantic annotations of our Web Services are added automatically using SAWSDL attributes. BioSemantic is downloadable at http://southgreen.cirad.fr/?q=content/Biosemantic.

  17. Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases

    PubMed Central

    2013-01-01

    Background In recent years, a large amount of “-omics” data have been produced. However, these data are stored in many different species-specific databases that are managed by different institutes and laboratories. Biologists often need to find and assemble data from disparate sources to perform certain analyses. Searching for these data and assembling them is a time-consuming task. The Semantic Web helps to facilitate interoperability across databases. A common approach involves the development of wrapper systems that map a relational database schema onto existing domain ontologies. However, few attempts have been made to automate the creation of such wrappers. Results We developed a framework, named BioSemantic, for the creation of Semantic Web Services that are applicable to relational biological databases. This framework makes use of both Semantic Web and Web Services technologies and can be divided into two main parts: (i) the generation and semi-automatic annotation of an RDF view; and (ii) the automatic generation of SPARQL queries and their integration into Semantic Web Services backbones. We have used our framework to integrate genomic data from different plant databases. Conclusions BioSemantic is a framework that was designed to speed integration of relational databases. We present how it can be used to speed the development of Semantic Web Services for existing relational biological databases. Currently, it creates and annotates RDF views that enable the automatic generation of SPARQL queries. Web Services are also created and deployed automatically, and the semantic annotations of our Web Services are added automatically using SAWSDL attributes. BioSemantic is downloadable at http://southgreen.cirad.fr/?q=content/Biosemantic. PMID:23586394

  18. A web application to support telemedicine services in Brazil.

    PubMed

    Barbosa, Ana Karina P; de A Novaes, Magdala; de Vasconcelos, Alexandre M L

    2003-01-01

    This paper describes a system that has been developed to support Telemedicine activities in Brazil, a country that has serious problems in the delivery of health services. The system is a part of the broader Tele-health Project that has been developed to make health services more accessible to the low-income population in the northeast region. The HealthNet system is based upon a pilot area that uses fetal and pediatric cardiology. This article describes both the system's conceptual model, including the tele-diagnosis and second medical opinion services, as well as its architecture and development stages. The system model describes both collaborating tools used asynchronously, such as discussion forums, and synchronous tools, such as videoconference services. Web and free-of-charge tools are utilized for implementation, such as Java and MySQL database. Furthermore, an interface with Electronic Patient Record (EPR) systems using Extended Markup Language (XML) technology is also proposed. Finally, considerations concerning the development and implementation process are presented.

  19. BioXSD: the common data-exchange format for everyday bioinformatics web services

    PubMed Central

    Kalaš, Matúš; Puntervoll, Pæl; Joseph, Alexandre; Bartaševičiūtė, Edita; Töpfer, Armin; Venkataraman, Prabakar; Pettifer, Steve; Bryne, Jan Christian; Ison, Jon; Blanchet, Christophe; Rapacki, Kristoffer; Jonassen, Inge

    2010-01-01

    Motivation: The world-wide community of life scientists has access to a large number of public bioinformatics databases and tools, which are developed and deployed using diverse technologies and designs. More and more of the resources offer programmatic web-service interface. However, efficient use of the resources is hampered by the lack of widely used, standard data-exchange formats for the basic, everyday bioinformatics data types. Results: BioXSD has been developed as a candidate for standard, canonical exchange format for basic bioinformatics data. BioXSD is represented by a dedicated XML Schema and defines syntax for biological sequences, sequence annotations, alignments and references to resources. We have adapted a set of web services to use BioXSD as the input and output format, and implemented a test-case workflow. This demonstrates that the approach is feasible and provides smooth interoperability. Semantics for BioXSD is provided by annotation with the EDAM ontology. We discuss in a separate section how BioXSD relates to other initiatives and approaches, including existing standards and the Semantic Web. Availability: The BioXSD 1.0 XML Schema is freely available at http://www.bioxsd.org/BioXSD-1.0.xsd under the Creative Commons BY-ND 3.0 license. The http://bioxsd.org web page offers documentation, examples of data in BioXSD format, example workflows with source codes in common programming languages, an updated list of compatible web services and tools and a repository of feature requests from the community. Contact: matus.kalas@bccs.uib.no; developers@bioxsd.org; support@bioxsd.org PMID:20823319

  20. BioXSD: the common data-exchange format for everyday bioinformatics web services.

    PubMed

    Kalas, Matús; Puntervoll, Pål; Joseph, Alexandre; Bartaseviciūte, Edita; Töpfer, Armin; Venkataraman, Prabakar; Pettifer, Steve; Bryne, Jan Christian; Ison, Jon; Blanchet, Christophe; Rapacki, Kristoffer; Jonassen, Inge

    2010-09-15

    The world-wide community of life scientists has access to a large number of public bioinformatics databases and tools, which are developed and deployed using diverse technologies and designs. More and more of the resources offer programmatic web-service interface. However, efficient use of the resources is hampered by the lack of widely used, standard data-exchange formats for the basic, everyday bioinformatics data types. BioXSD has been developed as a candidate for standard, canonical exchange format for basic bioinformatics data. BioXSD is represented by a dedicated XML Schema and defines syntax for biological sequences, sequence annotations, alignments and references to resources. We have adapted a set of web services to use BioXSD as the input and output format, and implemented a test-case workflow. This demonstrates that the approach is feasible and provides smooth interoperability. Semantics for BioXSD is provided by annotation with the EDAM ontology. We discuss in a separate section how BioXSD relates to other initiatives and approaches, including existing standards and the Semantic Web. The BioXSD 1.0 XML Schema is freely available at http://www.bioxsd.org/BioXSD-1.0.xsd under the Creative Commons BY-ND 3.0 license. The http://bioxsd.org web page offers documentation, examples of data in BioXSD format, example workflows with source codes in common programming languages, an updated list of compatible web services and tools and a repository of feature requests from the community.

  1. Web Service Infrastructure for Correcting InSAR Imaging

    NASA Astrophysics Data System (ADS)

    von Allmen, P. A.; Fielding, E. J.; Xing, Z.; Pan, L.; Fishbein, E.

    2011-12-01

    InSAR images can be obtained from satellite radar data by combining signals acquired at two different times along the spacecraft's orbit, at geospatial locations nearly identical. Changes in the propagation of the radar signal from the first acquisition to the second, caused for example by changes in the tropospheric water vapor content, can lead to a deterioration of the quality of the interferometric data analysis. Other extraneous effects such as ocean tidal loading can also lead to errors that reduce the potential science return of InSAR missions. Data from Global Positioning Systems and infrared radiometers are current used on an ad hoc basis for the tropospheric corrections when available, and operational weather forecast was demonstrated to be able to fill in the remaining spatial and temporal gaps. We have developed a set of web services named OSCAR (Online Services for Correcting Atmosphere in Radar) that transparently to the user retrieves remote sensing and weather forecast data and delivers atmospheric radar delays on a latitude longitude grid that can be directly integrated with Interferometric Synthetic Aperture Radar data processing software. We will describe the common web service architecture, relying on RESTful, that we developed to streamline the development of OSCAR's capabilities. We will also discuss the Bayesian averaging process that we use for merging the radiometric data with numerical weather forecast results. Correcting for biases and estimating the error model will be discussed in detail and validation results will be presented. The success of the correction procedure will be demonstrated by using MODIS data and ECMWF model output. We will also outline the extension of our online correction system to include GPS data to automatically correct for biases in the radiometric data, and a model of ocean tidal loading to correct for long wavelength errors near coastal regions.

  2. Customer Decision Making in Web Services with an Integrated P6 Model

    NASA Astrophysics Data System (ADS)

    Sun, Zhaohao; Sun, Junqing; Meredith, Grant

    Customer decision making (CDM) is an indispensable factor for web services. This article examines CDM in web services with a novel P6 model, which consists of the 6 Ps: privacy, perception, propensity, preference, personalization and promised experience. This model integrates the existing 6 P elements of marketing mix as the system environment of CDM in web services. The new integrated P6 model deals with the inner world of the customer and incorporates what the customer think during the DM process. The proposed approach will facilitate the research and development of web services and decision support systems.

  3. The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*

    PubMed Central

    2010-01-01

    Web services have become a key technology for bioinformatics, since life science databases are globally decentralized and the exponential increase in the amount of available data demands for efficient systems without the need to transfer entire databases for every step of an analysis. However, various incompatibilities among database resources and analysis services make it difficult to connect and integrate these into interoperable workflows. To resolve this situation, we invited domain specialists from web service providers, client software developers, Open Bio* projects, the BioMoby project and researchers of emerging areas where a standard exchange data format is not well established, for an intensive collaboration entitled the BioHackathon 2008. The meeting was hosted by the Database Center for Life Science (DBCLS) and Computational Biology Research Center (CBRC) and was held in Tokyo from February 11th to 15th, 2008. In this report we highlight the work accomplished and the common issues arisen from this event, including the standardization of data exchange formats and services in the emerging fields of glycoinformatics, biological interaction networks, text mining, and phyloinformatics. In addition, common shared object development based on BioSQL, as well as technical challenges in large data management, asynchronous services, and security are discussed. Consequently, we improved interoperability of web services in several fields, however, further cooperation among major database centers and continued collaborative efforts between service providers and software developers are still necessary for an effective advance in bioinformatics web service technologies. PMID:20727200

  4. The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*.

    PubMed

    Katayama, Toshiaki; Arakawa, Kazuharu; Nakao, Mitsuteru; Ono, Keiichiro; Aoki-Kinoshita, Kiyoko F; Yamamoto, Yasunori; Yamaguchi, Atsuko; Kawashima, Shuichi; Chun, Hong-Woo; Aerts, Jan; Aranda, Bruno; Barboza, Lord Hendrix; Bonnal, Raoul Jp; Bruskiewich, Richard; Bryne, Jan C; Fernández, José M; Funahashi, Akira; Gordon, Paul Mk; Goto, Naohisa; Groscurth, Andreas; Gutteridge, Alex; Holland, Richard; Kano, Yoshinobu; Kawas, Edward A; Kerhornou, Arnaud; Kibukawa, Eri; Kinjo, Akira R; Kuhn, Michael; Lapp, Hilmar; Lehvaslaiho, Heikki; Nakamura, Hiroyuki; Nakamura, Yasukazu; Nishizawa, Tatsuya; Nobata, Chikashi; Noguchi, Tamotsu; Oinn, Thomas M; Okamoto, Shinobu; Owen, Stuart; Pafilis, Evangelos; Pocock, Matthew; Prins, Pjotr; Ranzinger, René; Reisinger, Florian; Salwinski, Lukasz; Schreiber, Mark; Senger, Martin; Shigemoto, Yasumasa; Standley, Daron M; Sugawara, Hideaki; Tashiro, Toshiyuki; Trelles, Oswaldo; Vos, Rutger A; Wilkinson, Mark D; York, William; Zmasek, Christian M; Asai, Kiyoshi; Takagi, Toshihisa

    2010-08-21

    Web services have become a key technology for bioinformatics, since life science databases are globally decentralized and the exponential increase in the amount of available data demands for efficient systems without the need to transfer entire databases for every step of an analysis. However, various incompatibilities among database resources and analysis services make it difficult to connect and integrate these into interoperable workflows. To resolve this situation, we invited domain specialists from web service providers, client software developers, Open Bio* projects, the BioMoby project and researchers of emerging areas where a standard exchange data format is not well established, for an intensive collaboration entitled the BioHackathon 2008. The meeting was hosted by the Database Center for Life Science (DBCLS) and Computational Biology Research Center (CBRC) and was held in Tokyo from February 11th to 15th, 2008. In this report we highlight the work accomplished and the common issues arisen from this event, including the standardization of data exchange formats and services in the emerging fields of glycoinformatics, biological interaction networks, text mining, and phyloinformatics. In addition, common shared object development based on BioSQL, as well as technical challenges in large data management, asynchronous services, and security are discussed. Consequently, we improved interoperability of web services in several fields, however, further cooperation among major database centers and continued collaborative efforts between service providers and software developers are still necessary for an effective advance in bioinformatics web service technologies.

  5. Large-area sheet task advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.; Hopkins, R. H.; Meier, D.; Schruben, J.

    1982-01-01

    The thermal stress model was used to generate the design of a low stress lid and shield configuration, which was fabricated and tested experimentally. In preliminary tests, the New Experimental Web Growth Facility performed as designed, producing web on the first run. These experiments suggested desirable design modifications in the melt level sensing system to improve further its performance, and these are being implemented.

  6. Group Testing Based Detection of Web Service DDoS Attackers

    NASA Astrophysics Data System (ADS)

    Nashat, Dalia; Jiang, Xiaohong; Kameyama, Michitaka

    The Distributed Denial of Service attack (DDoS) is one of the major threats to network security that exhausts network bandwidth and resources. Recently, an efficient approach Live Baiting was proposed for detecting the identities of DDoS attackers in web service using low state overhead without requiring either the models of legitimate requests nor anomalous behavior. However, Live Baiting has two limitations. First, the detection algorithm adopted in Live Baiting starts with a suspects list containing all clients, which leads to a high false positive probability especially for large web service with a huge number of clients. Second, Live Baiting adopts a fixed threshold based on the expected number of requests in each bucket during the detection interval without the consideration of daily and weekly traffic variations. In order to address the above limitations, we first distinguish the clients activities (Active and Non-Active clients during the detection interval) in the detection process and then further propose a new adaptive threshold based on the Change Point Detection method, such that we can improve the false positive probability and avoid the dependence of detection on sites and access patterns. Extensive trace-driven simulation has been conducted on real Web trace to demonstrate the detection efficiency of the proposed scheme in comparison with the Live Baiting detection scheme.

  7. Establishing Transportation Framework Services Using the Open Geospatial Consortium Web Feature Service Specification

    NASA Astrophysics Data System (ADS)

    Yang, C.; Wong, D. W.; Phillips, T.; Wright, R. A.; Lindsey, S.; Kafatos, M.

    2005-12-01

    As a teamed partnership of the Center for Earth Observing and Space Research (CEOSR) at George Mason University (GMU), Virginia Department of Transportation (VDOT), Bureau of Transportation Statistics at the Department of Transportation (BTS/DOT), and Intergraph, we established Transportation Framework Data Services using Open Geospatial Consortium (OGC)'s Web Feature Service (WFS) Specification to enable the sharing of transportation data among the federal level with data from BTS/DOT, the state level through VDOT, the industries through Intergraph. CEOSR develops WFS solutions using Intergraph software. Relevant technical documents are also developed and disseminated through the partners. The WFS is integrated with operational geospatial systems at CEOSR and VDOT. CEOSR works with Intergraph on developing WFS solutions and technical documents. GeoMedia WebMap WFS toolkit is used with software and technical support from Intergraph. ESRI ArcIMS WFS connector is used with GMU's campus license of ESRI products. Tested solutions are integrated with framework data service operational systems, including 1) CEOSR's interoperable geospatial information services, FGDC clearinghouse Node, Geospatial One Stop (GOS) portal, and WMS services, 2) VDOT's state transportation data and GIS infrastructure, and 3)BTS/DOT's national transportation data. The project presents: 1) develop and deploy an operational OGC WFS 1.1 interfaces at CEOSR for registering with FGDC/GOS Portal and responding to Web ``POST'' requests for transportation Framework data as listed in Table 1; 2) build the WFS service that can return the data that conform to the drafted ANSI/INCITS L1 Standard (when available) for each identified theme in the format given by OGC Geography Markup Language (GML) Version 3.0 or higher; 3) integrate the OGC WFS with CEOSR's clearinghouse nodes, 4) establish a formal partnership to develop and share WFS-based geospatial interoperability technology among GMU, VDOT, BTS

  8. Predicting the stability of large structured food webs

    PubMed Central

    Allesina, Stefano; Grilli, Jacopo; Barabás, György; Tang, Si; Aljadeff, Johnatan; Maritan, Amos

    2015-01-01

    The stability of ecological systems has been a long-standing focus of ecology. Recently, tools from random matrix theory have identified the main drivers of stability in ecological communities whose network structure is random. However, empirical food webs differ greatly from random graphs. For example, their degree distribution is broader, they contain few trophic cycles, and they are almost interval. Here we derive an approximation for the stability of food webs whose structure is generated by the cascade model, in which ‘larger' species consume ‘smaller' ones. We predict the stability of these food webs with great accuracy, and our approximation also works well for food webs whose structure is determined empirically or by the niche model. We find that intervality and broad degree distributions tend to stabilize food webs, and that average interaction strength has little influence on stability, compared with the effect of variance and correlation. PMID:26198207

  9. Predicting the stability of large structured food webs.

    PubMed

    Allesina, Stefano; Grilli, Jacopo; Barabás, György; Tang, Si; Aljadeff, Johnatan; Maritan, Amos

    2015-07-22

    The stability of ecological systems has been a long-standing focus of ecology. Recently, tools from random matrix theory have identified the main drivers of stability in ecological communities whose network structure is random. However, empirical food webs differ greatly from random graphs. For example, their degree distribution is broader, they contain few trophic cycles, and they are almost interval. Here we derive an approximation for the stability of food webs whose structure is generated by the cascade model, in which 'larger' species consume 'smaller' ones. We predict the stability of these food webs with great accuracy, and our approximation also works well for food webs whose structure is determined empirically or by the niche model. We find that intervality and broad degree distributions tend to stabilize food webs, and that average interaction strength has little influence on stability, compared with the effect of variance and correlation.

  10. Large-area sheet task advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.; Hopkins, R. H.; Meier, D. L.; Schruben, J.

    1982-01-01

    Thermal models were developed that accurately predict the thermally generated stresses in the web crystal which, if too high, cause the crystal to degenerate. The application of the modeling results to the design of low-stress experimental growth configurations will allow the growth of wider web crystals at higher growth velocities. A new experimental web growth machine was constructed. This facility includes all the features necessary for carrying out growth experiments under steady thermal conditions. Programmed growth initiation was developed to give reproducible crystal starts. Width control permits the growth of long ribbons at constant width. Melt level is controlled to 0.1 mm or better. Thus, the capability exists to grow long web crystals of constant width and thickness with little operator intervention, and web growth experiments can now be performed with growth variables controlled to a degree not previously possible.

  11. Web based visualization of large climate data sets

    USGS Publications Warehouse

    Alder, Jay R.; Hostetler, Steven W.

    2015-01-01

    We have implemented the USGS National Climate Change Viewer (NCCV), which is an easy-to-use web application that displays future projections from global climate models over the United States at the state, county and watershed scales. We incorporate the NASA NEX-DCP30 statistically downscaled temperature and precipitation for 30 global climate models being used in the Fifth Assessment Report (AR5) of the Intergovernmental Panel on Climate Change (IPCC), and hydrologic variables we simulated using a simple water-balance model. Our application summarizes very large, complex data sets at scales relevant to resource managers and citizens and makes climate-change projection information accessible to users of varying skill levels. Tens of terabytes of high-resolution climate and water-balance data are distilled to compact binary format summary files that are used in the application. To alleviate slow response times under high loads, we developed a map caching technique that reduces the time it takes to generate maps by several orders of magnitude. The reduced access time scales to >500 concurrent users. We provide code examples that demonstrate key aspects of data processing, data exporting/importing and the caching technique used in the NCCV.

  12. The use of geospatial web services for exchanging utilities data

    NASA Astrophysics Data System (ADS)

    Kuczyńska, Joanna

    2013-04-01

    Geographic information technologies and related geo-information systems currently play an important role in the management of public administration in Poland. One of these tasks is to maintain and update Geodetic Evidence of Public Utilities (GESUT), part of the National Geodetic and Cartographic Resource, which contains an important for many institutions information of technical infrastructure. It requires an active exchange of data between the Geodesy and Cartography Documentation Centers and institutions, which administrate transmission lines. The administrator of public utilities, is legally obliged to provide information about utilities to GESUT. The aim of the research work was to develop a universal data exchange methodology, which can be implemented on a variety of hardware and software platforms. This methodology use Unified Modeling Language (UML), eXtensible Markup Language (XML), and Geography Markup Language (GML). The proposed methodology is based on the two different strategies: Model Driven Architecture (MDA) and Service Oriented Architecture (SOA). Used solutions are consistent with the INSPIRE Directive and ISO 19100 series standards for geographic information. On the basis of analysis of the input data structures, conceptual models were built for both databases. Models were written in the universal modeling language: UML. Combined model that defines a common data structure was also built. This model was transformed into developed for the exchange of geographic information GML standard. The structure of the document describing the data that may be exchanged is defined in the .xsd file. Network services were selected and implemented in the system designed for data exchange based on open source tools. Methodology was implemented and tested. Data in the agreed data structure and metadata were set up on the server. Data access was provided by geospatial network services: data searching possibilities by Catalog Service for the Web (CSW), data

  13. Cloud/web mapping and geoprocessing services - Intelligently linking geoinformation

    NASA Astrophysics Data System (ADS)

    Veenendaal, Bert; Brovelli, Maria Antonia; Wu, Lixin

    2016-04-01

    We live in a world that is alive with information and geographies. ;Everything happens somewhere; (Tosta, 2001). This reality is being exposed in the digital earth technologies providing a multi-dimensional, multi-temporal and multi-resolution model of the planet, based on the needs of diverse actors: from scientists to decision makers, communities and citizens (Brovelli et al., 2015). We are building up a geospatial information infrastructure updated in real time thanks to mobile, positioning and sensor observations. Users can navigate, not only through space but also through time, to access historical data and future predictions based on social and/or environmental models. But how do we find the information about certain geographic locations or localities when it is scattered in the cloud and across the web of data behind a diversity of databases, web services and hyperlinked pages? We need to be able to link geoinformation together in order to integrate it, make sense of it, and use it appropriately for managing the world and making decisions.

  14. Footprint Database and web services for the Herschel space observatory

    NASA Astrophysics Data System (ADS)

    Verebélyi, Erika; Dobos, László; Kiss, Csaba

    2015-08-01

    Using all telemetry and observational meta-data, we created a searchable database of Herschel observation footprints. Data from the Herschel space observatory is freely available for everyone but no uniformly processed catalog of all observations has been published yet. As a first step, we unified the data model for all three Herschel instruments in all observation modes and compiled a database of sky coverage information. As opposed to methods using a pixellation of the sphere, in our database, sky coverage is stored in exact geometric form allowing for precise area calculations. Indexing of the footprints allows for very fast search among observations based on pointing, time, sky coverage overlap and meta-data. This enables us, for example, to find moving objects easily in Herschel fields. The database is accessible via a web site and also as a set of REST web service functions which makes it usable from program clients like Python or IDL scripts. Data is available in various formats including Virtual Observatory standards.

  15. The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud.

    PubMed

    Wolstencroft, Katherine; Haines, Robert; Fellows, Donal; Williams, Alan; Withers, David; Owen, Stuart; Soiland-Reyes, Stian; Dunlop, Ian; Nenadic, Aleksandra; Fisher, Paul; Bhagat, Jiten; Belhajjame, Khalid; Bacall, Finn; Hardisty, Alex; Nieva de la Hidalga, Abraham; Balcazar Vargas, Maria P; Sufi, Shoaib; Goble, Carole

    2013-07-01

    The Taverna workflow tool suite (http://www.taverna.org.uk) is designed to combine distributed Web Services and/or local tools into complex analysis pipelines. These pipelines can be executed on local desktop machines or through larger infrastructure (such as supercomputers, Grids or cloud environments), using the Taverna Server. In bioinformatics, Taverna workflows are typically used in the areas of high-throughput omics analyses (for example, proteomics or transcriptomics), or for evidence gathering methods involving text mining or data mining. Through Taverna, scientists have access to several thousand different tools and resources that are freely available from a large range of life science institutions. Once constructed, the workflows are reusable, executable bioinformatics protocols that can be shared, reused and repurposed. A repository of public workflows is available at http://www.myexperiment.org. This article provides an update to the Taverna tool suite, highlighting new features and developments in the workbench and the Taverna Server.

  16. RESTFul based heterogeneous Geoprocessing workflow interoperation for Sensor Web Service

    NASA Astrophysics Data System (ADS)

    Yang, Chao; Chen, Nengcheng; Di, Liping

    2012-10-01

    Advanced sensors on board satellites offer detailed Earth observations. A workflow is one approach for designing, implementing and constructing a flexible and live link between these sensors' resources and users. It can coordinate, organize and aggregate the distributed sensor Web services to meet the requirement of a complex Earth observation scenario. A RESTFul based workflow interoperation method is proposed to integrate heterogeneous workflows into an interoperable unit. The Atom protocols are applied to describe and manage workflow resources. The XML Process Definition Language (XPDL) and Business Process Execution Language (BPEL) workflow standards are applied to structure a workflow that accesses sensor information and one that processes it separately. Then, a scenario for nitrogen dioxide (NO2) from a volcanic eruption is used to investigate the feasibility of the proposed method. The RESTFul based workflows interoperation system can describe, publish, discover, access and coordinate heterogeneous Geoprocessing workflows.

  17. Combining Grid, SOA and Web Services for Smaller Computing Environments

    NASA Astrophysics Data System (ADS)

    Koschel, Arne; Kleiner, Carsten

    This paper describes practical experiences from a project to couple Grid and SOA technologies in smaller environments. Web services have been applied in two structurally different case studies to solve tasks with a Grid that is integrated into a SOA and vice versa. The case studies have revealed important insight on how and when to couple SOA and Grid technologies including monitoring aspects. Some interesting general rules are derived on what has to be observed when combining SOA and Grid in smaller environments. Performance and software technical analysis have been used in validating the results. They also clearly showed the benefits gained by employing SOA and Grid concepts form both a performance as well as an architectural perspective.

  18. SIMBAD on the Web and Links to other Services

    NASA Astrophysics Data System (ADS)

    Wenger, M.; Fernique, P.; Genova, F.; Bartlett, J.; Bienayme, O.; Bonnarel, F.; Dubois, P.; Egret, D.; Jasniewicz, G.; Lesteven, S.; Monier, R.; Ochsenbein, F.

    1996-12-01

    SIMBAD is the reference database for the identification and bibliography of astronomical objects. For 1,250,000 stars and galaxies, it contains basic data (coordinates, magnitudes, object type, etc.), identifiers, measurements from the most important catalogues, and bibliographical references, i.e. links to papers in which the object is mentioned. SIMBAD is developed and maintained by the CDS (Centre de donnees astronomiques de Strasbourg) in France, which also maintains the VizieR catalogue database and develops the ALADIN interactive sky atlas. Since September 1996, SIMBAD has been accessible through the World-Wide Web. It can be queried by identifiers, by coordinates, or through a sampling facility. Seen as a hub of data of several types, SIMBAD takes the best advantage of the navigation permitted by the Web. The query result is linked to other relevant information: neighbouring objects; catalogue description in the Dictionary of Nomenclature, with further access to the whole catalogue and the VizieR database; abstracts and tables at CDS and links to the ADS, which in turn may provide access to the full paper and similar papers. Through the bibliographic code, access is also given to the other SIMBAD objects mentioned in the paper. Such links cannot be hard-coded in the database, due to the need for evolutive URLs. A dedicated software, developed by CDS, known as GLU (Generateur de Liens Uniforme), uses a data dictionary to add linking information to the data which are previously tagged according to their type. The GLU dynamically replaces tagged data by URLs, according to data type, data value, requested result, and response time when mirror sites are involved. All CDS data are currently integrated into the GLU dictionary, enabling links between all services. This will allow selection of relevant database mirror copies. The distributed nature of the dictionary will also help linking external services together.

  19. Meta4: a web application for sharing and annotating metagenomic gene predictions using web services.

    PubMed

    Richardson, Emily J; Escalettes, Franck; Fotheringham, Ian; Wallace, Robert J; Watson, Mick

    2013-01-01

    Whole-genome shotgun metagenomics experiments produce DNA sequence data from entire ecosystems, and provide a huge amount of novel information. Gene discovery projects require up-to-date information about sequence homology and domain structure for millions of predicted proteins to be presented in a simple, easy-to-use system. There is a lack of simple, open, flexible tools that allow the rapid sharing of metagenomics datasets with collaborators in a format they can easily interrogate. We present Meta4, a flexible and extensible web application that can be used to share and annotate metagenomic gene predictions. Proteins and predicted domains are stored in a simple relational database, with a dynamic front-end which displays the results in an internet browser. Web services are used to provide up-to-date information about the proteins from homology searches against public databases. Information about Meta4 can be found on the project website, code is available on Github, a cloud image is available, and an example implementation can be seen at.

  20. WebTraceMiner: a web service for processing and mining EST sequence trace files.

    PubMed

    Liang, Chun; Wang, Gang; Liu, Lin; Ji, Guoli; Liu, Yuansheng; Chen, Jinqiao; Webb, Jason S; Reese, Greg; Dean, Jeffrey F D

    2007-07-01

    Expressed sequence tags (ESTs) remain a dominant approach for characterizing the protein-encoding portions of various genomes. Due to inherent deficiencies, they also present serious challenges for data quality control. Before GenBank submission, EST sequences are typically screened and trimmed of vector and adapter/linker sequences, as well as polyA/T tails. Removal of these sequences presents an obstacle for data validation of error-prone ESTs and impedes data mining of certain functional motifs, whose detection relies on accurate annotation of positional information for polyA tails added posttranscriptionally. As raw DNA sequence information is made increasingly available from public repositories, such as NCBI Trace Archive, new tools will be necessary to reanalyze and mine this data for new information. WebTraceMiner (www.conifergdb.org/software/wtm) was designed as a public sequence processing service for raw EST traces, with a focus on detection and mining of sequence features that help characterize 3' and 5' termini of cDNA inserts, including vector fragments, adapter/linker sequences, insert-flanking restriction endonuclease recognition sites and polyA or polyT tails. WebTraceMiner complements other public EST resources and should prove to be a unique tool to facilitate data validation and mining of error-prone ESTs (e.g. discovery of new functional motifs).

  1. QoS prediction for Web service in Mobile Internet environment

    NASA Astrophysics Data System (ADS)

    Sun, Qibo; Wang, Lubao; Wang, Shangguang; Ma, You; Hsu, Ching-Hsien

    2016-07-01

    Quality of Services (QoS) prediction plays an important role in Web service recommendation. Many existing Web service QoS prediction approaches are highly accurate and useful in Internet environments. However, the QoS data of Web service in Mobile Internet are notably more volatile, which makes these approaches fail in making accurate QoS predictions of Web services. In this paper, by weakening the volatility of QoS data, we propose an accurate Web service QoS prediction approach based on the collaborative filtering algorithm. This approach contains three processes, that is, QoS preprocessing, user similarity computing and QoS predicting. We have implemented our proposed approach with an experiment based on real-world and synthetic datasets. The results demonstrate that our approach outperforms other approaches in Mobile Internet.

  2. Standards-Based, Web Services for Interoperable Geosciences Data Systems

    NASA Astrophysics Data System (ADS)

    Domenico, B.; Nativi, S.; Bigagli, L.; Caron, J.

    2005-12-01

    Disparate, "stove-pipe" data systems are among the main impediments to many interdisciplinary research projects in the geosciences. The solid earth disciplines and hydrology tend to use Geographic Information Systems (GIS) which enable them to store and interact with data representing as discrete features on or near the surface of the earth. Studies of the oceans and atmosphere on the other hand involve systems that represent data as discrete points in the continuous function space of fluid dynamics. Attempts to understand the nature of severe precipitation and flooding events are hampered by the difficulty of integrating data such as streamflows from hydrological data systems with radar data and precipitation forecasts from atmospheric science data systems. An effort is underway to address some of these issues with an interoperability experiment within the framework of the Open Geospatial Consortium (OGC). The experiment is called GALEON (Geo-interface to Atmosphere, Land, Earth, Ocean NetCDF). Teams at the Unidata Program Center and University of Florence are working with a number of international partners to implement a web services interface to traditional atmospheric and oceanographic datasets currently stored in netCDF form or served via the OPeNDAP protocol . The project will result in a gateway service using Web Coverage Service (WCS) specification of the OGC. Underneath the WCS interface will be a combination of technologies including THREDDS (THematic Real-time Environmental Distributed Data Services) and HDF5 (Heirarchical Data Format) in addition to netCDF and OPeNDAP. A key component of the project is to develop mechanisms for explicit encoding of coordinate system information in the form of Coordinate System extensions to NcML (the netCDF Markup Language), directly in the data files themselves and in the form of GML (Geography Markup Language) extensions to NcML. These extensions, called NcML-GML, include a subset profile of the standard GML which is

  3. Web Services at the National Oceanic and Atmospheric Administration (NOAA) National Climatic Data Center (NCDC)

    NASA Astrophysics Data System (ADS)

    Ansari, S.; Baldwin, R.; Del Greco, S.; Lott, N.; Rutledge, G.

    2007-12-01

    NOAA's National Climatic Data Center (NCDC) currently archives over 1.5 petabytes of climatological data from various networks and sources including in-situ, numerical models, radar and satellite. Access to these datasets is evolving from interactive web interfaces utilizing database technology to standardized web services in a Service Oriented Architecture (SOA). NCDC is currently offering several web services using Simple Object Access Protocol (SOAP), XML over Representational State Transfer (REST/XML), Open Geospatial Consortium (OGC) Web Map Service (WMS) / Web Feature Service (WFS) / Web Coverage Service (WCS) and OPeNDAP web service protocols. These services offer users a direct connection between their client applications and NCDC data servers. In addition, users may embed access to the services in custom applications to efficiently navigate and subset data in an automated fashion. NCDC currently provides gridded numerical model data through a THREDDS Data Server and GrADS Data Server which offers OPeNDAP and WCS access. In-situ network metadata are available through WMS and WFS while the corresponding time-series data are accessible through SOAP and REST web services. These in-situ services are a part of the Consortium of Universities for the Advancement of Hydrologic Science (CUAHSI) WaterOneFlow services, a consolidated access system for hydrologic data, and comply with the WaterOneFlow specifications. NCDC's Severe Weather Data Inventory (SWDI), which provides user access to archives of several datasets critical to the detection and evaluation of severe weather, is also accessible through REST/XML services. Providing cataloging, access and search capabilities for many of NCDC's datasets using community driven standards is a top priority for the ever increasing data volumes being archived at NCDC. Providing interoperable access is critical to supporting data stewardship across multiple scientific disciplines and user types. This demonstration will

  4. Real-time GIS data model and sensor web service platform for environmental data management.

    PubMed

    Gong, Jianya; Geng, Jing; Chen, Zeqiang

    2015-01-09

    Effective environmental data management is meaningful for human health. In the past, environmental data management involved developing a specific environmental data management system, but this method often lacks real-time data retrieving and sharing/interoperating capability. With the development of information technology, a Geospatial Service Web method is proposed that can be employed for environmental data management. The purpose of this study is to determine a method to realize environmental data management under the Geospatial Service Web framework. A real-time GIS (Geographic Information System) data model and a Sensor Web service platform to realize environmental data management under the Geospatial Service Web framework are proposed in this study. The real-time GIS data model manages real-time data. The Sensor Web service platform is applied to support the realization of the real-time GIS data model based on the Sensor Web technologies. To support the realization of the proposed real-time GIS data model, a Sensor Web service platform is implemented. Real-time environmental data, such as meteorological data, air quality data, soil moisture data, soil temperature data, and landslide data, are managed in the Sensor Web service platform. In addition, two use cases of real-time air quality monitoring and real-time soil moisture monitoring based on the real-time GIS data model in the Sensor Web service platform are realized and demonstrated. The total time efficiency of the two experiments is 3.7 s and 9.2 s. The experimental results show that the method integrating real-time GIS data model and Sensor Web Service Platform is an effective way to manage environmental data under the Geospatial Service Web framework.

  5. A verification strategy for web services composition using enhanced stacked automata model.

    PubMed

    Nagamouttou, Danapaquiame; Egambaram, Ilavarasan; Krishnan, Muthumanickam; Narasingam, Poonkuzhali

    2015-01-01

    Currently, Service-Oriented Architecture (SOA) is becoming the most popular software architecture of contemporary enterprise applications, and one crucial technique of its implementation is web services. Individual service offered by some service providers may symbolize limited business functionality; however, by composing individual services from different service providers, a composite service describing the intact business process of an enterprise can be made. Many new standards have been defined to decipher web service composition problem namely Business Process Execution Language (BPEL). BPEL provides an initial work for forming an Extended Markup Language (XML) specification language for defining and implementing business practice workflows for web services. The problems with most realistic approaches to service composition are the verification of composed web services. It has to depend on formal verification method to ensure the correctness of composed services. A few research works has been carried out in the literature survey for verification of web services for deterministic system. Moreover the existing models did not address the verification properties like dead transition, deadlock, reachability and safetyness. In this paper, a new model to verify the composed web services using Enhanced Stacked Automata Model (ESAM) has been proposed. The correctness properties of the non-deterministic system have been evaluated based on the properties like dead transition, deadlock, safetyness, liveness and reachability. Initially web services are composed using Business Process Execution Language for Web Service (BPEL4WS) and it is converted into ESAM (combination of Muller Automata (MA) and Push Down Automata (PDA)) and it is transformed into Promela language, an input language for Simple ProMeLa Interpreter (SPIN) tool. The model is verified using SPIN tool and the results revealed better recital in terms of finding dead transition and deadlock in contrast to the

  6. VLAB: Web services, portlets, and workflows for enabling cyber-infrastructure in computational mineral physics

    NASA Astrophysics Data System (ADS)

    Bollig, Evan F.; Jensen, Paul A.; Lyness, Martin D.; Nacar, Mehmet A.; da Silveira, Pedro R. C.; Kigelman, Dan; Erlebacher, Gordon; Pierce, Marlon; Yuen, David A.; da Silva, Cesar R. S.

    2007-08-01

    Virtual organizations are rapidly changing the way scientific communities perform research. Web-based portals, environments designed for collaboration and sharing data, have now become the nexus of distributed high performance computing. Within this paper, we address the infrastructure of the Virtual Laboratory for Earth and Planetary Materials (VLab), an organization dedicated to using quantum calculations to solve problems in mineral physics. VLab provides a front-end portal, accessible from a browser, for scientists to submit large-scale simulations and interactively analyze their results. The cyber-infrastructure of VLab concentrates on scientific workflows, portal development, responsive user-interfaces and automatic generation of web services, all necessary to ensure a maximum degree of flexibility and ease of use for both the expert scientist and the layperson.

  7. A Web-based Multi-user Interactive Visualization System For Large-Scale Computing Using Google Web Toolkit Technology

    NASA Astrophysics Data System (ADS)

    Weiss, R. M.; McLane, J. C.; Yuen, D. A.; Wang, S.

    2009-12-01

    We have created a web-based, interactive system for multi-user collaborative visualization of large data sets (on the order of terabytes) that allows users in geographically disparate locations to simultaneous and collectively visualize large data sets over the Internet. By leveraging asynchronous java and XML (AJAX) web development paradigms via the Google Web Toolkit (http://code.google.com/webtoolkit/), we are able to provide remote, web-based users a web portal to LCSE's (http://www.lcse.umn.edu) large-scale interactive visualization system already in place at the University of Minnesota that provides high resolution visualizations to the order of 15 million pixels by Megan Damon. In the current version of our software, we have implemented a new, highly extensible back-end framework built around HTTP "server push" technology to provide a rich collaborative environment and a smooth end-user experience. Furthermore, the web application is accessible via a variety of devices including netbooks, iPhones, and other web- and javascript-enabled cell phones. New features in the current version include: the ability for (1) users to launch multiple visualizations, (2) a user to invite one or more other users to view their visualization in real-time (multiple observers), (3) users to delegate control aspects of the visualization to others (multiple controllers) , and (4) engage in collaborative chat and instant messaging with other users within the user interface of the web application. We will explain choices made regarding implementation, overall system architecture and method of operation, and the benefits of an extensible, modular design. We will also discuss future goals, features, and our plans for increasing scalability of the system which includes a discussion of the benefits potentially afforded us by a migration of server-side components to the Google Application Engine (http://code.google.com/appengine/).

  8. Web servers and services for electrostatics calculations with APBS and PDB2PQR

    SciTech Connect

    Unni, Samir; Huang, Yong; Hanson, Robert M.; Tobias, Malcolm; Krishnan, Sriram; Li, Wilfred; Nielsen, Jens E.; Baker, Nathan A.

    2011-04-02

    APBS and PDB2PQR are widely utilized free software packages for biomolecular electrostatics calculations. Using the Opal toolkit, we have developed a web services framework for these software packages that enables the use of APBS and PDB2PQR by users who do not have local access to the necessary amount of computational capabilities. This not only increases accessibility of the software to a wider range of scientists, educators, and students but it also increases the availability of electrostatics calculations on portable computing platforms. Users can access this new functionality in two ways. First, an Opal-enabled version of APBS is provided in current distributions, available freely on the web. Second, we have extended the PDB2PQR web server to provide an interface for the setup, execution, and visualization electrostatics potentials as calculated by APBS. This web interface also uses the Opal framework which ensures the scalability needed to support the large APBS user community. Both of these resources are available from the APBS/PDB2PQR website: http://www.poissonboltzmann.org/.

  9. Web servers and services for electrostatics calculations with APBS and PDB2PQR

    PubMed Central

    Unni, Samir; Huang, Yong; Hanson, Robert; Tobias, Malcolm; Krishnan, Sriram; Li, Wilfred W.; Nielsen, Jens E.; Baker, Nathan A.

    2011-01-01

    APBS and PDB2PQR are widely utilized free software packages for biomolecular electrostatics calculations. Using the Opal toolkit, we have developed a Web services framework for these software packages that enables the use of APBS and PDB2PQR by users who do not have local access to the necessary amount of computational capabilities. This not only increases accessibility of the software to a wider range of scientists, educators, and students but it also increases the availability of electrostatics calculations on portable computing platforms. Users can access this new functionality in two ways. First, an Opal-enabled version of APBS is provided in current distributions, available freely on the web. Second, we have extended the PDB2PQR web server to provide an interface for the setup, execution, and visualization electrostatics potentials as calculated by APBS. This web interface also uses the Opal framework which ensures the scalability needed to support the large APBS user community. Both of these resources are available from the APBS/PDB2PQR website: http://www.poissonboltzmann.org/. PMID:21425296

  10. Web servers and services for electrostatics calculations with APBS and PDB2PQR.

    PubMed

    Unni, Samir; Huang, Yong; Hanson, Robert M; Tobias, Malcolm; Krishnan, Sriram; Li, Wilfred W; Nielsen, Jens E; Baker, Nathan A

    2011-05-01

    APBS and PDB2PQR are widely utilized free software packages for biomolecular electrostatics calculations. Using the Opal toolkit, we have developed a Web services framework for these software packages that enables the use of APBS and PDB2PQR by users who do not have local access to the necessary amount of computational capabilities. This not only increases accessibility of the software to a wider range of scientists, educators, and students but also increases the availability of electrostatics calculations on portable computing platforms. Users can access this new functionality in two ways. First, an Opal-enabled version of APBS is provided in current distributions, available freely on the web. Second, we have extended the PDB2PQR web server to provide an interface for the setup, execution, and visualization of electrostatic potentials as calculated by APBS. This web interface also uses the Opal framework which ensures the scalability needed to support the large APBS user community. Both of these resources are available from the APBS/PDB2PQR website: http://www.poissonboltzmann.org/. Copyright © 2011 Wiley Periodicals, Inc.

  11. Determinants of Corporate Web Services Adoption: A Survey of Companies in Korea

    ERIC Educational Resources Information Center

    Kim, Daekil

    2010-01-01

    Despite the growing interest and attention from Information Technology researchers and practitioners, empirical research on factors that influence an organization's likelihood of adoption of Web Services has been limited. This study identified the factors influencing Web Services adoption from the perspective of 151 South Korean firms. The…

  12. The Business Information Services: Old-Line Online Moves to the Web.

    ERIC Educational Resources Information Center

    O'Leary, Mick

    1997-01-01

    Although the availability of free information on the World Wide Web has placed traditional, fee-based proprietary online services on the defensive, most major online business services are now on the Web. Highlights several business information providers: Profound, NewsNet and ProQuest Direct, Dow Jones and Wall Street Journal Interactive Edition,…

  13. Determinants of Corporate Web Services Adoption: A Survey of Companies in Korea

    ERIC Educational Resources Information Center

    Kim, Daekil

    2010-01-01

    Despite the growing interest and attention from Information Technology researchers and practitioners, empirical research on factors that influence an organization's likelihood of adoption of Web Services has been limited. This study identified the factors influencing Web Services adoption from the perspective of 151 South Korean firms. The…

  14. Promoting and tracking the use of hospital library web services by outside entities.

    PubMed

    Leman, Hope

    2010-04-01

    This column describes a process that can be used to market a hospital library Web service for use by external entities and monitor its use by the worldwide audience (e.g., medical, academic and public libraries, offices of research administration). Included are concrete suggestions to help hospital librarians in their efforts to encourage adoption of their Web service by other institutions.

  15. The Business Information Services: Old-Line Online Moves to the Web.

    ERIC Educational Resources Information Center

    O'Leary, Mick

    1997-01-01

    Although the availability of free information on the World Wide Web has placed traditional, fee-based proprietary online services on the defensive, most major online business services are now on the Web. Highlights several business information providers: Profound, NewsNet and ProQuest Direct, Dow Jones and Wall Street Journal Interactive Edition,…

  16. UniPrime2: a web service providing easier Universal Primer design.

    PubMed

    Boutros, Robin; Stokes, Nicola; Bekaert, Michaël; Teeling, Emma C

    2009-07-01

    The UniPrime2 web server is a publicly available online resource which automatically designs large sets of universal primers when given a gene reference ID or Fasta sequence input by a user. UniPrime2 works by automatically retrieving and aligning homologous sequences from GenBank, identifying regions of conservation within the alignment, and generating suitable primers that can be used to amplify variable genomic regions. In essence, UniPrime2 is a suite of publicly available software packages (Blastn, T-Coffee, GramAlign, Primer3), which reduces the laborious process of primer design, by integrating these programs into a single software pipeline. Hence, UniPrime2 differs from previous primer design web services in that all steps are automated, linked, saved and phylogenetically delimited, only requiring a single user-defined gene reference ID or input sequence. We provide an overview of the web service and wet-laboratory validation of the primers generated. The system is freely accessible at: http://uniprime.batlab.eu. UniPrime2 is licenced under a Creative Commons Attribution Noncommercial-Share Alike 3.0 Licence.

  17. EPEPT: a web service for enhanced P-value estimation in permutation tests.

    PubMed

    Knijnenburg, Theo A; Lin, Jake; Rovira, Hector; Boyle, John; Shmulevich, Ilya

    2011-10-24

    In computational biology, permutation tests have become a widely used tool to assess the statistical significance of an event under investigation. However, the common way of computing the P-value, which expresses the statistical significance, requires a very large number of permutations when small (and thus interesting) P-values are to be accurately estimated. This is computationally expensive and often infeasible. Recently, we proposed an alternative estimator, which requires far fewer permutations compared to the standard empirical approach while still reliably estimating small P-values. The proposed P-value estimator has been enriched with additional functionalities and is made available to the general community through a public website and web service, called EPEPT. This means that the EPEPT routines can be accessed not only via a website, but also programmatically using any programming language that can interact with the web. Examples of web service clients in multiple programming languages can be downloaded. Additionally, EPEPT accepts data of various common experiment types used in computational biology. For these experiment types EPEPT first computes the permutation values and then performs the P-value estimation. Finally, the source code of EPEPT can be downloaded. Different types of users, such as biologists, bioinformaticians and software engineers, can use the method in an appropriate and simple way.

  18. EPEPT: A web service for enhanced P-value estimation in permutation tests

    PubMed Central

    2011-01-01

    Background In computational biology, permutation tests have become a widely used tool to assess the statistical significance of an event under investigation. However, the common way of computing the P-value, which expresses the statistical significance, requires a very large number of permutations when small (and thus interesting) P-values are to be accurately estimated. This is computationally expensive and often infeasible. Recently, we proposed an alternative estimator, which requires far fewer permutations compared to the standard empirical approach while still reliably estimating small P-values [1]. Results The proposed P-value estimator has been enriched with additional functionalities and is made available to the general community through a public website and web service, called EPEPT. This means that the EPEPT routines can be accessed not only via a website, but also programmatically using any programming language that can interact with the web. Examples of web service clients in multiple programming languages can be downloaded. Additionally, EPEPT accepts data of various common experiment types used in computational biology. For these experiment types EPEPT first computes the permutation values and then performs the P-value estimation. Finally, the source code of EPEPT can be downloaded. Conclusions Different types of users, such as biologists, bioinformaticians and software engineers, can use the method in an appropriate and simple way. Availability http://informatics.systemsbiology.net/EPEPT/ PMID:22024252

  19. Implementing broad scale childhood immunization decision support as a web service.

    PubMed

    Zhu, Vivienne J; Grannis, Shaun J; Rosenman, Marc B; Downs, Stephen M

    2009-11-14

    Timely vaccinations decrease a child's risk of contracting vaccine-preventable disease and prevent disease outbreaks. Childhood immunization schedules may represent the only clinical guideline for which there is official national consensus. So an immunization clinical decision support system (CDSS) is a natural application. However, immunization schedules are complex and change frequently. Maintaining multiple CDSS's is expensive and error prone. Therefore, a practical strategy would be an immunization CDSS as a centralized web service that can be easily accessed by various electronic medical record (EMR) systems. This allows centralized maintenance of immunization guidelines. We have developed a web service, based on Miller's tabular model with modifications, which implements routine childhood immunization guidelines. This immunization web service is currently operating in the Regenstrief Institute intranet and system evaluations are ongoing. We will make this web service available on the Internet. In this paper, we describe this web service -based immunization decision support tool.

  20. Semantic Web Services with Web Ontology Language (OWL-S) - Specification of Agent-Services for DARPA Agent Markup Language (DAML)

    DTIC Science & Technology

    2006-08-01

    member of an OWL class for bookselling services. (For advertising purposes, such a class would be a subclass of Profile.). The second way to...what the service does. For example, the capability of Barnes and Noble, a bookseller , is to sell books. The capability of a Web Service can be viewed...different services with similar capabilities. For example, a requester may prefer a bookseller that has a Dunn and Bradstreet quality rating. In order to

  1. SSE Announcement - New GIS Web Mapping Applications and Services

    Atmospheric Science Data Center

    2016-06-30

    ... If you haven’t already noticed the link to the new SSE-GIS web application on the SSE homepage entitled “GIS Web Mapping Applications and Services”, we invite you to visit the site. The Surface meteorology and Solar Energy (SSE) v1.0.3 Web Mapping ...

  2. Large area sheet task: Advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.; Hopkins, R. H.; Meier, D.; Schruben, J.

    1981-01-01

    The growth of silicon dendritic web for photovoltaic applications was investigated. The application of a thermal model for calculating buckling stresses as a function of temperature profile in the web is discussed. Lid and shield concepts were evaluated to provide the data base for enhancing growth velocity. An experimental web growth machine which embodies in one unit the mechanical and electronic features developed in previous work was developed. In addition, evaluation of a melt level control system was begun, along with preliminary tests of an elongated crucible design. The economic analysis was also updated to incorporate some minor cost changes. The initial applications of the thermal model to a specific configuration gave results consistent with experimental observation in terms of the initiation of buckling vs. width for a given crystal thickness.

  3. Large-area sheet task advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.

    1984-01-01

    The thermal models used for analyzing dendritic web growth and calculating the thermal stress were reexamined to establish the validity limits imposed by the assumptions of the models. Also, the effects of thermal conduction through the gas phase were evaluated and found to be small. New growth designs, both static and dynamic, were generated using the modeling results. Residual stress effects in dendritic web were examined. In the laboratory, new techniques for the control of temperature distributions in three dimensions were developed. A new maximum undeformed web width of 5.8 cm was achieved. A 58% increase in growth velocity of 150 micrometers thickness was achieved with dynamic hardware. The area throughput goals for transient growth of 30 and 35 sq cm/min were exceeded.

  4. BioMOBY Successfully Integrates Distributed Heterogeneous Bioinformatics Web Services. The PlaNet Exemplar Case1

    PubMed Central

    Wilkinson, Mark; Schoof, Heiko; Ernst, Rebecca; Haase, Dirk

    2005-01-01

    The burden of noninteroperability between on-line genomic resources is increasingly the rate-limiting step in large-scale genomic analysis. BioMOBY is a biological Web Service interoperability initiative that began as a retreat of representatives from the model organism database community in September, 2001. Its long-term goal is to provide a simple, extensible platform through which the myriad of on-line biological databases and analytical tools can offer their information and analytical services in a fully automated and interoperable way. Of the two branches of the larger BioMOBY project, the Web Services branch (MOBY-S) has now been deployed over several dozen data sources worldwide, revealing some significant observations about the nature of the integrative biology problem; in particular, that Web Service interoperability in the domain of bioinformatics is, unexpectedly, largely a syntactic rather than a semantic problem. That is to say, interoperability between bioinformatics Web Services can be largely achieved simply by specifying the data structures being passed between the services (syntax) even without rich specification of what those data structures mean (semantics). Thus, one barrier of the integrative problem has been overcome with a surprisingly simple solution. Here, we present a nontechnical overview of the critical components that give rise to the interoperable behaviors seen in MOBY-S and discuss an exemplar case, the PlaNet consortium, where MOBY-S has been deployed to integrate the on-line plant genome databases and analytical services provided by a European consortium of databases and data service providers. PMID:15888673

  5. The ICNP BaT - from translation tool to translation web service.

    PubMed

    Schrader, Ulrich

    2009-01-01

    The ICNP BaT has been developed as a web application to support the collaborative translation of different versions of the ICNP into different languages. A prototype of a web service is described that could reuse the translations in the database of the ICNP BaT to provide automatic translations of nursing content based on the ICNP terminology globally. The translation web service is based on a service-oriented architecture making it easy to interoperate with different applications. Such a global translation server would free individual institutions from the maintenance costs of realizing their own translation services.

  6. Working without a Crystal Ball: Predicting Web Trends for Web Services Librarians

    ERIC Educational Resources Information Center

    Ovadia, Steven

    2008-01-01

    User-centered design is a principle stating that electronic resources, like library Web sites, should be built around the needs of the users. This article interviews Web developers of library and non-library-related Web sites, determining how they assess user needs and how they decide to adapt certain technologies for users. According to the…

  7. Working without a Crystal Ball: Predicting Web Trends for Web Services Librarians

    ERIC Educational Resources Information Center

    Ovadia, Steven

    2008-01-01

    User-centered design is a principle stating that electronic resources, like library Web sites, should be built around the needs of the users. This article interviews Web developers of library and non-library-related Web sites, determining how they assess user needs and how they decide to adapt certain technologies for users. According to the…

  8. Web Services and Other Enhancements at the Northern California Earthquake Data Center

    NASA Astrophysics Data System (ADS)

    Neuhauser, D. S.; Zuzlewski, S.; Allen, R. M.

    2012-12-01

    The Northern California Earthquake Data Center (NCEDC) provides data archive and distribution services for seismological and geophysical data sets that encompass northern California. The NCEDC is enhancing its ability to deliver rapid information through Web Services. NCEDC Web Services use well-established web server and client protocols and REST software architecture to allow users to easily make queries using web browsers or simple program interfaces and to receive the requested data in real-time rather than through batch or email-based requests. Data are returned to the user in the appropriate format such as XML, RESP, or MiniSEED depending on the service, and are compatible with the equivalent IRIS DMC web services. The NCEDC is currently providing the following Web Services: (1) Station inventory and channel response information delivered in StationXML format, (2) Channel response information delivered in RESP format, (3) Time series availability delivered in text and XML formats, (4) Single channel and bulk data request delivered in MiniSEED format. The NCEDC is also developing a rich Earthquake Catalog Web Service to allow users to query earthquake catalogs based on selection parameters such as time, location or geographic region, magnitude, depth, azimuthal gap, and rms. It will return (in QuakeML format) user-specified results that can include simple earthquake parameters, as well as observations such as phase arrivals, codas, amplitudes, and computed parameters such as first motion mechanisms, moment tensors, and rupture length. The NCEDC will work with both IRIS and the International Federation of Digital Seismograph Networks (FDSN) to define a uniform set of web service specifications that can be implemented by multiple data centers to provide users with a common data interface across data centers. The NCEDC now hosts earthquake catalogs and waveforms from the US Department of Energy (DOE) Enhanced Geothermal Systems (EGS) monitoring networks. These

  9. Improving access to space weather data via workflows and web services

    NASA Astrophysics Data System (ADS)

    Sundaravel, Anu Swapna

    The Space Physics Interactive Data Resource (SPIDR) is a web-based interactive tool developed by NOAA's National Geophysical Data Center to provide access to historical space physics datasets. These data sets are widely used by physicists for space weather modeling and predictions. Built on a distributed network of databases and application servers, SPIDR offers services in two ways: via a web page interface and via a web service interface. SPIDR exposes several SOAP-based web services that client applications implement to connect to a number of data sources for data download and processing. At present, the usage of the web services has been difficult, adding unnecessary complexity to client applications and inconvenience to the scientists who want to use these datasets. The purpose of this study focuses on improving SPIDR's web interface to better support data access, integration and display. This is accomplished in two ways: (1) examining the needs of scientists to better understand what web services they require to better access and process these datasets and (2) developing a client application to support SPIDR's SOAP-based services using the Kepler scientific workflow system. To this end, we identified, designed and developed several web services for filtering the existing datasets and created several Kepler workflows to automate routine tasks associated with these datasets. These workflows are a part of the custom NGDC build of the Kepler tool. Scientists are already familiar with Kepler due to its extensive use in this domain. As a result, this approach provides them with tools that are less daunting than raw web services and ultimately more useful and customizable. We evaluated our work by interviewing various scientists who make use of SPIDR and having them use the developed Kepler workflows while recording their feedback and suggestions. Our work has improved SPIDR such that new web services are now available and scientists have access to a desktop

  10. Large-area sheet task advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.

    1983-01-01

    Modeling in the development of low stress configurations for wide web growth is presented. Parametric sensitivity to identify design features which can be used for dynamic trimming of the furnace element was studied. Temperature measurements of experimental growth behavior led to modification in the growth system to improve lateral temperature distributions.

  11. Web Services in Earth Science Data Systems: Realities of Brokering, Chaining and Federating Services

    NASA Astrophysics Data System (ADS)

    Burnett, M.; Seablom, M.; Pfister, R.

    2004-12-01

    will have access to the complete provenance of the newly generated product. The user receives only the data that she needs in a form that is optimized for her study in rapid turnaround. Today, technology is emerging to begin to meet this vision. Web Services technology is a key part of this evolving solution. There are still challenges to face. This presentation will discuss Web Services technology and its application to achieve this vision as well as the realities of the challenges and issues we still face in making the vision a reality.

  12. A Privacy Access Control Framework for Web Services Collaboration with Role Mechanisms

    NASA Astrophysics Data System (ADS)

    Liu, Linyuan; Huang, Zhiqiu; Zhu, Haibin

    With the popularity of Internet technology, web services are becoming the most promising paradigm for distributed computing. This increased use of web services has meant that more and more personal information of consumers is being shared with web service providers, leading to the need to guarantee the privacy of consumers. This paper proposes a role-based privacy access control framework for Web services collaboration, it utilizes roles to specify the privacy privileges of services, and considers the impact on the reputation degree of the historic experience of services in playing roles. Comparing to the traditional privacy access control approaches, this framework can make the fine-grained authorization decision, thus efficiently protecting consumers' privacy.

  13. Cross-Dataset Analysis and Visualization Driven by Expressive Web Services

    NASA Astrophysics Data System (ADS)

    Alexandru Dumitru, Mircea; Catalin Merticariu, Vlad

    2015-04-01

    The deluge of data that is hitting us every day from satellite and airborne sensors is changing the workflow of environmental data analysts and modelers. Web geo-services play now a fundamental role, and are no longer needed to preliminary download and store the data, but rather they interact in real-time with GIS applications. Due to the very large amount of data that is curated and made available by web services, it is crucial to deploy smart solutions for optimizing network bandwidth, reducing duplication of data and moving the processing closer to the data. In this context we have created a visualization application for analysis and cross-comparison of aerosol optical thickness datasets. The application aims to help researchers identify and visualize discrepancies between datasets coming from various sources, having different spatial and time resolutions. It also acts as a proof of concept for integration of OGC Web Services under a user-friendly interface that provides beautiful visualizations of the explored data. The tool was built on top of the World Wind engine, a Java based virtual globe built by NASA and the open source community. For data retrieval and processing we exploited the OGC Web Coverage Service potential: the most exciting aspect being its processing extension, a.k.a. the OGC Web Coverage Processing Service (WCPS) standard. A WCPS-compliant service allows a client to execute a processing query on any coverage offered by the server. By exploiting a full grammar, several different kinds of information can be retrieved from one or more datasets together: scalar condensers, cross-sectional profiles, comparison maps and plots, etc. This combination of technology made the application versatile and portable. As the processing is done on the server-side, we ensured that the minimal amount of data is transferred and that the processing is done on a fully-capable server, leaving the client hardware resources to be used for rendering the visualization

  14. Enabling Interoperability and Servicing Multiple User Segments Through Web Services, Standards, and Data Tools

    NASA Astrophysics Data System (ADS)

    Palanisamy, Giriprakash; Wilson, Bruce E.; Cook, Robert B.; Lenhardt, Chris W.; Santhana Vannan, Suresh; Pan, Jerry; McMurry, Ben F.; Devarakonda, Ranjeet

    2010-12-01

    The Oak Ridge National Laboratory Distributed Active Archive Center (ORNL DAAC) is one of the science-oriented data centers in EOSDIS, aligned primarily with terrestrial ecology. The ORNL DAAC archives and serves data from NASA-funded field campaigns (such as BOREAS, FIFE, and LBA), regional and global data sets relevant to biogeochemical cycles, land validation studies for remote sensing, and source code for some terrestrial ecology models. Users of the ORNL DAAC include field ecologists, remote sensing scientists, modelers at various scales, synthesis scientific groups, a range of educational users (particularly baccalaureate and graduate instruction), and decision support analysts. It is clear that the wide range of users served by the ORNL DAAC have differing needs and differing capabilities for accessing and using data. It is also not possible for the ORNL DAAC, or the other data centers in EDSS to develop all of the tools and interfaces to support even most of the potential uses of data directly. As is typical of Information Technology to support a research enterprise, the user needs will continue to evolve rapidly over time and users themselves cannot predict future needs, as those needs depend on the results of current investigation. The ORNL DAAC is addressing these needs by targeted implementation of web services and tools which can be consumed by other applications, so that a modeler can retrieve data in netCDF format with the Climate Forecasting convention and a field ecologist can retrieve subsets of that same data in a comma separated value format, suitable for use in Excel or R. Tools such as our MODIS Subsetting capability, the Spatial Data Access Tool (SDAT; based on OGC web services), and OPeNDAP-compliant servers such as THREDDS particularly enable such diverse means of access. We also seek interoperability of metadata, recognizing that terrestrial ecology is a field where there are a very large number of relevant data repositories. ORNL DAAC

  15. The Building of Digital Archives Personalized Service Website based on Web 2.0

    NASA Astrophysics Data System (ADS)

    Ziyu, Cheng; Haining, An

    Web2.0 technology has been applied in the digital archive personalized service website. Although there are few users and they lack of understanding currently, the author believe that web2.0 relying on many advantages of fast, convenient, and the zero cost, will be approved by more and more users in the future. With the continuous perfection and popularity of web2.0, the personalized service of digital archives will display a new vitality. In the paper, author proposes the application approaches of web2.0 in the system.

  16. Integrating Distributed Physical and Biological Marine data using OGC Web Services

    NASA Astrophysics Data System (ADS)

    Gemmell, A. L.; Blower, J. D.; Haines, K.; Price, M.; Millard, K.; Harpham, Q.

    2008-12-01

    Earth scientists use highly diverse sources of data, including in-situ measurements, remotely-sensed information and the results of numerical simulations. The ability to access, visualize, combine and compare these datasets is at the core of scientific investigation, but such tasks have hitherto been very difficult or impossible due to a fundamental lack of harmonization of data products. As a result, much valuable data remains underused. We present a web portal that visualizes and compares physical and biological marine data from both numerical models and in-situ observations. The model data are obtained via an Open Geospatial Consortium (OGC)-compatible Web Map Service (WMS), and the observed data are obtained via an OGC Web Feature Service (WFS). The physical model WMS, the biological model WMS and the WFS are located at three different institutes. This ability to display in-situ point observations alongside model data facilitates much valuable work on model validation. As models become increasingly complex, and sources of observed data become more numerous, it is important to be able to access and compare this growing amount of data efficiently, to ensure cross-checking and consistency between models and observations. The web portal is being applied in a large European operational oceanography project (ECOOP), where it is used to provide support to ecosystem modellers, and specifically to aid detection of potentially harmful algal blooms in coastal areas. The development of this system has been enabled by the conceptual framework of the Climate Science Modelling Language (CSML), which provides a common view onto all these datasets, independent of their storage format or physical location. CSML is based upon emerging international standards, enabling interoperability with other standards-based infrastructures. By creating a reusable Java library that embodies the CSML concepts we are able to apply these techniques to a number of other projects.

  17. SPIDR III: A Web Services Based System for Managing and Accessing Solar Terrestrial Physics Data

    NASA Astrophysics Data System (ADS)

    Redmon, R.; Kihn, E.; Zhizhin, M.

    2005-05-01

    We present SPIDR III, a web based data access, visualization and data management system for the space environment community, allowing a solar terrestrial physics customer to intelligently access and manage historical space physics data for integration with environmental models and space weather forecasts. SPIDR III is the newly redesigned Space Physics Interactive Resource (SPIDR) web application and was redesigned with input from it's user community via an intensive usability study. We will present on SPIDR III's new features, improved use and on lessons learned in usability and federating multi-source data. In 2004, SPIDR II underwent extensive rework yielding a completely redesigned interface for improved user interaction and the addition of many enhanced and complex features. The usability alterations were motivated in large part by a usability study performed by outside professional site reviewers and involving key data managers and current SPIDR II users. SPIDR III is built following the application direct to data archive paradigm, using Web Services both for internal and external exchange of data and information. It is now a framework and application set of Web Services. This application suite is fully open source and is designed to operate as a standalone VO as well as seamlessly integrate with other existing VOs. This extensible and open design yields easy mirroring worldwide for free and open exchange of scientific data and information. Data managed by SPIDR includes Geomagnetic Indices, GOES, Ionospheric, and DMSP which is archived/ingested from many data providers including WDC, IIWG, SAO, HDF, AFCCC, SEC, NASA, and this list is easily extendable. SPIDR III may be accessed via http://spidr.ngdc.noaa.gov/spidr/ A guest login is provided for convenience. Becoming a full access user, is free and only requires completing a short registration form.

  18. Exploring Earth Observation Time Series Data on the Web - Implementation of a Processing Service for Web-based Analysis.

    NASA Astrophysics Data System (ADS)

    Gerlach, R.; Nativi, S.; Schmullius, C.; Mazetti, P.

    2008-12-01

    Over the past decade there has been a general trend in information technology from monolithic desktop applications towards loosely coupled Web Services. Following this trend Web-based visualization of map like data (e.g. OGC Web Mapping Service) has found widespread use, especially as part of Spatial Data Infrastructures (SDI). In combination with metadata catalogues the primary aim of these map services is data publication and distribution, hence the capabilities are limited to viewing or browsing (e.g. zoom, pan, identify). Only a few examples exist enabling users to analyse data (e.g. calculating statistics or merging different data layers) through a web interface or Web Service. In this paper intermediate results are presented from research conducted on the implementation of an OGC Web Processing Service (WPS) for online analysis of Earth observation time series data. Earth observation data at regional to global scale has been collected with various sensors and satellite systems for more than three decades. The amounts of data acquired seem to have outpaced our ability to exploit and analysis it. With aid of consistent data products (e.g. MODIS suite of land surface products) and the advancements in information technology and in particular MDA, SOA and Grid computing the basis to overcome this shortfall is available. In this context the objective of this study was to develop a generic Processing Service for spatio- temporal exploration of coverage data. The advantage of implementing it as a WPS is that it can be accessed by any client (either a browser or a service) through the Internet and it delivers reproducible results facilitating interoperability and flexibility. Besides, WPS has been experimented as a standard processing interface for heterogeneous Grid infrastructures in the framework of the OGC-OGF interoperability initiative, facilitating scalability. Combining the WPS with a Catalogue Service (i.e. the OGC CS-W) allows users to select and access

  19. Open source software and web services for designing therapeutic molecules.

    PubMed

    Singla, Deepak; Dhanda, Sandeep Kumar; Chauhan, Jagat Singh; Bhardwaj, Anshu; Brahmachari, Samir K; Raghava, Gajendra P S

    2013-01-01

    Despite the tremendous progress in the field of drug designing, discovering a new drug molecule is still a challenging task. Drug discovery and development is a costly, time consuming and complex process that requires millions of dollar and 10-15 years to bring new drug molecules in the market. This huge investment and long-term process are attributed to high failure rate, complexity of the problem and strict regulatory rules, in addition to other factors. Given the availability of 'big' data with ever improving computing power, it is now possible to model systems which is expected to provide time and cost effectiveness to drug discovery process. Computer Aided Drug Designing (CADD) has emerged as a fast alternative method to bring down the cost involved in discovering a new drug. In past, numerous computer programs have been developed across the globe to assist the researchers working in the field of drug discovery. Broadly, these programs can be classified in three categories, freeware, shareware and commercial software. In this review, we have described freeware or open-source software that are commonly used for designing therapeutic molecules. Major emphasis will be on software and web services in the field of chemo- or pharmaco-informatics that includes in silico tools used for computing molecular descriptors, inhibitors designing against drug targets, building QSAR models, and ADMET properties.

  20. Interactive web service system for exploration of biological pathways.

    PubMed

    Yin, Zong-Xian; Li, Sin-Yan

    2014-09-01

    Existing bioinformatics databases such as KEGG (Kyoto Encyclopedia of Genes and Genomes) provide a wealth of information. However, they generally lack a user-friendly and interactive interface. The study proposes a web service system for exploring the contents of the KEGG database in an intuitive and interactive manner. In the proposed system, the requested pathways are uploaded from the KEGG database and are converted from a static format into an interactive format such that their contents can be more readily explored. The system supports two basic functions, namely an exhaustive search for all possible reaction paths between two specified genes in a biological pathway, and the identification of similar reaction sequences in different biological pathways. The feasibility of the proposed system is evaluated by means of an initial pilot study involving 10 students with varying degrees of experience of the KEGG website and its operations. The results indicate that the system provides a useful learning tool for investigating biological pathways. A system is proposed for converting the static pathway maps in KEGG into interactive maps such that they can be explored at will. The results of a preliminary trial confirm that the system is straightforward to use and provides a versatile and effective tool for examining and comparing biological pathways. Copyright © 2014 Elsevier B.V. All rights reserved.

  1. omiXcore: a web server for prediction of protein interactions with large RNA.

    PubMed

    Armaos, Alexandros; Cirillo, Davide; Gaetano Tartaglia, Gian

    2017-10-01

    Here we introduce omiXcore, a server for calculations of protein binding to large RNAs (> 500 nucleotides). Our webserver allows (i) use of both protein and RNA sequences without size restriction, (ii) pre-compiled library for exploration of human long intergenic RNAs interactions and (iii) prediction of binding sites. omiXcore was trained and tested on enhanced UV Cross-Linking and ImmunoPrecipitation data. The method discriminates interacting and non-interacting protein-RNA pairs and identifies RNA binding sites with Areas under the ROC curve > 0.80, which suggests that the tool is particularly useful to prioritize candidates for further experimental validation. omiXcore is freely accessed on the web at http://service.tartaglialab.com/grant_submission/omixcore. gian.tartaglia@crg.es. Supplementary data are available at Bioinformatics online.

  2. Job submission and management through web services: the experience with the CREAM service

    NASA Astrophysics Data System (ADS)

    Aiftimiei, C.; Andreetto, P.; Bertocco, S.; Fina, S. D.; Ronco, S. D.; Dorigo, A.; Gianelle, A.; Marzolla, M.; Mazzucato, M.; Sgaravatto, M.; Verlato, M.; Zangrando, L.; Corvo, M.; Miccio, V.; Sciaba, A.; Cesini, D.; Dongiovanni, D.; Grandi, C.

    2008-07-01

    Modern Grid middleware is built around components providing basic functionality, such as data storage, authentication, security, job management, resource monitoring and reservation. In this paper we describe the Computing Resource Execution and Management (CREAM) service. CREAM provides a Web service-based job execution and management capability for Grid systems; in particular, it is being used within the gLite middleware. CREAM exposes a Web service interface allowing conforming clients to submit and manage computational jobs to a Local Resource Management System. We developed a special component, called ICE (Interface to CREAM Environment) to integrate CREAM in gLite. ICE transfers job submissions and cancellations from the Workload Management System, allowing users to manage CREAM jobs from the gLite User Interface. This paper describes some recent studies aimed at assessing the performance and reliability of CREAM and ICE; those tests have been performed as part of the acceptance tests for integration of CREAM and ICE in gLite. We also discuss recent work towards enhancing CREAM with a BES and JSDL compliant interface.

  3. The TPAC Digital Library: A Web Application for Publishing Large Catalogs of Earth Science Data

    NASA Astrophysics Data System (ADS)

    Blain, P.; Pugh, T.

    2010-12-01

    The Tasmanian Partnership for Advanced Computing (TPAC) has developed a rich web-based application that publishes large catalogs of scientific datasets. The TPAC Digital Library provides a user interface for viewing, searching, and accessing the catalog data collections, as well as enabling data services for user access. The product also provides management functions for librarians of digital data collections. The search features allow files to be selected graphically based on geospatial extent, or by file name, variable name, attribute value, and by tag. Alternatively, there is a file manager style interface that provides a direct route to the data. The interface is specifically geared towards discovery and access of earth science data files, which makes it intuitive and easy to navigate. Files can be downloaded, or accessed through OPeNDAP, GridFTP, WCS, Matlab and other interfaces. The digital library can harvest metadata from THREDDS, Hyrax, IPCC catalogs and other instances of the digital library. The product is freely available under an open-source license, and is currently deployed by a small but active user base. It has existed since 2005, and remains under constant development by TPAC and other contributors (including the Australian Bureau of Meteorology). Current development initiatives will allow interoperability with library service protocols, as well as other data archive organizations and scientific bodies for data reference transparency. There is a project in progress that will allow the data collection’s owner to attach attribute information, access rights, and meta-data to the data collection to conform to various user community and service standards. Future releases will allow publishers to attach media rich information about the data collection, as well as additional information about scientific results, and papers and web pages that reference the data collection. The presentation will discuss the current implementation, and future directions.

  4. Consistent data recording across a health system and web-enablement allow service quality comparisons: online data for commissioning dermatology services.

    PubMed

    Dmitrieva, Olga; Michalakidis, Georgios; Mason, Aaron; Jones, Simon; Chan, Tom; de Lusignan, Simon

    2012-01-01

    A new distributed model of health care management is being introduced in England. Family practitioners have new responsibilities for the management of health care budgets and commissioning of services. There are national datasets available about health care providers and the geographical areas they serve. These data could be better used to assist the family practitioner turned health service commissioners. Unfortunately these data are not in a form that is readily usable by these fledgling family commissioning groups. We therefore Web enabled all the national hospital dermatology treatment data in England combining it with locality data to provide a smart commissioning tool for local communities. We used open-source software including the Ruby on Rails Web framework and MySQL. The system has a Web front-end, which uses hypertext markup language cascading style sheets (HTML/CSS) and JavaScript to deliver and present data provided by the database. A combination of advanced caching and schema structures allows for faster data retrieval on every execution. The system provides an intuitive environment for data analysis and processing across a large health system dataset. Web-enablement has enabled data about in patients, day cases and outpatients to be readily grouped, viewed, and linked to other data. The combination of web-enablement, consistent data collection from all providers; readily available locality data; and a registration based primary system enables the creation of data, which can be used to commission dermatology services in small areas. Standardized datasets collected across large health enterprises when web enabled can readily benchmark local services and inform commissioning decisions.

  5. Available, intuitive and free! Building e-learning modules using web 2.0 services.

    PubMed

    Tam, Chun Wah Michael; Eastwood, Anne

    2012-01-01

    E-learning is part of the mainstream in medical education and often provides the most efficient and effective means of engaging learners in a particular topic. However, translating design and content ideas into a useable product can be technically challenging, especially in the absence of information technology (IT) support. There is little published literature on the use of web 2.0 services to build e-learning activities. To describe the web 2.0 tools and solutions employed to build the GP Synergy evidence-based medicine and critical appraisal online course. We used and integrated a number of free web 2.0 services including: Prezi, a web-based presentation platform; YouTube, a video sharing service; Google Docs, a online document platform; Tiny.cc, a URL shortening service; and Wordpress, a blogging platform. The course consisting of five multimedia-rich, tutorial-like modules was built without IT specialist assistance or specialised software. The web 2.0 services used were free. The course can be accessed with a modern web browser. Modern web 2.0 services remove many of the technical barriers for creating and sharing content on the internet. When used synergistically, these services can be a flexible and low-cost platform for building e-learning activities. They were a pragmatic solution in our context.

  6. Large-Scale Interaction Strategies for Web-Based Professional Development

    ERIC Educational Resources Information Center

    Giguere, Paul J.; Formica, Scott W.; Harding, Wayne M.

    2004-01-01

    This article discusses five interaction strategies that can be used in large-scale (more than thirty participants) Web-based training. Evaluation data are presented from seven Web-based continuing education workshops conducted with United States Department of Education Middle School Drug Prevention and School Safety Coordinators (MSCs) that used…

  7. Use of the Web To Provide Learning Support for a Large Metabolism and Nutrition Class.

    ERIC Educational Resources Information Center

    Henly, Debra C.; Reid, Athol E.

    2001-01-01

    Describes the introduction of a web-based package, WebCT, to support student learning in a large metabolism and nutrition class. Reports that student usage of the site was generally high and that students who achieved a high overall score completed on average three times as many formative assessments as students who did poorly. (Author/MM)

  8. The Effectiveness of Lecture-Integrated, Web-Supported Case Studies in Large Group Teaching

    ERIC Educational Resources Information Center

    Azzawi, May; Dawson, Maureen M.

    2007-01-01

    The effectiveness of lecture-integrated and web-supported case studies in supporting a large and academically diverse group of undergraduate students was evaluated in the present study. Case studies and resource (web)-based learning were incorporated as two complementary interactive learning strategies into the traditional curriculum. A truncated…

  9. Use of the Web To Provide Learning Support for a Large Metabolism and Nutrition Class.

    ERIC Educational Resources Information Center

    Henly, Debra C.; Reid, Athol E.

    2001-01-01

    Describes the introduction of a web-based package, WebCT, to support student learning in a large metabolism and nutrition class. Reports that student usage of the site was generally high and that students who achieved a high overall score completed on average three times as many formative assessments as students who did poorly. (Author/MM)

  10. The Effectiveness of Lecture-Integrated, Web-Supported Case Studies in Large Group Teaching

    ERIC Educational Resources Information Center

    Azzawi, May; Dawson, Maureen M.

    2007-01-01

    The effectiveness of lecture-integrated and web-supported case studies in supporting a large and academically diverse group of undergraduate students was evaluated in the present study. Case studies and resource (web)-based learning were incorporated as two complementary interactive learning strategies into the traditional curriculum. A truncated…

  11. The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation.

    PubMed

    Wilkinson, Mark D; Vandervalk, Benjamin; McCarthy, Luke

    2011-10-24

    The complexity and inter-related nature of biological data poses a difficult challenge for data and tool integration. There has been a proliferation of interoperability standards and projects over the past decade, none of which has been widely adopted by the bioinformatics community. Recent attempts have focused on the use of semantics to assist integration, and Semantic Web technologies are being welcomed by this community. SADI - Semantic Automated Discovery and Integration - is a lightweight set of fully standards-compliant Semantic Web service design patterns that simplify the publication of services of the type commonly found in bioinformatics and other scientific domains. Using Semantic Web technologies at every level of the Web services "stack", SADI services consume and produce instances of OWL Classes following a small number of very straightforward best-practices. In addition, we provide codebases that support these best-practices, and plug-in tools to popular developer and client software that dramatically simplify deployment of services by providers, and the discovery and utilization of those services by their consumers. SADI Services are fully compliant with, and utilize only foundational Web standards; are simple to create and maintain for service providers; and can be discovered and utilized in a very intuitive way by biologist end-users. In addition, the SADI design patterns significantly improve the ability of software to automatically discover appropriate services based on user-needs, and automatically chain these into complex analytical workflows. We show that, when resources are exposed through SADI, data compliant with a given ontological model can be automatically gathered, or generated, from these distributed, non-coordinating resources - a behaviour we have not observed in any other Semantic system. Finally, we show that, using SADI, data dynamically generated from Web services can be explored in a manner very similar to data housed in

  12. The Semantic Automated Discovery and Integration (SADI) Web service Design-Pattern, API and Reference Implementation

    PubMed Central

    2011-01-01

    Background The complexity and inter-related nature of biological data poses a difficult challenge for data and tool integration. There has been a proliferation of interoperability standards and projects over the past decade, none of which has been widely adopted by the bioinformatics community. Recent attempts have focused on the use of semantics to assist integration, and Semantic Web technologies are being welcomed by this community. Description SADI - Semantic Automated Discovery and Integration - is a lightweight set of fully standards-compliant Semantic Web service design patterns that simplify the publication of services of the type commonly found in bioinformatics and other scientific domains. Using Semantic Web technologies at every level of the Web services "stack", SADI services consume and produce instances of OWL Classes following a small number of very straightforward best-practices. In addition, we provide codebases that support these best-practices, and plug-in tools to popular developer and client software that dramatically simplify deployment of services by providers, and the discovery and utilization of those services by their consumers. Conclusions SADI Services are fully compliant with, and utilize only foundational Web standards; are simple to create and maintain for service providers; and can be discovered and utilized in a very intuitive way by biologist end-users. In addition, the SADI design patterns significantly improve the ability of software to automatically discover appropriate services based on user-needs, and automatically chain these into complex analytical workflows. We show that, when resources are exposed through SADI, data compliant with a given ontological model can be automatically gathered, or generated, from these distributed, non-coordinating resources - a behaviour we have not observed in any other Semantic system. Finally, we show that, using SADI, data dynamically generated from Web services can be explored in a manner

  13. Existence and construction of large stable food webs

    NASA Astrophysics Data System (ADS)

    Haerter, Jan O.; Mitarai, Namiko; Sneppen, Kim

    2017-09-01

    Ecological diversity is ubiquitous despite the restrictions imposed by competitive exclusion and apparent competition. To explain the observed richness of species in a given habitat, food-web theory has explored nonlinear functional responses, self-interaction, or spatial structure and dispersal—model ingredients that have proven to promote stability and diversity. We return instead here to classical Lotka-Volterra equations, where species-species interaction is characterized by a simple product and spatial restrictions are ignored. We quantify how this idealization imposes constraints on coexistence and diversity for many species. To this end, we introduce the concept of free and controlled species and use this to demonstrate how stable food webs can be constructed by the sequential addition of species. The resulting food webs can reach dozens of species and generally yield nonrandom degree distributions in accordance with the constraints imposed through the assembly process. Our model thus serves as a formal starting point for the study of sustainable interaction patterns between species.

  14. A Proposal for a Thesaurus for Web Services in Solar Radiation

    NASA Technical Reports Server (NTRS)

    Gschwind, Benoit; Menard, Lionel; Ranchin, Thierry; Wald, Lucien; Stackhouse, Paul W., Jr.

    2007-01-01

    Metadata are necessary to discover, describe and exchange any type of information, resource and service at a large scale. A significant amount of effort has been made in the field of geography and environment to establish standards. Efforts still remain to address more specific domains such as renewable energies. This communication focuses on solar energy and more specifically on aspects in solar radiation that relate to geography and meteorology. A thesaurus in solar radiation is proposed for the keys elements in solar radiation namely time, space and radiation types. The importance of time-series in solar radiation is outlined and attributes of the key elements are discussed. An XML schema for encoding metadata is proposed. The exploitation of such a schema in web services is discussed. This proposal is a first attempt at establishing a thesaurus for describing data and applications in solar radiation.

  15. A Proposal for a Thesaurus for Web Services in Solar Radiation

    NASA Technical Reports Server (NTRS)

    Gschwind, Benoit; Menard, Lionel; Ranchin, Thierry; Wald, Lucien; Stackhouse, Paul W., Jr.

    2007-01-01

    Metadata are necessary to discover, describe and exchange any type of information, resource and service at a large scale. A significant amount of effort has been made in the field of geography and environment to establish standards. Efforts still remain to address more specific domains such as renewable energies. This communication focuses on solar energy and more specifically on aspects in solar radiation that relate to geography and meteorology. A thesaurus in solar radiation is proposed for the keys elements in solar radiation namely time, space and radiation types. The importance of time-series in solar radiation is outlined and attributes of the key elements are discussed. An XML schema for encoding metadata is proposed. The exploitation of such a schema in web services is discussed. This proposal is a first attempt at establishing a thesaurus for describing data and applications in solar radiation.

  16. Allergy Risk Finder: Hypothesis Generation System for Allergy Risks via Web Service.

    PubMed

    Aramaki, Eiji; Shikata, Shuko; Watabe, Eriko; Miyabe, Mai; Usuda, Yasuyuki; Ayaya, Satsuki; Kumagaya, Shinichiro

    2015-01-01

    This study's aim was to build a web service that automatically collects and tests hypotheses for possible allergy risks. We crowdsourced for unknown allergy risks, and obtained odds ratios. By using the collected hypotheses, we built a web service that estimates allergy risks from a questionnaire (consisting of 10 questions that we gathered from the crowdsourcing task), and at the end, we asked the users their new hypotheses on possible allergy risks. The web service also asked the users to send their original hypotheses to contribute to find the cause of allergy. In the near future, clinical trials to validate the hypotheses found in this study are desired.

  17. Service Knowledge Spaces for Semantic Collaboration in Web-based Systems

    NASA Astrophysics Data System (ADS)

    Bianchini, Devis; de Antonellis, Valeria; Melchiori, Michele

    Semantic Web technologies have been applied to enable collaboration in open distributed systems, where interoperability issues raise due to the absence of a global view of the shared resources. Adoption of service-oriented technologies has improved interoperability at the application level by exporting systems functionalities as Web services. In fact, Service Oriented Architecture (SOA) constitutes an appropriate platform-independent approach to implement collaboration activities by means of automatic service discovery and composition. Recently, service discovery has been applied to collaborative environments such as the P2P one, where independent partners need cooperate through resource sharing without a stable network configuration and adopting different semantic models. Model-based techniques relying on Semantic Web need be defined to generate semantic service descriptions, allowing collaborative partners to export their functionalities in a semantic way. Semantic-based service matchmaking techniques are in charge of effectively and efficiently evaluating similarity between service requests and service offers in a huge, dynamic distributed environment. The result is an evolving service knowledge space where collaborative partners that provide similar services are semantically related and constitute synergic service centres in a given domain. Specific modeling requirements related to Semantic Web, service-oriented and P2P technologies must be considered.

  18. Market Research: The World Wide Web Meets the Online Services.

    ERIC Educational Resources Information Center

    Bing, Michelle

    1996-01-01

    The World Wide Web can provide direct market research data inexpensively or can target the appropriate professional online database and narrow the search. This article discusses the Web presence of research and investment firms, financial pages, trade associations, and electronic publications containing market research data. It lists Uniform…

  19. A Base Solution for Exposing IMS Telecommunication Services to Web 2.0 Enabled Applications

    NASA Astrophysics Data System (ADS)

    Deinert, Florian; Murarasu, Alin; Bachmann, Andreas; Magedanz, Thomas

    The convergence of telecommunication and Web 2.0 services is leading to new opportunities for the telecommunications market. Companies are looking for ways to include their services in Web 2.0 applications. Predictions suggest that future telecommunication networks will be based on the IP Multimedia Subsystem (IMS), an all IP telecommunication core network. This paper describes an approach to combining Web 2.0 enabled applications, namely widgets, with telecommunication features using IMS. Widgets are small applications based on Web technologies that run on the client device. A new abstraction layer with interfaces for the different telecommunication features will be introduced. In addition a widget engine that makes these telecommunication interfaces available to its widgets will be presented. This will allow the rapid development of IMS applications for external developers and the combination of other Web 2.0 services with IMS features.

  20. BioCatalogue: a universal catalogue of web services for the life sciences.

    PubMed

    Bhagat, Jiten; Tanoh, Franck; Nzuobontane, Eric; Laurent, Thomas; Orlowski, Jerzy; Roos, Marco; Wolstencroft, Katy; Aleksejevs, Sergejs; Stevens, Robert; Pettifer, Steve; Lopez, Rodrigo; Goble, Carole A

    2010-07-01

    The use of Web Services to enable programmatic access to on-line bioinformatics is becoming increasingly important in the Life Sciences. However, their number, distribution and the variable quality of their documentation can make their discovery and subsequent use difficult. A Web Services registry with information on available services will help to bring together service providers and their users. The BioCatalogue (http://www.biocatalogue.org/) provides a common interface for registering, browsing and annotating Web Services to the Life Science community. Services in the BioCatalogue can be described and searched in multiple ways based upon their technical types, bioinformatics categories, user tags, service providers or data inputs and outputs. They are also subject to constant monitoring, allowing the identification of service problems and changes and the filtering-out of unavailable or unreliable resources. The system is accessible via a human-readable 'Web 2.0'-style interface and a programmatic Web Service interface. The BioCatalogue follows a community approach in which all services can be registered, browsed and incrementally documented with annotations by any member of the scientific community.

  1. BioCatalogue: a universal catalogue of web services for the life sciences

    PubMed Central

    Bhagat, Jiten; Tanoh, Franck; Nzuobontane, Eric; Laurent, Thomas; Orlowski, Jerzy; Roos, Marco; Wolstencroft, Katy; Aleksejevs, Sergejs; Stevens, Robert; Pettifer, Steve; Lopez, Rodrigo; Goble, Carole A.

    2010-01-01

    The use of Web Services to enable programmatic access to on-line bioinformatics is becoming increasingly important in the Life Sciences. However, their number, distribution and the variable quality of their documentation can make their discovery and subsequent use difficult. A Web Services registry with information on available services will help to bring together service providers and their users. The BioCatalogue (http://www.biocatalogue.org/) provides a common interface for registering, browsing and annotating Web Services to the Life Science community. Services in the BioCatalogue can be described and searched in multiple ways based upon their technical types, bioinformatics categories, user tags, service providers or data inputs and outputs. They are also subject to constant monitoring, allowing the identification of service problems and changes and the filtering-out of unavailable or unreliable resources. The system is accessible via a human-readable ‘Web 2.0’-style interface and a programmatic Web Service interface. The BioCatalogue follows a community approach in which all services can be registered, browsed and incrementally documented with annotations by any member of the scientific community. PMID:20484378

  2. Impacts of environment on human diseases: a web service for the human exposome

    NASA Astrophysics Data System (ADS)

    Karssenberg, Derek; Vaartjes, Ilonca; Kamphuis, Carlijn; Strak, Maciek; Schmitz, Oliver; Soenario, Ivan; de Jong, Kor

    2017-04-01

    The exposome is the totality of human environmental exposures from conception onwards. Identifying the contribution of the exposome to human diseases and health is a key issue in health research. Examples include the effect of air pollution exposure on cardiovascular diseases, the impact of disease vectors (mosquitos) and surface hydrology exposure on malaria, and the effect of fast food restaurant exposure on obesity. Essential to health research is to disentangle the effects of the exposome and genome on health. Ultimately this requires quantifying the totality of all human exposures, for each individual in the studied human population. This poses a massive challenge to geoscientists, as environmental data are required at a high spatial and temporal resolution, with a large spatial and temporal coverage representing the area inhabited by the population studied and the time span representing several decades. Then, these data need to be combined with space-time paths of individuals to calculate personal exposures for each individual in the population. The Global and Geo Health Data Centre is taking this challenge by providing a web service capable of enriching population data with exposome information. Our web service can generate environmental information either from archived national (up to 5 m spatial and 1 h temporal resolution) and global environmental information or generated on the fly using environmental models running as microservices. On top of these environmental data services runs an individual exposure service enabling health researchers to select different spatial and temporal aggregation methods and to upload space-time paths of individuals. These are then enriched with personal exposures and eventually returned to the user. We illustrate the service in an example of individual exposures to air pollutants calculated from hyper resolution air pollution data and various approaches to estimate space-time paths of individuals.

  3. The QuakeSim Project: Web Services for Managing Geophysical Data and Applications

    NASA Astrophysics Data System (ADS)

    Pierce, Marlon E.; Fox, Geoffrey C.; Aktas, Mehmet S.; Aydin, Galip; Gadgil, Harshawardhan; Qi, Zhigang; Sayar, Ahmet

    2008-04-01

    We describe our distributed systems research efforts to build the “cyberinfrastructure” components that constitute a geophysical Grid, or more accurately, a Grid of Grids. Service-oriented computing principles are used to build a distributed infrastructure of Web accessible components for accessing data and scientific applications. Our data services fall into two major categories: Archival, database-backed services based around Geographical Information System (GIS) standards from the Open Geospatial Consortium, and streaming services that can be used to filter and route real-time data sources such as Global Positioning System data streams. Execution support services include application execution management services and services for transferring remote files. These data and execution service families are bound together through metadata information and workflow services for service orchestration. Users may access the system through the QuakeSim scientific Web portal, which is built using a portlet component approach.

  4. Large-area sheet task advanced dendritic web growth development

    NASA Technical Reports Server (NTRS)

    Duncan, C. S.; Seidensticker, R. G.; Mchugh, J. P.; Hopkins, R. H.; Meier, D.; Schruben, J.

    1982-01-01

    The computer code for calculating web temperature distribution was expanded to provide a graphics output in addition to numerical and punch card output. The new code was used to examine various modifications of the J419 configuration and, on the basis of the results, a new growth geometry was designed. Additionally, several mathematically defined temperature profiles were evaluated for the effects of the free boundary (growth front) on the thermal stress generation. Experimental growth runs were made with modified J419 configurations to complement the modeling work. A modified J435 configuration was evaluated.

  5. Motivating Pre-Service Teachers in Technology Integration of Web 2.0 for Teaching Internships

    ERIC Educational Resources Information Center

    Kim, Hye Jeong; Jang, Hwan Young

    2015-01-01

    The aim of this study was to examine the predictors of pre-service teachers' use of Web 2.0 tools during a teaching internship, after a course that emphasized the use of the tools for instructional activities. Results revealed that integrating Web 2.0 tools during their teaching internship was strongly predicted by participants' perceived…

  6. Services for Graduate Students: A Review of Academic Library Web Sites

    ERIC Educational Resources Information Center

    Rempel, Hannah Gascho

    2010-01-01

    A library's Web site is well recognized as the gateway to the library for the vast majority of users. Choosing the most user-friendly Web architecture to reflect the many services libraries offer is a complex process, and librarians are still experimenting to find what works best for their users. As part of a redesign of the Oregon State…

  7. Using the Internet as a Tool for Public Service: Creating a Community History Web Site

    ERIC Educational Resources Information Center

    Henson, Darold Leigh

    2005-01-01

    Creating a community history Web site is a way for technical communication practitioners, students, and teachers to improve their expertise while performing a valuable public service. Developers of this kind of Web site combine personal interest in the history and culture of their chosen communities with professional interest in a wide range of…

  8. A Web-Based Model for Developing Assessment Literacy of Secondary In-Service Teachers

    ERIC Educational Resources Information Center

    Fan, Ya-Ching; Wang, Tzu-Hua; Wang, Kuo-Hua

    2011-01-01

    This research investigates the effect of a web-based model, named "Practicing, Reflecting, and Revising with Web-based Assessment and Test Analysis system (P2R-WATA) Assessment Literacy Development Model," on enhancing assessment knowledge and perspectives of secondary in-service teachers, and adopts a single group experimental research…

  9. Services for Graduate Students: A Review of Academic Library Web Sites

    ERIC Educational Resources Information Center

    Rempel, Hannah Gascho

    2010-01-01

    A library's Web site is well recognized as the gateway to the library for the vast majority of users. Choosing the most user-friendly Web architecture to reflect the many services libraries offer is a complex process, and librarians are still experimenting to find what works best for their users. As part of a redesign of the Oregon State…

  10. OneGeology Web Services and Portal as a global geological SDI - latest standards and technology

    NASA Astrophysics Data System (ADS)

    Duffy, Tim; Tellez-Arenas, Agnes

    2014-05-01

    The global coverage of OneGeology Web Services (www.onegeology.org and portal.onegeology.org) achieved since 2007 from the 120 participating geological surveys will be reviewed and issues arising discussed. Recent enhancements to the OneGeology Web Services capabilities will be covered including new up to 5 star service accreditation scheme utilising the ISO/OGC Web Mapping Service standard version 1.3, core ISO 19115 metadata additions and Version 2.0 Web Feature Services (WFS) serving the new IUGS-CGI GeoSciML V3.2 geological web data exchange language standard (http://www.geosciml.org/) with its associated 30+ IUGS-CGI available vocabularies (http://resource.geosciml.org/ and http://srvgeosciml.brgm.fr/eXist2010/brgm/client.html). Use of the CGI simpelithology and timescale dictionaries now allow those who wish to do so to offer data harmonisation to query their GeoSciML 3.2 based Web Feature Services and their GeoSciML_Portrayal V2.0.1 (http://www.geosciml.org/) Web Map Services in the OneGeology portal (http://portal.onegeology.org). Contributing to OneGeology involves offering to serve ideally 1:1000,000 scale geological data (in practice any scale now is warmly welcomed) as an OGC (Open Geospatial Consortium) standard based WMS (Web Mapping Service) service from an available WWW server. This may either be hosted within the Geological Survey or a neighbouring, regional or elsewhere institution that offers to serve that data for them i.e. offers to help technically by providing the web serving IT infrastructure as a 'buddy'. OneGeology is a standards focussed Spatial Data Infrastructure (SDI) and works to ensure that these standards work together and it is now possible for European Geological Surveys to register their INSPIRE web services within the OneGeology SDI (e.g. see http://www.geosciml.org/geosciml/3.2/documentation/cookbook/INSPIRE_GeoSciML_Cookbook%20_1.0.pdf). The Onegeology portal (http://portal.onegeology.org) is the first port of call for anyone

  11. A Survey of the Usability of Digital Reference Services on Academic Health Science Library Web Sites

    ERIC Educational Resources Information Center

    Dee, Cheryl; Allen, Maryellen

    2006-01-01

    Reference interactions with patrons in a digital library environment using digital reference services (DRS) has become widespread. However, such services in many libraries appear to be underutilized. A study surveying the ease and convenience of such services for patrons in over 100 academic health science library Web sites suggests that…

  12. A Survey of the Usability of Digital Reference Services on Academic Health Science Library Web Sites

    ERIC Educational Resources Information Center

    Dee, Cheryl; Allen, Maryellen

    2006-01-01

    Reference interactions with patrons in a digital library environment using digital reference services (DRS) has become widespread. However, such services in many libraries appear to be underutilized. A study surveying the ease and convenience of such services for patrons in over 100 academic health science library Web sites suggests that…

  13. How the OCLC CORC Service Is Helping Weave Libraries into the Web.

    ERIC Educational Resources Information Center

    Covert, Kay

    2001-01-01

    Describes OCLC's CORC (Cooperative Online Resource Catalog) service. As a state-of-the-art Web-based metadata creation system, CORC is optimized for creating bibliographic records and pathfinders for electronic resources. Discusses how libraries are using CORC in technical services, public services, and collection development and explains the…

  14. QoS measurement of workflow-based web service compositions using Colored Petri net.

    PubMed

    Nematzadeh, Hossein; Motameni, Homayun; Mohamad, Radziah; Nematzadeh, Zahra

    2014-01-01

    Workflow-based web service compositions (WB-WSCs) is one of the main composition categories in service oriented architecture (SOA). Eflow, polymorphic process model (PPM), and business process execution language (BPEL) are the main techniques of the category of WB-WSCs. Due to maturity of web services, measuring the quality of composite web services being developed by different techniques becomes one of the most important challenges in today's web environments. Business should try to provide good quality regarding the customers' requirements to a composed web service. Thus, quality of service (QoS) which refers to nonfunctional parameters is important to be measured since the quality degree of a certain web service composition could be achieved. This paper tried to find a deterministic analytical method for dependability and performance measurement using Colored Petri net (CPN) with explicit routing constructs and application of theory of probability. A computer tool called WSET was also developed for modeling and supporting QoS measurement through simulation.

  15. QoS Measurement of Workflow-Based Web Service Compositions Using Colored Petri Net

    PubMed Central

    Nematzadeh, Hossein; Motameni, Homayun; Nematzadeh, Zahra

    2014-01-01

    Workflow-based web service compositions (WB-WSCs) is one of the main composition categories in service oriented architecture (SOA). Eflow, polymorphic process model (PPM), and business process execution language (BPEL) are the main techniques of the category of WB-WSCs. Due to maturity of web services, measuring the quality of composite web services being developed by different techniques becomes one of the most important challenges in today's web environments. Business should try to provide good quality regarding the customers' requirements to a composed web service. Thus, quality of service (QoS) which refers to nonfunctional parameters is important to be measured since the quality degree of a certain web service composition could be achieved. This paper tried to find a deterministic analytical method for dependability and performance measurement using Colored Petri net (CPN) with explicit routing constructs and application of theory of probability. A computer tool called WSET was also developed for modeling and supporting QoS measurement through simulation. PMID:25110748

  16. Using JavaScript and the FDSN web service to create an interactive earthquake information system

    NASA Astrophysics Data System (ADS)

    Fischer, Kasper D.

    2015-04-01

    The FDSN web service provides a web interface to access earthquake meta-data (e. g. event or station information) and waveform date over the internet. Requests are send to a server as URLs and the output is either XML or miniSEED. This makes it hard to read by humans but easy to process with different software. Different data centers are already supporting the FDSN web service, e. g. USGS, IRIS, ORFEUS. The FDSN web service is also part of the Seiscomp3 (http://www.seiscomp3.org) software. The Seismological Observatory of the Ruhr-University switched to Seiscomp3 as the standard software for the analysis of mining induced earthquakes at the beginning of 2014. This made it necessary to create a new web-based earthquake information service for the publication of results to the general public. This has be done by processing the output of a FDSN web service query by javascript running in a standard browser. The result is an interactive map presenting the observed events and further information of events and stations on a single web page as a table and on a map. In addition the user can download event information, waveform data and station data in different formats like miniSEED, quakeML or FDSNxml. The developed code and all used libraries are open source and freely available.

  17. SBMLmod: a Python-based web application and web service for efficient data integration and model simulation.

    PubMed

    Schäuble, Sascha; Stavrum, Anne-Kristin; Bockwoldt, Mathias; Puntervoll, Pål; Heiland, Ines

    2017-06-24

    Systems Biology Markup Language (SBML) is the standard model representation and description language in systems biology. Enriching and analysing systems biology models by integrating the multitude of available data, increases the predictive power of these models. This may be a daunting task, which commonly requires bioinformatic competence and scripting. We present SBMLmod, a Python-based web application and service, that automates integration of high throughput data into SBML models. Subsequent steady state analysis is readily accessible via the web service COPASIWS. We illustrate the utility of SBMLmod by integrating gene expression data from different healthy tissues as well as from a cancer dataset into a previously published model of mammalian tryptophan metabolism. SBMLmod is a user-friendly platform for model modification and simulation. The web application is available at http://sbmlmod.uit.no , whereas the WSDL definition file for the web service is accessible via http://sbmlmod.uit.no/SBMLmod.wsdl . Furthermore, the entire package can be downloaded from https://github.com/MolecularBioinformatics/sbml-mod-ws . We envision that SBMLmod will make automated model modification and simulation available to a broader research community.

  18. MR-Tandem: parallel X!Tandem using Hadoop MapReduce on Amazon Web Services

    PubMed Central

    Pratt, Brian; Howbert, J. Jeffry; Tasman, Natalie I.; Nilsson, Erik J.

    2012-01-01

    Summary: MR-Tandem adapts the popular X!Tandem peptide search engine to work with Hadoop MapReduce for reliable parallel execution of large searches. MR-Tandem runs on any Hadoop cluster but offers special support for Amazon Web Services for creating inexpensive on-demand Hadoop clusters, enabling search volumes that might not otherwise be feasible with the compute resources a researcher has at hand. MR-Tandem is designed to drop in wherever X!Tandem is already in use and requires no modification to existing X!Tandem parameter files, and only minimal modification to X!Tandem-based workflows. Availability and implementation: MR-Tandem is implemented as a lightly modified X!Tandem C++ executable and a Python script that drives Hadoop clusters including Amazon Web Services (AWS) Elastic Map Reduce (EMR), using the modified X!Tandem program as a Hadoop Streaming mapper and reducer. The modified X!Tandem C++ source code is Artistic licensed, supports pluggable scoring, and is available as part of the Sashimi project at http://sashimi.svn.sourceforge.net/viewvc/sashimi/trunk/trans_proteomic_pipeline/extern/xtandem/. The MR-Tandem Python script is Apache licensed and available as part of the Insilicos Cloud Army project at http://ica.svn.sourceforge.net/viewvc/ica/trunk/mr-tandem/. Full documentation and a windows installer that configures MR-Tandem, Python and all necessary packages are available at this same URL. Contact: brian.pratt@insilicos.com PMID:22072385

  19. MR-Tandem: parallel X!Tandem using Hadoop MapReduce on Amazon Web Services.

    PubMed

    Pratt, Brian; Howbert, J Jeffry; Tasman, Natalie I; Nilsson, Erik J

    2012-01-01

    MR-Tandem adapts the popular X!Tandem peptide search engine to work with Hadoop MapReduce for reliable parallel execution of large searches. MR-Tandem runs on any Hadoop cluster but offers special support for Amazon Web Services for creating inexpensive on-demand Hadoop clusters, enabling search volumes that might not otherwise be feasible with the compute resources a researcher has at hand. MR-Tandem is designed to drop in wherever X!Tandem is already in use and requires no modification to existing X!Tandem parameter files, and only minimal modification to X!Tandem-based workflows. MR-Tandem is implemented as a lightly modified X!Tandem C++ executable and a Python script that drives Hadoop clusters including Amazon Web Services (AWS) Elastic Map Reduce (EMR), using the modified X!Tandem program as a Hadoop Streaming mapper and reducer. The modified X!Tandem C++ source code is Artistic licensed, supports pluggable scoring, and is available as part of the Sashimi project at http://sashimi.svn.sourceforge.net/viewvc/sashimi/trunk/trans_proteomic_pipeline/extern/xtandem/. The MR-Tandem Python script is Apache licensed and available as part of the Insilicos Cloud Army project at http://ica.svn.sourceforge.net/viewvc/ica/trunk/mr-tandem/. Full documentation and a windows installer that configures MR-Tandem, Python and all necessary packages are available at this same URL. brian.pratt@insilicos.com

  20. The Use of RESTful Web Services in Medical Informatics and Clinical Research and Its Implementation in Europe.

    PubMed

    Aerts, Jozef

    2017-01-01

    RESTful web services nowadays are state-of-the-art in business transactions over the internet. They are however not very much used in medical informatics and in clinical research, especially not in Europe. To make an inventory of RESTful web services that can be used in medical informatics and clinical research, including those that can help in patient empowerment in the DACH region and in Europe, and to develop some new RESTful web services for use in clinical research and regulatory review. A literature search on available RESTful web services has been performed and new RESTful web services have been developed on an application server using the Java language. Most of the web services found originate from institutes and organizations in the USA, whereas no similar web services could be found that are made available by European organizations. New RESTful web services have been developed for LOINC codes lookup, for UCUM conversions and for use with CDISC Standards. A comparison is made between "top down" and "bottom up" web services, the latter meant to answer concrete questions immediately. The lack of RESTful web services made available by European organizations in healthcare and medical informatics is striking. RESTful web services may in short future play a major role in medical informatics, and when localized for the German language and other European languages, can help to considerably facilitate patient empowerment. This however requires an EU equivalent of the US National Library of Medicine.

  1. Lexical Link Analysis (LLA) Application: Improving Web Service to Defense Acquisition Visibility Environment (DAVE)

    DTIC Science & Technology

    2015-05-01

    1 LEXICAL LINK ANALYSIS (LLA) APPLICATION: IMPROVING WEB SERVICE TO DEFENSE ACQUISITION VISIBILITY ENVIRONMENT(DAVE) May 13-14, 2015 Dr. Ying...Improving Web Service to Defense Acquisition Visibility Environment (DAVE) 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6. AUTHOR...pattern recognition that scales up to Big Data • System Self-Awareness (SSA) • Big data and Deep Learning (BDDL) / Big Data Architecture and

  2. Study on uncertainty of geospatial semantic Web services composition based on broker approach and Bayesian networks

    NASA Astrophysics Data System (ADS)

    Yang, Xiaodong; Cui, Weihong; Liu, Zhen; Ouyang, Fucheng

    2008-10-01

    The Semantic Web has a major weakness which is lacking of a principled means to represent and reason about uncertainty. This is also located in the services composition approaches such as BPEL4WS and Semantic Description Model. We analyze the uncertainty of Geospatial Web Service composition through mining the knowledge in historical records of composition based on Broker approach and Bayesian Networks. We proved this approach is effective and efficient through a sample scenario in this paper.

  3. Web Services and Data Enhancements at the Northern California Earthquake Data Center

    NASA Astrophysics Data System (ADS)

    Neuhauser, D. S.; Zuzlewski, S.; Lombard, P. N.; Allen, R. M.

    2013-12-01

    The Northern California Earthquake Data Center (NCEDC) provides data archive and distribution services for seismological and geophysical data sets that encompass northern California. The NCEDC is enhancing its ability to deliver rapid information through Web Services. NCEDC Web Services use well-established web server and client protocols and REST software architecture to allow users to easily make queries using web browsers or simple program interfaces and to receive the requested data in real-time rather than through batch or email-based requests. Data are returned to the user in the appropriate format such as XML, RESP, simple text, or MiniSEED depending on the service and selected output format. The NCEDC offers the following web services that are compliant with the International Federation of Digital Seismograph Networks (FDSN) web services specifications: (1) fdsn-dataselect: time series data delivered in MiniSEED format, (2) fdsn-station: station and channel metadata and time series availability delivered in StationXML format, (3) fdsn-event: earthquake event information delivered in QuakeML format. In addition, the NCEDC offers the the following IRIS-compatible web services: (1) sacpz: provide channel gains, poles, and zeros in SAC format, (2) resp: provide channel response information in RESP format, (3) dataless: provide station and channel metadata in Dataless SEED format. The NCEDC is also developing a web service to deliver timeseries from pre-assembled event waveform gathers. The NCEDC has waveform gathers for ~750,000 northern and central California events from 1984 to the present, many of which were created by the USGS NCSN prior to the establishment of the joint NCSS (Northern California Seismic System). We are currently adding waveforms to these older event gathers with time series from the UCB networks and other networks with waveforms archived at the NCEDC, and ensuring that the waveform for each channel in the event gathers have the highest

  4. Building from Where We Are: Web Services and Java-Based Clients to Enable Virtual Observatories

    NASA Astrophysics Data System (ADS)

    Candey, R. M.; Chimiak, R. A.; Han, D. B.; Harris, B. T.; Johnson, R. C.; Klipsch, C. A.; Kovalick, T. J.; Leckner, H. A.; Liu, M. H.; McGuire, R. E.

    2005-12-01

    The Space Physics Data Facility at NASA Goddard has developed a strong foundation in space science mission services and data for enhancing the scientific return of space physics research and enabling integration of these services into the emerging Virtual discipline Observatory (VxO) paradigm. We are deploying a critical set of foundation components, leveraging our data format expertise and our existing and very popular science and orbit data web-based services, such as Coordinated Data Analysis Web [CDAWeb] and Satellite Situation Center Web [SSCweb]. We have developed web services APIs for orbit location, data finding across FTP sites and in CDAWeb, data file format translation, and data visualizations that tie together existing data holdings, standardize and simplify their use, and enable much enhanced interoperability and data analysis. We describe the technologies we've developed, our experiences and lessons-learned in implementing them, why we chose some technologies over others (web services vs. CORBA or simple CGI, Java vs. JavaScript or Flash), what we might do differently now, and our future direction. We discuss the difficulties in maintaining compatibility and inter-operability through various versions of web services and in merging various client projects, while adding extended functionality such as sonification interfaces in a modular fashion.

  5. QuakeSim: a Web Service Environment for Productive Investigations with Earth Surface Sensor Data

    NASA Astrophysics Data System (ADS)

    Parker, J. W.; Donnellan, A.; Granat, R. A.; Lyzenga, G. A.; Glasscoe, M. T.; McLeod, D.; Al-Ghanmi, R.; Pierce, M.; Fox, G.; Grant Ludwig, L.; Rundle, J. B.

    2011-12-01

    The QuakeSim science gateway environment includes a visually rich portal interface, web service access to data and data processing operations, and the QuakeTables ontology-based database of fault models and sensor data. The integrated tools and services are designed to assist investigators by covering the entire earthquake cycle of strain accumulation and release. The Web interface now includes Drupal-based access to diverse and changing content, with new ability to access data and data processing directly from the public page, as well as the traditional project management areas that require password access. The system is designed to make initial browsing of fault models and deformation data particularly engaging for new users. Popular data and data processing include GPS time series with data mining techniques to find anomalies in time and space, experimental forecasting methods based on catalogue seismicity, faulted deformation models (both half-space and finite element), and model-based inversion of sensor data. The fault models include the CGS and UCERF 2.0 faults of California and are easily augmented with self-consistent fault models from other regions. The QuakeTables deformation data include the comprehensive set of UAVSAR interferograms as well as a growing collection of satellite InSAR data.. Fault interaction simulations are also being incorporated in the web environment based on Virtual California. A sample usage scenario is presented which follows an investigation of UAVSAR data from viewing as an overlay in Google Maps, to selection of an area of interest via a polygon tool, to fast extraction of the relevant correlation and phase information from large data files, to a model inversion of fault slip followed by calculation and display of a synthetic model interferogram.

  6. Enhancing the Teaching of Digital Processing of Remote Sensing Image Course through Geospatial Web Processing Services

    NASA Astrophysics Data System (ADS)

    di, L.; Deng, M.

    2010-12-01

    Remote sensing (RS) is an essential method to collect data for Earth science research. Huge amount of remote sensing data, most of them in the image form, have been acquired. Almost all geography departments in the world offer courses in digital processing of remote sensing images. Such courses place emphasis on how to digitally process large amount of multi-source images for solving real world problems. However, due to the diversity and complexity of RS images and the shortcomings of current data and processing infrastructure, obstacles for effectively teaching such courses still remain. The major obstacles include 1) difficulties in finding, accessing, integrating and using massive RS images by students and educators, and 2) inadequate processing functions and computing facilities for students to freely explore the massive data. Recent development in geospatial Web processing service systems, which make massive data, computing powers, and processing capabilities to average Internet users anywhere in the world, promises the removal of the obstacles. The GeoBrain system developed by CSISS is an example of such systems. All functions available in GRASS Open Source GIS have been implemented as Web services in GeoBrain. Petabytes of remote sensing images in NASA data centers, the USGS Landsat data archive, and NOAA CLASS are accessible transparently and processable through GeoBrain. The GeoBrain system is operated on a high performance cluster server with large disk storage and fast Internet connection. All GeoBrain capabilities can be accessed by any Internet-connected Web browser. Dozens of universities have used GeoBrain as an ideal platform to support data-intensive remote sensing education. This presentation gives a specific example of using GeoBrain geoprocessing services to enhance the teaching of GGS 588, Digital Remote Sensing taught at the Department of Geography and Geoinformation Science, George Mason University. The course uses the textbook "Introductory

  7. Collaborative Science Using Web Services and the SciFlo Grid Dataflow Engine

    NASA Astrophysics Data System (ADS)

    Wilson, B. D.; Manipon, G.; Xing, Z.; Yunck, T.

    2006-12-01

    The General Earth Science Investigation Suite (GENESIS) project is a NASA-sponsored partnership between the Jet Propulsion Laboratory, academia, and NASA data centers to develop a new suite of Web Services tools to facilitate multi-sensor investigations in Earth System Science. The goal of GENESIS is to enable large-scale, multi-instrument atmospheric science using combined datasets from the AIRS, MODIS, MISR, and GPS sensors. Investigations include cross-comparison of spaceborne climate sensors, cloud spectral analysis, study of upper troposphere-stratosphere water transport, study of the aerosol indirect cloud effect, and global climate model validation. The challenges are to bring together very large datasets, reformat and understand the individual instrument retrievals, co-register or re-grid the retrieved physical parameters, perform computationally-intensive data fusion and data mining operations, and accumulate complex statistics over months to years of data. To meet these challenges, we have developed a Grid computing and dataflow framework, named SciFlo, in which we are deploying a set of versatile and reusable operators for data access, subsetting, registration, mining, fusion, compression, and advanced statistical analysis. SciFlo leverages remote Web Services, called via Simple Object Access Protocol (SOAP) or REST (one-line) URLs, and the Grid Computing standards (WS-* &Globus Alliance toolkits), and enables scientists to do multi-instrument Earth Science by assembling reusable Web Services and native executables into a distributed computing flow (tree of operators). The SciFlo client &server engines optimize the execution of such distributed data flows and allow the user to transparently find and use datasets and operators without worrying about the actual location of the Grid resources. In particular, SciFlo exploits the wealth of datasets accessible by OpenGIS Consortium (OGC) Web Mapping Servers & Web Coverage Servers (WMS/WCS), and by Open Data

  8. Development of Semantic Web - Markup Languages, Web Services, Rules, Explanation, Querying, Proof and Reasoning

    DTIC Science & Technology

    2008-07-01

    answers. A basic premise of the Semantic Web is that the declarative languages used to represent knowledge on the Web will have a formally ... formal description of the semantic relationships among a query, a query answer, and the knowledge base(s) used to produce the answer. The OWL-QL...logics and other logic-based knowledge representation formalisms often include explicit “structural queries”, such as queries asking about the

  9. Using Web-Based Testing for Large-Scale Assessment.

    ERIC Educational Resources Information Center

    Hamilton, Laura S.; Klein, Stephen P.; Lorie, William

    This paper describes an approach to large-scale assessment that uses tests that are delivered to students over the Internet and that are tailored (adapted) to each student's own level of proficiency. A brief background on large-scale assessment is followed by a description of this new technology and an example. Issues that need to be investigated…

  10. Geodetic Data Via Web Services: Standardizing Access, Expanding Accessibility, and Promoting Discovery

    NASA Astrophysics Data System (ADS)

    Zietlow, D. W.; Molnar, C.; Meertens, C. M.; Phillips, D. A.; Bartel, B. A.; Ertz, D. J.

    2016-12-01

    UNAVCO, a university-governed consortium that enables geodetic research and education, is developing and implementing new web services to standardize and enhance access to geodetic data for an ever-growing community of users. This simple and easy to use tool gives both experienced and novice users access to all data and products archived at UNAVCO through a uniform interface regardless of data type and structure. UNAVCO data product types include GPS station position time series, velocity estimates and metadata, as well as meteorological time series, and borehole geophysical data and metadata including strain, seismic, and tilt time series. Users access data through a request URL or through the Swagger user interface (UI). The Swagger UI allows users to easily learn about the web services and provides users the ability to test the web services in their web browser. Swagger UI also provides documentation of the web services' URLs and query parameters. With this documentation users can see the valid query parameters for each web service to assist in documentation for both the developers and the users.Output from the web services is currently in a standard comma-separated (CSV) format that can then be used in other processing and/or visualization programs. The web services are being standardized so that all CSV formats will follow the GeoCSV specification. Other formats will be available such as GeoJSON and time series xml since not all data are well represented by the CSV format. The UNAVCO web services are written using Python along with the Flask microframework. This allows quick development and the ability to easily implement new services. Future services are being planned to allow users to access metadata from any station with data available directly or indirectly from the UNAVCO website. In collaboration with the UNAVCO Student Internship Program (USIP), we developed a short video demonstrating how to use the web services tool to assist new users and the broader

  11. A Smart Modeling Framework for Integrating BMI-enabled Models as Web Services

    NASA Astrophysics Data System (ADS)

    Jiang, P.; Elag, M.; Kumar, P.; Peckham, S. D.; Liu, R.; Marini, L.; Hsu, L.

    2015-12-01

    Serviced-oriented computing provides an opportunity to couple web service models using semantic web technology. Through this approach, models that are exposed as web services can be conserved in their own local environment, thus making it easy for modelers to maintain and update the models. In integrated modeling, the serviced-oriented loose-coupling approach requires (1) a set of models as web services, (2) the model metadata describing the external features of a model (e.g., variable name, unit, computational grid, etc.) and (3) a model integration framework. We present the architecture of coupling web service models that are self-describing by utilizing a smart modeling framework. We expose models that are encapsulated with CSDMS (Community Surface Dynamics Modeling System) Basic Model Interfaces (BMI) as web services. The BMI-enabled models are self-describing by uncovering models' metadata through BMI functions. After a BMI-enabled model is serviced, a client can initialize, execute and retrieve the meta-information of the model by calling its BMI functions over the web. Furthermore, a revised version of EMELI (Peckham, 2015), an Experimental Modeling Environment for Linking and Interoperability, is chosen as the framework for coupling BMI-enabled web service models. EMELI allows users to combine a set of component models into a complex model by standardizing model interface using BMI as well as providing a set of utilities smoothing the integration process (e.g., temporal interpolation). We modify the original EMELI so that the revised modeling framework is able to initialize, execute and find the dependencies of the BMI-enabled web service models. By using the revised EMELI, an example will be presented on integrating a set of topoflow model components that are BMI-enabled and exposed as web services. Reference: Peckham, S.D. (2014) EMELI 1.0: An experimental smart modeling framework for automatic coupling of self-describing models, Proceedings of HIC 2014

  12. Crawling Robots on Large Web in Rocket Experiment on Furoshiki Deployment

    NASA Astrophysics Data System (ADS)

    Kaya, N.; Iwashita, M.; Nakasuka, S.; Summerer, L.; Mankins, J.

    It is one of the most important and critical issues to develop a technology to construct space huge transmitting antenna such as the Solar Power Satellite. The huge antenna have many useful applications in space, for example, telecommunication antennas for cellular phones, radars for remote sensing, navigation and observation, and so on. We are proposing to apply the Furoshiki satellite with robots to construct the huge structures. After a large web is deployed using the Furoshiki satellite in the same size of the huge antenna, all of the antenna elements crawl on the web with their own legs toward their allocated locations in order to realize a huge antenna. The micro-gravity experiment is planned using a sounding rocket of ISAS in order to demonstrate the feasibility of the deployment of the large web and the phased array performance. Three daughter satellites are being separated from the mother satellite with weak springs, and the daughter satellites deploy the Furoshiki web to a triangular shape at the size of about 20-40m. The dynamics of the daughter satellites and the web is observed by several cameras installed on the mother and daughter satellites during the deployment, while the performance of the phased array antenna using the retrodirective method will simultaneously be measured at the ground station. Finally two micro robots crawl from the mother satellite to the certain points on the web to demonstrate one promising way to construct RF transmitter panels. The robots are internationally being developed by NASA, ESTEC and Kobe University. There are many various ideas for the robots to crawl on the web in the micro-gravity. Each organization is independently developing a different type of the robots. Kobe University is trying to develop wheels to run on the web by pinching the strings of the web. It can successfully run on the web, though the issue is found to tangle the strings.

  13. 76 FR 28439 - Submission for OMB Review; Comment Request; NCI Cancer Genetics Services Directory Web-Based...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2011-05-17

    ... Genetics Services Directory Web-Based Application Form and Update Mailer Summary: Under the provisions of... Collection: Title: NCI Cancer Genetics Services Directory Web-based Application Form and Update Mailer. Type... Information Collection: The purpose of the online application form and the Web-based update mailer is to...

  14. A study on heterogeneous distributed spatial information platform based on semantic Web services

    NASA Astrophysics Data System (ADS)

    Peng, Shuang-yun; Yang, Kun; Xu, Quan-li; Huang, Bang-mei

    2008-10-01

    With the development of Semantic Web technology, the spatial information service based on ontology is an effective way for sharing and interoperation of heterogeneous information resources in the distributed network environment. This paper discusses spatial information sharing and interoperability in the Semantic Web Services architecture. Through using Ontology record spatial information in sharing knowledge system, explicit and formalization expresses the default and the concealment semantic information. It provides the prerequisite for spatial information sharing and interoperability; Through Semantic Web Services technology parses Ontology and intelligent buildings services under network environment, form a network of services. In order to realize the practical applications of spatial information sharing and interoperation in different brunches of CDC system, a prototype system for HIV/AIDS information sharing based on geo-ontology has also been developed by using the methods described above.

  15. The Availability of Web 2.0 Tools from Community College Libraries' Websites Serving Large Student Bodies

    ERIC Educational Resources Information Center

    Blummer, Barbara; Kenton, Jeffrey M.

    2014-01-01

    Web 2.0 tools offer academic libraries new avenues for delivering services and resources to students. In this research we report on a content analysis of 100 US community college libraries' Websites for the availability of Web 2.0 applications. We found Web 2.0 tools utilized by 97% of our sample population and many of these sites contained more…

  16. The Availability of Web 2.0 Tools from Community College Libraries' Websites Serving Large Student Bodies

    ERIC Educational Resources Information Center

    Blummer, Barbara; Kenton, Jeffrey M.

    2014-01-01

    Web 2.0 tools offer academic libraries new avenues for delivering services and resources to students. In this research we report on a content analysis of 100 US community college libraries' Websites for the availability of Web 2.0 applications. We found Web 2.0 tools utilized by 97% of our sample population and many of these sites contained more…

  17. Using Secure Web Services to Visualize Poison Center Data for Nationwide Biosurveillance: A Case Study

    PubMed Central

    Savel, Thomas G; Bronstein, Alvin; Duck, William; Rhodes, M. Barry; Lee, Brian; Stinn, John; Worthen, Katherine

    2010-01-01

    Objectives Real-time surveillance systems are valuable for timely response to public health emergencies. It has been challenging to leverage existing surveillance systems in state and local communities, and, using a centralized architecture, add new data sources and analytical capacity. Because this centralized model has proven to be difficult to maintain and enhance, the US Centers for Disease Control and Prevention (CDC) has been examining the ability to use a federated model based on secure web services architecture, with data stewardship remaining with the data provider. Methods As a case study for this approach, the American Association of Poison Control Centers and the CDC extended an existing data warehouse via a secure web service, and shared aggregate clinical effects and case counts data by geographic region and time period. To visualize these data, CDC developed a web browser-based interface, Quicksilver, which leveraged the Google Maps API and Flot, a javascript plotting library. Results Two iterations of the NPDS web service were completed in 12 weeks. The visualization client, Quicksilver, was developed in four months. Discussion This implementation of web services combined with a visualization client represents incremental positive progress in transitioning national data sources like BioSense and NPDS to a federated data exchange model. Conclusion Quicksilver effectively demonstrates how the use of secure web services in conjunction with a lightweight, rapidly deployed visualization client can easily integrate isolated data sources for biosurveillance. PMID:23569581

  18. Braille/Large Print Reference Service.

    ERIC Educational Resources Information Center

    Bell, Lori; Brandon, Valerie

    1993-01-01

    Describes the Braille/Large Print Reference Project developed in Illinois to provide visually impaired patrons with information transcribed into either Braille or large print. Topics discussed include equipment needs; staff training; user response; and problems. Examples of publicity and guidelines are included. (LRW)

  19. Grid enablement of OpenGeospatial Web Services: the G-OWS Working Group

    NASA Astrophysics Data System (ADS)

    Mazzetti, Paolo

    2010-05-01

    In last decades two main paradigms for resource sharing emerged and reached maturity: the Web and the Grid. They both demonstrate suitable for building Distributed Computing Infrastructures (DCIs) supporting the coordinated sharing of resources (i.e. data, information, services, etc) on the Internet. Grid and Web DCIs have much in common as a result of their underlying Internet technology (protocols, models and specifications). However, being based on different requirements and architectural approaches, they show some differences as well. The Web's "major goal was to be a shared information space through which people and machines could communicate" [Berners-Lee 1996]. The success of the Web, and its consequent pervasiveness, made it appealing for building specialized systems like the Spatial Data Infrastructures (SDIs). In this systems the introduction of Web-based geo-information technologies enables specialized services for geospatial data sharing and processing. The Grid was born to achieve "flexible, secure, coordinated resource sharing among dynamic collections of individuals, institutions, and resources" [Foster 2001]. It specifically focuses on large-scale resource sharing, innovative applications, and, in some cases, high-performance orientation. In the Earth and Space Sciences (ESS) the most part of handled information is geo-referred (geo-information) since spatial and temporal meta-information is of primary importance in many application domains: Earth Sciences, Disasters Management, Environmental Sciences, etc. On the other hand, in several application areas there is the need of running complex models which require the large processing and storage capabilities that the Grids are able to provide. Therefore the integration of geo-information and Grid technologies might be a valuable approach in order to enable advanced ESS applications. Currently both geo-information and Grid technologies have reached a high level of maturity, allowing to build such an

  20. Web Services Implementations at Land Process and Goddard Earth Sciences Distributed Active Archive Centers

    NASA Astrophysics Data System (ADS)

    Cole, M.; Bambacus, M.; Lynnes, C.; Sauer, B.; Falke, S.; Yang, W.

    2007-12-01

    NASA's vast array of scientific data within its Distributed Active Archive Centers (DAACs) is especially valuable to both traditional research scientists as well as the emerging market of Earth Science Information Partners. For example, the air quality science and management communities are increasingly using satellite derived observations in their analyses and decision making. The Air Quality Cluster in the Federation of Earth Science Information Partners (ESIP) uses web infrastructures of interoperability, or Service Oriented Architecture (SOA), to extend data exploration, use, and analysis and provides a user environment for DAAC products. In an effort to continually offer these NASA data to the broadest research community audience, and reusing emerging technologies, both NASA's Goddard Earth Science (GES) and Land Process (LP) DAACs have engaged in a web services pilot project. Through these projects both GES and LP have exposed data through the Open Geospatial Consortiums (OGC) Web Services standards. Reusing several different existing applications and implementation techniques, GES and LP successfully exposed a variety data, through distributed systems to be ingested into multiple end-user systems. The results of this project will enable researchers world wide to access some of NASA's GES & LP DAAC data through OGC protocols. This functionality encourages inter-disciplinary research while increasing data use through advanced technologies. This paper will concentrate on the implementation and use of OGC Web Services, specifically Web Map and Web Coverage Services (WMS, WCS) at GES and LP DAACs, and the value of these services within scientific applications, including integration with the DataFed air quality web infrastructure and in the development of data analysis web applications.

  1. Food-web structure and ecosystem services: insights from the Serengeti

    PubMed Central

    Dobson, Andy

    2009-01-01

    The central organizing theme of this paper is to discuss the dynamics of the Serengeti grassland ecosystem from the perspective of recent developments in food-web theory. The seasonal rainfall patterns that characterize the East African climate create an annually oscillating, large-scale, spatial mosaic of feeding opportunities for the larger ungulates in the Serengeti; this in turn creates a significant annual variation in the food available for their predators. At a smaller spatial scale, periodic fires during the dry season create patches of highly nutritious grazing that are eaten in preference to the surrounding older patches of less palatable vegetation. The species interactions between herbivores and plants, and carnivores and herbivores, are hierarchically nested in the Serengeti food web, with the largest bodied consumers on each trophic level having the broadest diets that include species from a large variety of different habitats in the ecosystem. The different major habitats of the Serengeti are also used in a nested fashion; the highly nutritious forage of the short grass plains is available only to the larger migratory species for a few months each year. The longer grass areas, the woodlands and kopjes (large partially wooded rocky islands in the surrounding mosaic of grassland) contain species that are resident throughout the year; these species often have smaller body size and more specialized diets than the migratory species. Only the larger herbivores and carnivores obtain their nutrition from all the different major habitat types in the ecosystem. The net effect of this is to create a nested hierarchy of subchains of energy flow within the larger Serengeti food web; these flows are seasonally forced by rainfall and operate at different rates in different major branches of the web. The nested structure that couples sequential trophic levels together interacts with annual seasonal variation in the fast and slow chains of nutrient flow in a way that

  2. Food-web structure and ecosystem services: insights from the Serengeti.

    PubMed

    Dobson, Andy

    2009-06-27

    The central organizing theme of this paper is to discuss the dynamics of the Serengeti grassland ecosystem from the perspective of recent developments in food-web theory. The seasonal rainfall patterns that characterize the East African climate create an annually oscillating, large-scale, spatial mosaic of feeding opportunities for the larger ungulates in the Serengeti; this in turn creates a significant annual variation in the food available for their predators. At a smaller spatial scale, periodic fires during the dry season create patches of highly nutritious grazing that are eaten in preference to the surrounding older patches of less palatable vegetation. The species interactions between herbivores and plants, and carnivores and herbivores, are hierarchically nested in the Serengeti food web, with the largest bodied consumers on each trophic level having the broadest diets that include species from a large variety of different habitats in the ecosystem. The different major habitats of the Serengeti are also used in a nested fashion; the highly nutritious forage of the short grass plains is available only to the larger migratory species for a few months each year. The longer grass areas, the woodlands and kopjes (large partially wooded rocky islands in the surrounding mosaic of grassland) contain species that are resident throughout the year; these species often have smaller body size and more specialized diets than the migratory species. Only the larger herbivores and carnivores obtain their nutrition from all the different major habitat types in the ecosystem. The net effect of this is to create a nested hierarchy of subchains of energy flow within the larger Serengeti food web; these flows are seasonally forced by rainfall and operate at different rates in different major branches of the web. The nested structure that couples sequential trophic levels together interacts with annual seasonal variation in the fast and slow chains of nutrient flow in a way that

  3. Investigating metrics of geospatial web services: The case of a CEOS federated catalog service for earth observation data

    NASA Astrophysics Data System (ADS)

    Han, Weiguo; Di, Liping; Yu, Genong; Shao, Yuanzheng; Kang, Lingjun

    2016-07-01

    Geospatial Web Services (GWS) make geospatial information and computing resources discoverable and accessible over the Web. Among them, Open Geospatial Consortium (OGC) standards-compliant data, catalog and processing services are most popular, and have been widely adopted and leveraged in geospatial research and applications. The GWS metrics, such as visit count, average processing time, and user distribution, are important to evaluate their overall performance and impacts. However, these metrics, especially of federated catalog service, have not been systematically evaluated and reported to relevant stakeholders from the point of view of service providers. Taking an integrated catalog service for earth observation data as an example, this paper describes metrics information retrieval, organization, and representation of a catalog service federation. An extensible and efficient log file analyzer is implemented to retrieve a variety of service metrics from the log file and store analysis results in an easily programmable format. An Ajax powered Web portal is built to provide stakeholders, sponsors, developers, partners, and other types of users with specific and relevant insights into metrics information in an interactive and informative form. The deployed system has provided useful information for periodical reports, service delivery, and decision support. The proposed measurement strategy and analytics framework can be a guidance to help GWS providers evaluate their services.

  4. Using the RxNorm web services API for quality assurance purposes.

    PubMed

    Peters, Lee; Bodenreider, Olivier

    2008-11-06

    Auditing large, rapidly evolving terminological systems is still a challenge. In the case of RxNorm, a standardized nomenclature for clinical drugs, we argue that quality assurance processes can benefit from the recently released application programming interface (API) provided by RxNav. We demonstrate the usefulness of the API by performing a systematic comparison of alternative paths in the RxNorm graph, over several thousands of drug entities. This study revealed potential errors in RxNorm, currently under review. The results also prompted us to modify the implementation of RxNav to navigate the RxNorm graph more accurately. The RxNav web services API used in this experiment is robust and fast.

  5. Using the RxNorm Web Services API for Quality Assurance Purposes

    PubMed Central

    Peters, Lee; Bodenreider, Olivier

    2008-01-01

    Auditing large, rapidly evolving terminological systems is still a challenge. In the case of RxNorm, a standardized nomenclature for clinical drugs, we argue that quality assurance processes can benefit from the recently released application programming interface (API) provided by RxNav. We demonstrate the usefulness of the API by performing a systematic comparison of alternative paths in the RxNorm graph, over several thousands of drug entities. This study revealed potential errors in RxNorm, currently under review. The results also prompted us to modify the implementation of RxNav to navigate the RxNorm graph more accurately. The RxNorm web services API used in this experiment is robust and fast. PMID:18999038

  6. Weaving Silos--A Leadership Challenge: A Cross-Functional Team Approach to Supporting Web-Based Student Services

    ERIC Educational Resources Information Center

    Kleemann, Gary L.

    2005-01-01

    The author reviews the evolution of Web services--from information sharing to transactional to relationship building--and the progression from first-generation to fourth-generation Web sites. (Contains 3 figures.)

  7. An Automated End-To Multi-Agent Qos Based Architecture for Selection of Geospatial Web Services

    NASA Astrophysics Data System (ADS)

    Shah, M.; Verma, Y.; Nandakumar, R.

    2012-07-01

    Over the past decade, Service-Oriented Architecture (SOA) and Web services have gained wide popularity and acceptance from researchers and industries all over the world. SOA makes it easy to build business applications with common services, and it provides like: reduced integration expense, better asset reuse, higher business agility, and reduction of business risk. Building of framework for acquiring useful geospatial information for potential users is a crucial problem faced by the GIS domain. Geospatial Web services solve this problem. With the help of web service technology, geospatial web services can provide useful geospatial information to potential users in a better way than traditional geographic information system (GIS). A geospatial Web service is a modular application designed to enable the discovery, access, and chaining of geospatial information and services across the web that are often both computation and data-intensive that involve diverse sources of data and complex processing functions. With the proliferation of web services published over the internet, multiple web services may provide similar functionality, but with different non-functional properties. Thus, Quality of Service (QoS) offers a metric to differentiate the services and their service providers. In a quality-driven selection of web services, it is important to consider non-functional properties of the web service so as to satisfy the constraints or requirements of the end users. The main intent of this paper is to build an automated end-to-end multi-agent based solution to provide the best-fit web service to service requester based on QoS.

  8. PACS through web compatible with DICOM standard and WADO service: advantages and implementation.

    PubMed

    Koutelakis, George V; Lymperopoulos, Dimitrios K

    2006-01-01

    All users of informatics applications need rapid and reliable access to the kind of information that they are interested in. Web technology provides these capabilities. DICOM standard committees recognized the necessity of a Web medical standard. They specified WADO (Web access to DICOM object) service, so that system interaction takes place through Web, in a standarized way, allowing interoperability and proper information management inside PACS. The advantages of a Web PACS comparatively with a compatible PACS are multiple and they are detected in different fields of functionality. The authors have run a project of a WADO compatible Web PACS development. A Web portal platform with enhanced security has been implemented. Over it, DICOM applications have been developed. JavaServer Pages (JSP) technology is mainly used to satisfy design specifications and dynamic data exchanges. Furthermore, Java applets have been developed and introduced in the whole project to serve specific demands. Evaluation results confirmed our considerations about the improvement of DICOM services, when they are provided through web.

  9. Depth gradients in food web processes linking large lake habitats

    EPA Science Inventory

    In large lakes around the world, shifts in ecological communities are often associated with water depth. This suggests that there may be concomitant changes in patterns of resource allocation. Using Lake Superior as an example, we explored this idea through stable isotope analyse...

  10. Depth gradients in food web processes linking large lake habitats

    EPA Science Inventory

    In large lakes around the world, shifts in ecological communities are often associated with water depth. This suggests that there may be concomitant changes in patterns of resource allocation. Using Lake Superior as an example, we explored this idea through stable isotope analyse...

  11. Linking Course Web Sites to Library Collections and Services

    ERIC Educational Resources Information Center

    Rieger, Oya Y.; Horne, Angela K.; Revels, Ira

    2004-01-01

    A five-month research study at Cornell University Library (CUL) confirmed the strategic importance of a library presence in faculty-created course Web sites. It sparked specific recommendations to support the seamless integration of the CUL digital library within the virtual learning environments created by faculty.

  12. Leveraging Web Technologies in Student Support Self-Services

    ERIC Educational Resources Information Center

    Herndon, M. Craig

    2011-01-01

    The use of Web technologies to connect with and disperse information to prospective and current students can be effective for students as well as efficient for colleges. Early results of the use of such technologies in a statewide system point to high rates of satisfaction among students when information is delivered, provide clues on how various…

  13. "Just the Answers, Please": Choosing a Web Search Service.

    ERIC Educational Resources Information Center

    Feldman, Susan

    1997-01-01

    Presents guidelines for selecting World Wide Web search engines. Real-life questions were used to test six search engines. Queries sought company information, product reviews, medical information, foreign information, technical reports, and current events. Compares performance and features of AltaVista, Excite, HotBot, Infoseek, Lycos, and Open…

  14. Leveraging Web Technologies in Student Support Self-Services

    ERIC Educational Resources Information Center

    Herndon, M. Craig

    2011-01-01

    The use of Web technologies to connect with and disperse information to prospective and current students can be effective for students as well as efficient for colleges. Early results of the use of such technologies in a statewide system point to high rates of satisfaction among students when information is delivered, provide clues on how various…

  15. "Just the Answers, Please": Choosing a Web Search Service.

    ERIC Educational Resources Information Center

    Feldman, Susan

    1997-01-01

    Presents guidelines for selecting World Wide Web search engines. Real-life questions were used to test six search engines. Queries sought company information, product reviews, medical information, foreign information, technical reports, and current events. Compares performance and features of AltaVista, Excite, HotBot, Infoseek, Lycos, and Open…

  16. What do veterans service organizations' web sites say about tobacco control?

    PubMed

    Poston, Walker S C; Haddock, Christopher K; Jahnke, Sara A; Jitnarin, Nattinee

    2013-01-01

    Little is known about veterans service organizations (VSOs) and their perspectives on veterans smoking or military tobacco control. Veterans have high smoking rates and many started smoking in the military, where a culture promoting use exists. A qualitative content analysis of VSO Web sites was conducted to classify health topics and identify tobacco-related information. Web sites were coded by trained raters from January to June of 2011. Data were entered, cleaned, and analyzed from July 2011 to January 2012. Twenty-four active VSO Web sites meeting inclusion criteria were rated independently. A comprehensive form was used to code 15 veteran-relevant health topics across multiple content areas/domains within the Web sites. Raters achieved 94.5% interrater agreement over nearly 5000 data points. Health content was coded as present or not within multiple VSO Web site areas/domains. The frequency of coverage by each VSO Web site and the number of VSO Web sites that mentioned a health topic in different Web site areas/domains were tabulated. A total of 277 health topics were addressed, with the top five being insurance/Tricare/Veterans Administration issues (28.2%), posttraumatic stress disorder (PTSD; 15.5%), disability/amputation/wounds (13.4%), Agent Orange (10.5%), and traumatic brain injury (9.0%). Tobacco was mentioned four times (1.4%) across all 24 VSO Web sites, and smoking cessation was never addressed. VSO Web sites provide little information on tobacco-related topics and none offered information about smoking cessation. Given the high rates of tobacco use among veterans and active-duty service members, and the interaction between smoking and PTSD symptoms and treatment outcomes, VSOs should consider making tobacco control and smoking cessation higher-priority health issues on their Web sites.

  17. IAServ: An Intelligent Home Care Web Services Platform in a Cloud for Aging-in-Place

    PubMed Central

    Su, Chuan-Jun; Chiang, Chang-Yu

    2013-01-01

    As the elderly population has been rapidly expanding and the core tax-paying population has been shrinking, the need for adequate elderly health and housing services continues to grow while the resources to provide such services are becoming increasingly scarce. Thus, increasing the efficiency of the delivery of healthcare services through the use of modern technology is a pressing issue. The seamless integration of such enabling technologies as ontology, intelligent agents, web services, and cloud computing is transforming healthcare from hospital-based treatments to home-based self-care and preventive care. A ubiquitous healthcare platform based on this technological integration, which synergizes service providers with patients’ needs to be developed to provide personalized healthcare services at the right time, in the right place, and the right manner. This paper presents the development and overall architecture of IAServ (the Intelligent Aging-in-place Home care Web Services Platform) to provide personalized healthcare service ubiquitously in a cloud computing setting to support the most desirable and cost-efficient method of care for the aged-aging in place. The IAServ is expected to offer intelligent, pervasive, accurate and contextually-aware personal care services. Architecturally the implemented IAServ leverages web services and cloud computing to provide economic, scalable, and robust healthcare services over the Internet. PMID:24225647

  18. IAServ: an intelligent home care web services platform in a cloud for aging-in-place.

    PubMed

    Su, Chuan-Jun; Chiang, Chang-Yu

    2013-11-12

    As the elderly population has been rapidly expanding and the core tax-paying population has been shrinking, the need for adequate elderly health and housing services continues to grow while the resources to provide such services are becoming increasingly scarce. Thus, increasing the efficiency of the delivery of healthcare services through the use of modern technology is a pressing issue. The seamless integration of such enabling technologies as ontology, intelligent agents, web services, and cloud computing is transforming healthcare from hospital-based treatments to home-based self-care and preventive care. A ubiquitous healthcare platform based on this technological integration, which synergizes service providers with patients' needs to be developed to provide personalized healthcare services at the right time, in the right place, and the right manner. This paper presents the development and overall architecture of IAServ (the Intelligent Aging-in-place Home care Web Services Platform) to provide personalized healthcare service ubiquitously in a cloud computing setting to support the most desirable and cost-efficient method of care for the aged-aging in place. The IAServ is expected to offer intelligent, pervasive, accurate and contextually-aware personal care services. Architecturally the implemented IAServ leverages web services and cloud computing to provide economic, scalable, and robust healthcare services over the Internet.

  19. A SCORM Thin Client Architecture for E-Learning Systems Based on Web Services

    ERIC Educational Resources Information Center

    Casella, Giovanni; Costagliola, Gennaro; Ferrucci, Filomena; Polese, Giuseppe; Scanniello, Giuseppe

    2007-01-01

    In this paper we propose an architecture of e-learning systems characterized by the use of Web services and a suitable middleware component. These technical infrastructures allow us to extend the system with new services as well as to integrate and reuse heterogeneous software e-learning components. Moreover, they let us better support the…

  20. A SCORM Thin Client Architecture for E-Learning Systems Based on Web Services

    ERIC Educational Resources Information Center

    Casella, Giovanni; Costagliola, Gennaro; Ferrucci, Filomena; Polese, Giuseppe; Scanniello, Giuseppe

    2007-01-01

    In this paper we propose an architecture of e-learning systems characterized by the use of Web services and a suitable middleware component. These technical infrastructures allow us to extend the system with new services as well as to integrate and reuse heterogeneous software e-learning components. Moreover, they let us better support the…

  1. Pilot Evaluation of a Web-Based Intervention Targeting Sexual Health Service Access

    ERIC Educational Resources Information Center

    Brown, K. E.; Newby, K.; Caley, M.; Danahay, A.; Kehal, I.

    2016-01-01

    Sexual health service access is fundamental to good sexual health, yet interventions designed to address this have rarely been implemented or evaluated. In this article, pilot evaluation findings for a targeted public health behavior change intervention, delivered via a website and web-app, aiming to increase uptake of sexual health services among…

  2. Pilot Evaluation of a Web-Based Intervention Targeting Sexual Health Service Access

    ERIC Educational Resources Information Center

    Brown, K. E.; Newby, K.; Caley, M.; Danahay, A.; Kehal, I.

    2016-01-01

    Sexual health service access is fundamental to good sexual health, yet interventions designed to address this have rarely been implemented or evaluated. In this article, pilot evaluation findings for a targeted public health behavior change intervention, delivered via a website and web-app, aiming to increase uptake of sexual health services among…

  3. Final Report for DOE Project: Portal Web Services: Support of DOE SciDAC Collaboratories

    SciTech Connect

    Mary Thomas, PI; Geoffrey Fox, Co-PI; Gannon, D; Pierce, M; Moore, R; Schissel, D; Boisseau, J

    2007-10-01

    Grid portals provide the scientific community with familiar and simplified interfaces to the Grid and Grid services, and it is important to deploy grid portals onto the SciDAC grids and collaboratories. The goal of this project is the research, development and deployment of interoperable portal and web services that can be used on SciDAC National Collaboratory grids. This project has four primary task areas: development of portal systems; management of data collections; DOE science application integration; and development of web and grid services in support of the above activities.

  4. Interactive effects of fire and large herbivores on web-building spiders.

    PubMed

    Foster, C N; Barton, P S; Wood, J T; Lindenmayer, D B

    2015-09-01

    Altered disturbance regimes are a major driver of biodiversity loss worldwide. Maintaining or re-creating natural disturbance regimes is therefore the focus of many conservation programmes. A key challenge, however, is to understand how co-occurring disturbances interact to affect biodiversity. We experimentally tested for the interactive effects of prescribed fire and large macropod herbivores on the web-building spider assemblage of a eucalypt forest understorey and investigated the role of vegetation in mediating these effects using path analysis. Fire had strong negative effects on the density of web-building spiders, which were partly mediated by effects on vegetation structure, while negative effects of large herbivores on web density were not related to changes in vegetation. Fire amplified the effects of large herbivores on spiders, both via vegetation-mediated pathways and by increasing herbivore activity. The importance of vegetation-mediated pathways and fire-herbivore interactions differed for web density and richness and also differed between web types. Our results demonstrate that for some groups of web-building spiders, the effects of co-occurring disturbance drivers may be mostly additive, whereas for other groups, interactions between drivers can amplify disturbance effects. In our study system, the use of prescribed fire in the presence of high densities of herbivores could lead to reduced densities and altered composition of web-building spiders, with potential cascading effects through the arthropod food web. Our study highlights the importance of considering both the independent and interactive effects of disturbances, as well as the mechanisms driving their effects, in the management of disturbance regimes.

  5. Enhanced reproducibility of SADI web service workflows with Galaxy and Docker.

    PubMed

    Aranguren, Mikel Egaña; Wilkinson, Mark D

    2015-01-01

    Semantic Web technologies have been widely applied in the life sciences, for example by data providers such as OpenLifeData and through web services frameworks such as SADI. The recently reported OpenLifeData2SADI project offers access to the vast OpenLifeData data store through SADI services. This article describes how to merge data retrieved from OpenLifeData2SADI with other SADI services using the Galaxy bioinformatics analysis platform, thus making this semantic data more amenable to complex analyses. This is demonstrated using a working example, which is made distributable and reproducible through a Docker image that includes SADI tools, along with the data and workflows that constitute the demonstration. The combination of Galaxy and Docker offers a solution for faithfully reproducing and sharing complex data retrieval and analysis workflows based on the SADI Semantic web service design patterns.

  6. The Activity Chain Safety and Liveness Specification of Composite Web Services

    NASA Astrophysics Data System (ADS)

    Chen, Bo; Huang, Xiaomei

    Web service composition is most impressing method for development and deployment of e-business. Description and modeling the behavior requirements of composite Web services for users and verifying composite Web service compliance to specific requirements is an important key in design of services. But most work does not address the issue of how to model the requirements that the BPEL4WS processes are supposed to satisfy. The specifications in verification works are general temporal relation based on activity or scenario in essence. Distinguish with these work, we propose a novel concept of behavior specification based on activity chain in which granularity is between activity and scenario. Chain existence mode, chain absence mode are designed to express such behavioral requirements based on activity chain that is similar with safety or liveness specification based on activity respectively. Encode them on Labeled Transition System LTS and then give them exact operation semantics. Finally, an example is illustrated.

  7. Using Web Services and XML Harvesting to Achieve a Dynamic Web Site. Computers in Small Libraries

    ERIC Educational Resources Information Center

    Roberts, Gary

    2005-01-01

    Exploiting and contextualizing free information is a natural part of library culture. In this column, Gary Roberts, the information systems and reference librarian at Herrick Library, Alfred University in Alfred, NY, describes how to use XML content on a Web site to link to hundreds of free and useful resources. He gives a general overview of the…

  8. Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration.

    PubMed

    Nelson, Rex T; Avraham, Shulamit; Shoemaker, Randy C; May, Gregory D; Ware, Doreen; Gessler, Damian Dg

    2010-06-04

    priority data from local, independent, idiosyncratic data schemas to common shared concepts as implemented in web-accessible ontologies. These mappings are then amenable for use in semantic web services. Our implementation of approximately two dozen services means that biological data at three large information resources (Gramene, SoyBase, and LIS) is available for programmatic access, semantic searching, and enhanced interaction between the separate missions of these resources.

  9. Remote Internet access to advanced analytical facilities: a new approach with Web-based services.

    PubMed

    Sherry, N; Qin, J; Fuller, M Suominen; Xie, Y; Mola, O; Bauer, M; McIntyre, N S; Maxwell, D; Liu, D; Matias, E; Armstrong, C

    2012-09-04

    Over the past decade, the increasing availability of the World Wide Web has held out the possibility that the efficiency of scientific measurements could be enhanced in cases where experiments were being conducted at distant facilities. Examples of early successes have included X-ray diffraction (XRD) experimental measurements of protein crystal structures at synchrotrons and access to scanning electron microscopy (SEM) and NMR facilities by users from institutions that do not possess such advanced capabilities. Experimental control, visual contact, and receipt of results has used some form of X forwarding and/or VNC (virtual network computing) software that transfers the screen image of a server at the experimental site to that of the users' home site. A more recent development is a web services platform called Science Studio that provides teams of scientists with secure links to experiments at one or more advanced research facilities. The software provides a widely distributed team with a set of controls and screens to operate, observe, and record essential parts of the experiment. As well, Science Studio provides high speed network access to computing resources to process the large data sets that are often involved in complex experiments. The simple web browser and the rapid transfer of experimental data to a processing site allow efficient use of the facility and assist decision making during the acquisition of the experimental results. The software provides users with a comprehensive overview and record of all parts of the experimental process. A prototype network is described involving X-ray beamlines at two different synchrotrons and an SEM facility. An online parallel processing facility has been developed that analyzes the data in near-real time using stream processing. Science Studio and can be expanded to include many other analytical applications, providing teams of users with rapid access to processed results along with the means for detailed

  10. AMBIT RESTful web services: an implementation of the OpenTox application programming interface.

    PubMed

    Jeliazkova, Nina; Jeliazkov, Vedrin

    2011-05-16

    The AMBIT web services package is one of the several existing independent implementations of the OpenTox Application Programming Interface and is built according to the principles of the Representational State Transfer (REST) architecture. The Open Source Predictive Toxicology Framework, developed by the partners in the EC FP7 OpenTox project, aims at providing a unified access to toxicity data and predictive models, as well as validation procedures. This is achieved by i) an information model, based on a common OWL-DL ontology ii) links to related ontologies; iii) data and algorithms, available through a standardized REST web services interface, where every compound, data set or predictive method has a unique web address, used to retrieve its Resource Description Framework (RDF) representation, or initiate the associated calculations.The AMBIT web services package has been developed as an extension of AMBIT modules, adding the ability to create (Quantitative) Structure-Activity Relationship (QSAR) models and providing an OpenTox API compliant interface. The representation of data and processing resources in W3C Resource Description Framework facilitates integrating the resources as Linked Data. By uploading datasets with chemical structures and arbitrary set of properties, they become automatically available online in several formats. The services provide unified interfaces to several descriptor calculation, machine learning and similarity searching algorithms, as well as to applicability domain and toxicity prediction models. All Toxtree modules for predicting the toxicological hazard of chemical compounds are also integrated within this package. The complexity and diversity of the processing is reduced to the simple paradigm "read data from a web address, perform processing, write to a web address". The online service allows to easily run predictions, without installing any software, as well to share online datasets and models. The downloadable web application

  11. AMBIT RESTful web services: an implementation of the OpenTox application programming interface

    PubMed Central

    2011-01-01

    The AMBIT web services package is one of the several existing independent implementations of the OpenTox Application Programming Interface and is built according to the principles of the Representational State Transfer (REST) architecture. The Open Source Predictive Toxicology Framework, developed by the partners in the EC FP7 OpenTox project, aims at providing a unified access to toxicity data and predictive models, as well as validation procedures. This is achieved by i) an information model, based on a common OWL-DL ontology ii) links to related ontologies; iii) data and algorithms, available through a standardized REST web services interface, where every compound, data set or predictive method has a unique web address, used to retrieve its Resource Description Framework (RDF) representation, or initiate the associated calculations. The AMBIT web services package has been developed as an extension of AMBIT modules, adding the ability to create (Quantitative) Structure-Activity Relationship (QSAR) models and providing an OpenTox API compliant interface. The representation of data and processing resources in W3C Resource Description Framework facilitates integrating the resources as Linked Data. By uploading datasets with chemical structures and arbitrary set of properties, they become automatically available online in several formats. The services provide unified interfaces to several descriptor calculation, machine learning and similarity searching algorithms, as well as to applicability domain and toxicity prediction models. All Toxtree modules for predicting the toxicological hazard of chemical compounds are also integrated within this package. The complexity and diversity of the processing is reduced to the simple paradigm "read data from a web address, perform processing, write to a web address". The online service allows to easily run predictions, without installing any software, as well to share online datasets and models. The downloadable web application

  12. Persistent identifiers for web service requests relying on a provenance ontology design pattern

    NASA Astrophysics Data System (ADS)

    Car, Nicholas; Wang, Jingbo; Wyborn, Lesley; Si, Wei

    2016-04-01

    Delivering provenance information for datasets produced from static inputs is relatively straightforward: we represent the processing actions and data flow using provenance ontologies and link to stored copies of the inputs stored in repositories. If appropriate detail is given, the provenance information can then describe what actions have occurred (transparency) and enable reproducibility. When web service-generated data is used by a process to create a dataset instead of a static inputs, we need to use sophisticated provenance representations of the web service request as we can no longer just link to data stored in a repository. A graph-based provenance representation, such as the W3C's PROV standard, can be used to model the web service request as a single conceptual dataset and also as a small workflow with a number of components within the same provenance report. This dual representation does more than just allow simplified or detailed views of a dataset's production to be used where appropriate. It also allow persistent identifiers to be assigned to instances of a web service requests, thus enabling one form of dynamic data citation, and for those identifiers to resolve to whatever level of detail implementers think appropriate in order for that web service request to be reproduced. In this presentation we detail our reasoning in representing web service requests as small workflows. In outline, this stems from the idea that web service requests are perdurant things and in order to most easily persist knowledge of them for provenance, we should represent them as a nexus of relationships between endurant things, such as datasets and knowledge of particular system types, as these endurant things are far easier to persist. We also describe the ontology design pattern that we use to represent workflows in general and how we apply it to different types of web service requests. We give examples of specific web service requests instances that were made by systems

  13. Design, Development and Testing of Web Services for Multi-Sensor Snow Cover Mapping

    NASA Astrophysics Data System (ADS)

    Kadlec, Jiri

    This dissertation presents the design, development and validation of new data integration methods for mapping the extent of snow cover based on open access ground station measurements, remote sensing images, volunteer observer snow reports, and cross country ski track recordings from location-enabled mobile devices. The first step of the data integration procedure includes data discovery, data retrieval, and data quality control of snow observations at ground stations. The WaterML R package developed in this work enables hydrologists to retrieve and analyze data from multiple organizations that are listed in the Consortium of Universities for the Advancement of Hydrologic Sciences Inc (CUAHSI) Water Data Center catalog directly within the R statistical software environment. Using the WaterML R package is demonstrated by running an energy balance snowpack model in R with data inputs from CUAHSI, and by automating uploads of real time sensor observations to CUAHSI HydroServer. The second step of the procedure requires efficient access to multi-temporal remote sensing snow images. The Snow Inspector web application developed in this research enables the users to retrieve a time series of fractional snow cover from the Moderate Resolution Imaging Spectroradiometer (MODIS) for any point on Earth. The time series retrieval method is based on automated data extraction from tile images provided by a Web Map Tile Service (WMTS). The average required time for retrieving 100 days of data using this technique is 5.4 seconds, which is significantly faster than other methods that require the download of large satellite image files. The presented data extraction technique and space-time visualization user interface can be used as a model for working with other multi-temporal hydrologic or climate data WMTS services. The third, final step of the data integration procedure is generating continuous daily snow cover maps. A custom inverse distance weighting method has been developed

  14. Public transparency Web sites for radiology practices: prevalence of price, clinical quality, and service quality information.

    PubMed

    Rosenkrantz, Andrew B; Doshi, Ankur M

    2016-01-01

    To assess information regarding radiology practices on public transparency Web sites. Eight Web sites comparing radiology centers' price and quality were identified. Web site content was assessed. Six of eight Web sites reported examination prices. Other reported information included hours of operation (4/8), patient satisfaction (2/8), American College of Radiology (ACR) accreditation (3/8), on-site radiologists (2/8), as well as parking, accessibility, waiting area amenities, same/next-day reports, mammography follow-up rates, examination appropriateness, radiation dose, fellowship-trained radiologists, and advanced technologies (1/8 each). Transparency Web sites had a preponderance of price (and to a lesser extent service quality) information, risking fostering price-based competition at the expense of clinical quality. Copyright © 2016 Elsevier Inc. All rights reserved.

  15. Sensor Webs with a Service-Oriented Architecture for On-demand Science Products

    NASA Technical Reports Server (NTRS)

    Mandl, Daniel; Ungar, Stephen; Ames, Troy; Justice, Chris; Frye, Stuart; Chien, Steve; Tran, Daniel; Cappelaere, Patrice; Derezinsfi, Linda; Paules, Granville; hide

    2007-01-01

    This paper describes the work being managed by the NASA Goddard Space Flight Center (GSFC) Information System Division (ISD) under a NASA Earth Science Technology Ofice (ESTO) Advanced Information System Technology (AIST) grant to develop a modular sensor web architecture which enables discovery of sensors and workflows that can create customized science via a high-level service-oriented architecture based on Open Geospatial Consortium (OGC) Sensor Web Enablement (SWE) web service standards. These capabilities serve as a prototype to a user-centric architecture for Global Earth Observing System of Systems (GEOSS). This work builds and extends previous sensor web efforts conducted at NASA/GSFC using the Earth Observing 1 (EO-1) satellite and other low-earth orbiting satellites.

  16. Biological SOAP servers and web services provided by the public sequence data bank

    PubMed Central

    Sugawara, H.; Miyazaki, S.

    2003-01-01

    A number of biological data resources (i.e. databases and data analytical tools) are searchable and usable on-line thanks to the internet and the World Wide Web (WWW) servers. The output from the web server is easy for us to browse. However, it is laborious and sometimes impossible for us to write a computer program that finds a useful data resource, sends a proper query and processes the output. It is a serious obstacle to the integration of distributed heterogeneous data resources. To solve the issue, we have implemented a SOAP (Simple Object Access Protocol) server and web services that provide a program-friendly interface. The web services are accessible at http://www.xml.nig.ac.jp/. PMID:12824432

  17. Technical note: Harmonizing met-ocean model data via standard web services within small research groups

    NASA Astrophysics Data System (ADS)

    Signell, R. P.; Camossi, E.

    2015-11-01

    Work over the last decade has resulted in standardized web-services and tools that can significantly improve the efficiency and effectiveness of working with meteorological and ocean model data. While many operational modelling centres have enabled query and access to data via common web services, most small research groups have not. The penetration of this approach into the research community, where IT resources are limited, can be dramatically improved by: (1) making it simple for providers to enable web service access to existing output files; (2) using technology that is free, and that is easy to deploy and configure; and (3) providing tools to communicate with web services that work in existing research environments. We present a simple, local brokering approach that lets modelers continue producing custom data, but virtually aggregates and standardizes the data using NetCDF Markup Language. The THREDDS Data Server is used for data delivery, pycsw for data search, NCTOOLBOX (Matlab®1) and Iris (Python) for data access, and Ocean Geospatial Consortium Web Map Service for data preview. We illustrate the effectiveness of this approach with two use cases involving small research modelling groups at NATO and USGS.1 Mention of trade names or commercial products does not constitute endorsement or recommendation for use by the US Government.

  18. Research on registry centre for geospatial web service based on CSW specification

    NASA Astrophysics Data System (ADS)

    Chen, Yumin; Song, Chunqiao; Shen, Shengyu; Yang, Qing

    2008-12-01

    With the increase of geospatial data and services, how to more efficiently utilize and share the geographic information becomes a crucial problem. To effectively integrate and enhance abundant geographic information anywhere, this paper presents a Registry Centre for Geospatial Web Service (RCGWS) based on the Open Geospatial Consortium (OGC) Catalogue Service for Web and the ebXML Registry Information Model (ebRIM), which provides registration and discovery portals for geospatial metadata for dataset and services. The design ideology and architecture of RCGWS are introduced, and the techniques of appending GIS services classification in extended ebRIM and external interfaces of RCGWS based on OGC CWS are discussed. The implementation of RCGWS platform shows that this Registry Centre can satisfy the requirement of geospatial dataset and services.

  19. Implementation of Web 2.0 services in academic, medical and research libraries: a scoping review.

    PubMed

    Gardois, Paolo; Colombi, Nicoletta; Grillo, Gaetano; Villanacci, Maria C

    2012-06-01

    Academic, medical and research libraries frequently implement Web 2.0 services for users. Several reports notwithstanding, characteristics and effectiveness of services are unclear. To find out: the Web 2.0 services implemented by medical, academic and research libraries; study designs, measures and types of data used in included articles to evaluate effectiveness; whether the identified body of literature is amenable to a systematic review of results. Scoping review mapping the literature on the topic. Searches were performed in 19 databases. research articles in English, Italian, German, French and Spanish (publication date ≥ 2006) about Web 2.0 services for final users implemented by academic, medical and research libraries. Reviewers' agreement was measured by Cohen's kappa. From a data set of 6461 articles, 255 (4%) were coded and analysed. Conferencing/chat/instant messaging, blogging, podcasts, social networking, wikis and aggregators were frequently examined. Services were mainly targeted at general academic users of English-speaking countries. Data prohibit a reliable estimate of the relative frequency of implemented Web 2.0 services. Case studies were the prevalent design. Most articles evaluated different outcomes using diverse assessment methodologies. A systematic review is recommended to assess the effectiveness of such services. © 2012 The authors. Health Information and Libraries Journal © 2012 Health Libraries Group.

  20. Coastal Ocean Observing Network - Open Source Architecture for Data Management and Web-Based Data Services

    NASA Astrophysics Data System (ADS)

    Pattabhi Rama Rao, E.; Venkat Shesu, R.; Udaya Bhaskar, T. V. S.

    2012-07-01

    The observations from the oceans are the backbone for any kind of operational services, viz. potential fishing zone advisory services, ocean state forecast, storm surges, cyclones, monsoon variability, tsunami, etc. Though it is important to monitor open Ocean, it is equally important to acquire sufficient data in the coastal ocean through coastal ocean observing systems for re-analysis, analysis and forecast of coastal ocean by assimilating different ocean variables, especially sub-surface information; validation of remote sensing data, ocean and atmosphere model/analysis and to understand the processes related to air-sea interaction and ocean physics. Accurate information and forecast of the state of the coastal ocean at different time scales is vital for the wellbeing of the coastal population as well as for the socio-economic development of the country through shipping, offshore oil and energy etc. Considering the importance of ocean observations in terms of understanding our ocean environment and utilize them for operational oceanography, a large number of platforms were deployed in the Indian Ocean including coastal observatories, to acquire data on ocean variables in and around Indian Seas. The coastal observation network includes HF Radars, wave rider buoys, sea level gauges, etc. The surface meteorological and oceanographic data generated by these observing networks are being translated into ocean information services through analysis and modelling. Centralized data management system is a critical component in providing timely delivery of Ocean information and advisory services. In this paper, we describe about the development of open-source architecture for real-time data reception from the coastal observation network, processing, quality control, database generation and web-based data services that includes on-line data visualization and data downloads by various means.

  1. Chaining of web services and its application in geographic information integration and visualization

    NASA Astrophysics Data System (ADS)

    Chen, Chuanbin; Wu, Qunyong; Chen, Chongcheng; Chen, Han

    2005-11-01

    The rapid development of web services technology ushers Geographical Information Systems (GISs) into the era of geographic information web services (GIWS), which requires a scalable and extensible GISs model to deliver distributed geographic information and GISs functions integrated as independently-provided, interoperable services in a distributed computing environment. Several distributed services can be dynamically chained as a new service to accomplish a specific task. Such a model of service chaining is one of the most important research topics of next generation GISs. The paper highlights the issues of service chaining, the process of combining several distributed, interoperable GIWS dynamically to construct customized applications, and analyses characters of each pattern. Then, based on pattern of client-coordinated chaining, we design a service chaining which is developed in a J2EE development environment using web services technology, and construct a web services-oriented Geo-spatial data integration and visualization platform in order to integrate multi-sources and heterogeneous Geo-spatial data using Geography Markup Language (GML) and Geo-spatial data integration technology, and to visualize geographic information using Scalable Vector Graphics (SVG) and JavaScript technology. During the process of design, several GIWS are defined, and functions, interfaces and related methods of these services are discussed in detail. The paper focuses on the method for chaining distributed GIWS, the mechanism for geographic information dissemination and error handling. Finally, forest Geo-spatial Data which have two typical types of data E00 and Shapefile (SHP) was used to test the platform. The result indicates that using service chaining for multi-sources and heterogeneous Geo-spatial data integration and visualization can efficiently meet customized needs, but further research is needed for better application.

  2. Service quality of Early Childhood Education web portals in Finnish municipalities

    NASA Astrophysics Data System (ADS)

    Koskivaara, Eija; Pihlaja, Päivi

    Increasing number of governmental organizations have transformed material on their web sites as a way of providing users with information about their products and services. In this paper, we apply Yang et al (2005) instrument for analyzing municipal early childhood education (ECE) web sites in Finland. The objective of the study was to find out the quality of ECE web portals as well as to give hints to improve their value from users' point of view. In general the five dimensions, usability, usefulness of content, adequacy of information, accessibility, and interaction, of the Yang et al model seems to be applicable also in the early childhood education environment.

  3. Automated web service composition supporting conditional branch structures

    NASA Astrophysics Data System (ADS)

    Wang, Pengwei; Ding, Zhijun; Jiang, Changjun; Zhou, Mengchu

    2014-01-01

    The creation of value-added services by automatic composition of existing ones is gaining a significant momentum as the potential silver bullet in service-oriented architecture. However, service composition faces two aspects of difficulties. First, users' needs present such characteristics as diversity, uncertainty and personalisation; second, the existing services run in a real-world environment that is highly complex and dynamically changing. These difficulties may cause the emergence of nondeterministic choices in the process of service composition, which has gone beyond what the existing automated service composition techniques can handle. According to most of the existing methods, the process model of composite service includes sequence constructs only. This article presents a method to introduce conditional branch structures into the process model of composite service when needed, in order to satisfy users' diverse and personalised needs and adapt to the dynamic changes of real-world environment. UML activity diagrams are used to represent dependencies in composite service. Two types of user preferences are considered in this article, which have been ignored by the previous work and a simple programming language style expression is adopted to describe them. Two different algorithms are presented to deal with different situations. A real-life case is provided to illustrate the proposed concepts and methods.

  4. Integrating semantic web technologies and geospatial catalog services for geospatial information discovery and processing in cyberinfrastructure

    SciTech Connect

    Yue, Peng; Gong, Jianya; Di, Liping; He, Lianlian; Wei, Yaxing

    2011-04-01

    Abstract A geospatial catalogue service provides a network-based meta-information repository and interface for advertising and discovering shared geospatial data and services. Descriptive information (i.e., metadata) for geospatial data and services is structured and organized in catalogue services. The approaches currently available for searching and using that information are often inadequate. Semantic Web technologies show promise for better discovery methods by exploiting the underlying semantics. Such development needs special attention from the Cyberinfrastructure perspective, so that the traditional focus on discovery of and access to geospatial data can be expanded to support the increased demand for processing of geospatial information and discovery of knowledge. Semantic descriptions for geospatial data, services, and geoprocessing service chains are structured, organized, and registered through extending elements in the ebXML Registry Information Model (ebRIM) of a geospatial catalogue service, which follows the interface specifications of the Open Geospatial Consortium (OGC) Catalogue Services for the Web (CSW). The process models for geoprocessing service chains, as a type of geospatial knowledge, are captured, registered, and discoverable. Semantics-enhanced discovery for geospatial data, services/service chains, and process models is described. Semantic search middleware that can support virtual data product materialization is developed for the geospatial catalogue service. The creation of such a semantics-enhanced geospatial catalogue service is important in meeting the demands for geospatial information discovery and analysis in Cyberinfrastructure.

  5. An approach for Web service selection based on confidence level of decision maker.

    PubMed

    Khezrian, Mojtaba; Jahan, Ali; Kadir, Wan Mohd Nasir Wan; Ibrahim, Suhaimi

    2014-01-01

    Web services today are among the most widely used groups for Service Oriented Architecture (SOA). Service selection is one of the most significant current discussions in SOA, which evaluates discovered services and chooses the best candidate from them. Although a majority of service selection techniques apply Quality of Service (QoS), the behaviour of QoS-based service selection leads to service selection problems in Multi-Criteria Decision Making (MCDM). In the existing works, the confidence level of decision makers is neglected and does not consider their expertise in assessing Web services. In this paper, we employ the VIKOR (VIšekriterijumskoKOmpromisnoRangiranje) method, which is absent in the literature for service selection, but is well-known in other research. We propose a QoS-based approach that deals with service selection by applying VIKOR with improvement of features. This research determines the weights of criteria based on user preference and accounts for the confidence level of decision makers. The proposed approach is illustrated by an example in order to demonstrate and validate the model. The results of this research may facilitate service consumers to attain a more efficient decision when selecting the appropriate service.

  6. An Approach for Web Service Selection Based on Confidence Level of Decision Maker

    PubMed Central

    Khezrian, Mojtaba; Jahan, Ali; Wan Kadir, Wan Mohd Nasir; Ibrahim, Suhaimi

    2014-01-01

    Web services today are among the most widely used groups for Service Oriented Architecture (SOA). Service selection is one of the most significant current discussions in SOA, which evaluates discovered services and chooses the best candidate from them. Although a majority of service selection techniques apply Quality of Service (QoS), the behaviour of QoS-based service selection leads to service selection problems in Multi-Criteria Decision Making (MCDM). In the existing works, the confidence level of decision makers is neglected and does not consider their expertise in assessing Web services. In this paper, we employ the VIKOR (VIšekriterijumskoKOmpromisnoRangiranje) method, which is absent in the literature for service selection, but is well-known in other research. We propose a QoS-based approach that deals with service selection by applying VIKOR with improvement of features. This research determines the weights of criteria based on user preference and accounts for the confidence level of decision makers. The proposed approach is illustrated by an example in order to demonstrate and validate the model. The results of this research may facilitate service consumers to attain a more efficient decision when selecting the appropriate service. PMID:24897426

  7. Prototype of Partial Cutting Tool of Geological Map Images Distributed by Geological Web Map Service

    NASA Astrophysics Data System (ADS)

    Nonogaki, S.; Nemoto, T.

    2014-12-01

    Geological maps and topographical maps play an important role in disaster assessment, resource management, and environmental preservation. These map information have been distributed in accordance with Web services standards such as Web Map Service (WMS) and Web Map Tile Service (WMTS) recently. In this study, a partial cutting tool of geological map images distributed by geological WMTS was implemented with Free and Open Source Software. The tool mainly consists of two functions: display function and cutting function. The former function was implemented using OpenLayers. The latter function was implemented using Geospatial Data Abstraction Library (GDAL). All other small functions were implemented by PHP and Python. As a result, this tool allows not only displaying WMTS layer on web browser but also generating a geological map image of intended area and zoom level. At this moment, available WTMS layers are limited to the ones distributed by WMTS for the Seamless Digital Geological Map of Japan. The geological map image can be saved as GeoTIFF format and WebGL format. GeoTIFF is one of the georeferenced raster formats that is available in many kinds of Geographical Information System. WebGL is useful for confirming a relationship between geology and geography in 3D. In conclusion, the partial cutting tool developed in this study would contribute to create better conditions for promoting utilization of geological information. Future work is to increase the number of available WMTS layers and the types of output file format.

  8. US Geoscience Information Network, Web Services for Geoscience Information Discovery and Access

    NASA Astrophysics Data System (ADS)

    Richard, S.; Allison, L.; Clark, R.; Coleman, C.; Chen, G.

    2012-04-01

    The US Geoscience information network has developed metadata profiles for interoperable catalog services based on ISO19139 and the OGC CSW 2.0.2. Currently data services are being deployed for the US Dept. of Energy-funded National Geothermal Data System. These services utilize OGC Web Map Services, Web Feature Services, and THREDDS-served NetCDF for gridded datasets. Services and underlying datasets (along with a wide variety of other information and non information resources are registered in the catalog system. Metadata for registration is produced by various workflows, including harvest from OGC capabilities documents, Drupal-based web applications, transformation from tabular compilations. Catalog search is implemented using the ESRI Geoportal open-source server. We are pursuing various client applications to demonstrated discovery and utilization of the data services. Currently operational applications allow catalog search and data acquisition from map services in an ESRI ArcMap extension, a catalog browse and search application built on openlayers and Django. We are developing use cases and requirements for other applications to utilize geothermal data services for resource exploration and evaluation.

  9. A Design of a Network Model to the Electric Power Trading System Using Web Services

    NASA Astrophysics Data System (ADS)

    Maruo, Tomoaki; Matsumoto, Keinosuke; Mori, Naoki; Kitayama, Masashi; Izumi, Yoshio

    Web services are regarded as a new application paradigm in the world of the Internet. On the other hand, many business models of a power trading system has been proposed to aim at load reduction by consumers cooperating with electric power suppliers in an electric power market. Then, we propose a network model of power trading system using Web service in this paper. The adaptability of Web services to power trading system was checked in the prototype of our network model and we got good results for it. Each server provides functions as a SOAP server, and it is coupled loosely with each other through SOAP. Storing SOAP message in HTTP packet can establish the penetration communication way that is not conscious of a firewall. Switching of a dynamic server is possible by means of rewriting the server point information on WSDL at the time of obstacle generating.

  10. Lexical Link Analysis Application: Improving Web Service to Acquisition Visibility Portal Phase III

    DTIC Science & Technology

    2015-04-30

    ååì~ä=^Åèìáëáíáçå= oÉëÉ~êÅÜ=póãéçëáìã= qÜìêëÇ~ó=pÉëëáçåë= sçäìãÉ=ff= = Lexical Link Analysis Application: Improving Web Service to Acquisition...2015 2. REPORT TYPE 3. DATES COVERED 00-00-2015 to 00-00-2015 4. TITLE AND SUBTITLE Lexical Link Analysis Application: Improving Web Service...www.acquisitionresearch.net). ^Åèìáëáíáçå=oÉëÉ~êÅÜ=mêçÖê~ãW= `êÉ~íáåÖ=póåÉêÖó=Ñçê=fåÑçêãÉÇ=`Ü~åÖÉ= - 345 - Lexical Link Analysis Application: Improving Web Service

  11. High-performance web services for querying gene and variant annotation.

    PubMed

    Xin, Jiwen; Mark, Adam; Afrasiabi, Cyrus; Tsueng, Ginger; Juchler, Moritz; Gopal, Nikhil; Stupp, Gregory S; Putman, Timothy E; Ainscough, Benjamin J; Griffith, Obi L; Torkamani, Ali; Whetzel, Patricia L; Mungall, Christopher J; Mooney, Sean D; Su, Andrew I; Wu, Chunlei

    2016-05-06

    Efficient tools for data management and integration are essential for many aspects of high-throughput biology. In particular, annotations of genes and human genetic variants are commonly used but highly fragmented across many resources. Here, we describe MyGene.info and MyVariant.info, high-performance web services for querying gene and variant annotation information. These web services are currently accessed more than three million times permonth. They also demonstrate a generalizable cloud-based model for organizing and querying biological annotation information. MyGene.info and MyVariant.info are provided as high-performance web services, accessible at http://mygene.info and http://myvariant.info . Both are offered free of charge to the research community.

  12. Designing web services in health information systems: from process to application level.

    PubMed

    Mykkänen, Juha; Riekkinen, Annamari; Sormunen, Marko; Karhunen, Harri; Laitinen, Pertti

    2007-01-01

    Service-oriented architectures (SOAs) and web service technologies have been proposed to respond to some central interoperability challenges of heterogeneous health information systems (HIS). We propose a model which we are using to define services and solutions for healthcare applications from the requirements in the healthcare processes. Focusing on the transition from the process level of the model to the application level, we also present some central design considerations, which can be used to guide the design of service-based interoperability. We illustrate these aspects with examples from our current work from the service-enabled HIS.

  13. Designing web services in health information systems: from process to application level.

    PubMed

    Mykkänen, Juha; Riekkinen, Annamari; Laitinen, Pertti; Karhunen, Harri; Sormunen, Marko

    2005-01-01

    Service-oriented architectures (SOA) and web service technologies have been proposed to respond to some central interoperability challenges of heterogeneous health information systems (HIS). We propose a model, which we are using to define services and solutions for healthcare applications from the requirements in the healthcare processes. Focusing on the transition from the process level of the model to the application level, we also present some central design considerations, which can be used to guide the design of service-based interoperability and illustrate these aspects with examples from our current work in service-enabled HIS.

  14. Electronic sensor and actuator webs for large-area complex geometry cardiac mapping and therapy

    PubMed Central

    Kim, Dae-Hyeong; Ghaffari, Roozbeh; Lu, Nanshu; Wang, Shuodao; Lee, Stephen P.; Keum, Hohyun; D’Angelo, Robert; Klinker, Lauren; Su, Yewang; Lu, Chaofeng; Kim, Yun-Soung; Ameen, Abid; Li, Yuhang; Zhang, Yihui; de Graff, Bassel; Hsu, Yung-Yu; Liu, ZhuangJian; Ruskin, Jeremy; Xu, Lizhi; Lu, Chi; Omenetto, Fiorenzo G.; Huang, Yonggang; Mansour, Moussa; Slepian, Marvin J.; Rogers, John A.

    2012-01-01

    Curved surfaces, complex geometries, and time-dynamic deformations of the heart create challenges in establishing intimate, nonconstraining interfaces between cardiac structures and medical devices or surgical tools, particularly over large areas. We constructed large area designs for diagnostic and therapeutic stretchable sensor and actuator webs that conformally wrap the epicardium, establishing robust contact without sutures, mechanical fixtures, tapes, or surgical adhesives. These multifunctional web devices exploit open, mesh layouts and mount on thin, bio-resorbable sheets of silk to facilitate handling in a way that yields, after dissolution, exceptionally low mechanical moduli and thicknesses. In vivo studies in rabbit and pig animal models demonstrate the effectiveness of these device webs for measuring and spatially mapping temperature, electrophysiological signals, strain, and physical contact in sheet and balloon-based systems that also have the potential to deliver energy to perform localized tissue ablation. PMID:23150574

  15. Applying Semantic Web Services and Wireless Sensor Networks for System Integration

    NASA Astrophysics Data System (ADS)

    Berkenbrock, Gian Ricardo; Hirata, Celso Massaki; de Oliveira Júnior, Frederico Guilherme Álvares; de Oliveira, José Maria Parente

    In environments like factories, buildings, and homes automation services tend to often change during their lifetime. Changes are concerned to business rules, process optimization, cost reduction, and so on. It is important to provide a smooth and straightforward way to deal with these changes so that could be handled in a faster and low cost manner. Some prominent solutions use the flexibility of Wireless Sensor Networks and the meaningful description of Semantic Web Services to provide service integration. In this work, we give an overview of current solutions for machinery integration that combine both technologies as well as a discussion about some perspectives and open issues when applying Wireless Sensor Networks and Semantic Web Services for automation services integration.

  16. Description and testing of the Geo Data Portal: Data integration framework and Web processing services for environmental science collaboration

    USGS Publications Warehouse

    Blodgett, David L.; Booth, Nathaniel L.; Kunicki, Thomas C.; Walker, Jordan I.; Viger, Roland J.

    2011-01-01

    Interest in sharing interdisciplinary environmental modeling results and related data is increasing among scientists. The U.S. Geological Survey Geo Data Portal project enables data sharing by assembling open-standard Web services into an integrated data retrieval and analysis Web application design methodology that streamlines time-consuming and resource-intensive data management tasks. Data-serving Web services allow Web-based processing services to access Internet-available data sources. The Web processing services developed for the project create commonly needed derivatives of data in numerous formats. Coordinate reference system manipulation and spatial statistics calculation components implemented for the Web processing services were confirmed using ArcGIS 9.3.1, a geographic information science software package. Outcomes of the Geo Data Portal project support the rapid development of user interfaces for accessing and manipulating environmental data.

  17. Recent innovations in using Web Map Services to display gridded and non-gridded ocean data

    NASA Astrophysics Data System (ADS)

    Griffiths, Guy; Blower, Jon; López, Alejandro; Polo, Isabel; Romero, Laia; Loubrieu, Thomas; Brégent, Sophie

    2014-05-01

    The University of Reading has in developed techniques for fast visualisation of gridded data, such that they can be used in a WMS (web-map server) system. The aim is to provide data visualisation which is quick enough to be used interactively (e.g. on a website) even with very large underlying datasets. The two main tools which have come out of this effort are ncWMS (a WMS server for displaying NetCDF data) and its accompanying web client, Godiva2. This software is very widely used by oceanographic (and other) institutions and this presentation describes some of the most recent advances, together with plans for the future. For the MyOcean View Service, the University of Reading has extended ncWMS to allow it to display in situ measurement data. This accesses a supporting system, Oceanotron, created by Ifremer, which performs spatial indexing to retrieve observations from a database. By incorporating Oceanotron into the widely-used ncWMS software, map images of such point data can be accessed in a manner consistent with open standards. Intelligent grouping of variables combined with use of the WMS standard GetFeatureInfo request allows the display of in-situ measurements in a way that makes it simple to investigate the parameters required, when each single point may contain a lot of information. By providing various request parameters, the vertical or time dimensions of the data can be selected on in a straightforward manner. Combined with extensions to Godiva, this allows for in-situ (e.g. buoy) data to be easily visualised and explored in a web browser, alongside other data sources such as model data. Using these tools, Altamira has developed extended functionalities for ocean data visualization in operational portals. These include the visualization of multiple layers of data simultaneously, integration with authentication and authorization systems (in order to display different data depending on user rights, a key requirement for many operational systems) and

  18. Wilber 3: A Python-Django Web Application For Acquiring Large-scale Event-oriented Seismic Data

    NASA Astrophysics Data System (ADS)

    Newman, R. L.; Clark, A.; Trabant, C. M.; Karstens, R.; Hutko, A. R.; Casey, R. E.; Ahern, T. K.

    2013-12-01

    Since 2001, the IRIS Data Management Center (DMC) WILBER II system has provided a convenient web-based interface for locating seismic data related to a particular event, and requesting a subset of that data for download. Since its launch, both the scale of available data and the technology of web-based applications have developed significantly. Wilber 3 is a ground-up redesign that leverages a number of public and open-source projects to provide an event-oriented data request interface with a high level of interactivity and scalability for multiple data types. Wilber 3 uses the IRIS/Federation of Digital Seismic Networks (FDSN) web services for event data, metadata, and time-series data. Combining a carefully optimized Google Map with the highly scalable SlickGrid data API, the Wilber 3 client-side interface can load tens of thousands of events or networks/stations in a single request, and provide instantly responsive browsing, sorting, and filtering of event and meta data in the web browser, without further reliance on the data service. The server-side of Wilber 3 is a Python-Django application, one of over a dozen developed in the last year at IRIS, whose common framework, components, and administrative overhead represent a massive savings in developer resources. Requests for assembled datasets, which may include thousands of data channels and gigabytes of data, are queued and executed using the Celery distributed Python task scheduler, giving Wilber 3 the ability to operate in parallel across a large number of nodes.

  19. Implementing a Web-based clinical information system using EMR middle layer services.

    PubMed Central

    Kittredge, R. L.; Estey, G.; Pappas, J. J.; Barnett, G. O.

    1996-01-01

    The Clinical Summary is a Web-based application for accessing the clinical database at the Massachusetts General Hospital. The application has been developed to give physicians in our health care community access to clinical information for patients they refer to our hospital. "Middle layer" services, written previously for the hospital's clinical workstation, supply much of the application's functionality. Employment of reusable services together with a Web-based front end has afforded a rapid and inexpensive means for developing a new clinical information system. This paper discusses the system's design, function, and methods of implementation. PMID:8947742

  20. Integrated web system of geospatial data services for climate research

    NASA Astrophysics Data System (ADS)

    Okladnikov, Igor; Gordov, Evgeny; Titov, Alexander

    2016-04-01

    Georeferenced datasets are currently actively used for modeling, interpretation and forecasting of climatic and ecosystem changes on different spatial and temporal scales. Due to inherent heterogeneity of environmental datasets as well as their huge size (up to tens terabytes for a single dataset) a special software supporting studies in the climate and environmental change areas is required. An approach for integrated analysis of georefernced climatological data sets based on combination of web and GIS technologies in the framework of spatial data infrastructure paradigm is presented. According to this approach a dedicated data-processing web system for integrated analysis of heterogeneous georeferenced climatological and meteorological data is being developed. It is based on Open Geospatial Consortium (OGC) standards and involves many modern solutions such as object-oriented programming model, modular composition, and JavaScript libraries based on GeoExt library, ExtJS Framework and OpenLayers software. This work is supported by the Ministry of Education and Science of the Russian Federation, Agreement #14.613.21.0037.

  1. A Methodology for the Development of RESTful Semantic Web Services for Gene Expression Analysis.

    PubMed

    Guardia, Gabriela D A; Pires, Luís Ferreira; Vêncio, Ricardo Z N; Malmegrim, Kelen C R; de Farias, Cléver R G

    2015-01-01

    Gene expression studies are generally performed through multi-step analysis processes, which require the integrated use of a number of analysis tools. In order to facilitate tool/data integration, an increasing number of analysis tools have been developed as or adapted to semantic web services. In recent years, some approaches have been defined for the development and semantic annotation of web services created from legacy software tools, but these approaches still present many limitations. In addition, to the best of our knowledge, no suitable approach has been defined for the functional genomics domain. Therefore, this paper aims at defining an integrated methodology for the implementation of RESTful semantic web services created from gene expression analysis tools and the semantic annotation of such services. We have applied our methodology to the development of a number of services to support the analysis of different types of gene expression data, including microarray and RNASeq. All developed services are publicly available in the Gene Expression Analysis Services (GEAS) Repository at http://dcm.ffclrp.usp.br/lssb/geas. Additionally, we have used a number of the developed services to create different integrated analysis scenarios to reproduce parts of two gene expression studies documented in the literature. The first study involves the analysis of one-color microarray data obtained from multiple sclerosis patients and healthy donors. The second study comprises the analysis of RNA-Seq data obtained from melanoma cells to investigate the role of the remodeller BRG1 in the proliferation and morphology of these cells. Our methodology provides concrete guidelines and technical details in order to facilitate the systematic development of semantic web services. Moreover, it encourages the development and reuse of these services for the creation of semantically integrated solutions for gene expression analysis.

  2. A Methodology for the Development of RESTful Semantic Web Services for Gene Expression Analysis

    PubMed Central

    Guardia, Gabriela D. A.; Pires, Luís Ferreira; Vêncio, Ricardo Z. N.; Malmegrim, Kelen C. R.; de Farias, Cléver R. G.

    2015-01-01

    Gene expression studies are generally performed through multi-step analysis processes, which require the integrated use of a number of analysis tools. In order to facilitate