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-<!--
- * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
- * Copyright (C) $$Year-Rel$$ The Jalview Authors
- *
- * This file is part of Jalview.
- *
- * Jalview is free software: you can redistribute it and/or
- * modify it under the terms of the GNU General Public License
- * as published by the Free Software Foundation, either version 3
- * of the License, or (at your option) any later version.
- *
- * Jalview is distributed in the hope that it will be useful, but
- * WITHOUT ANY WARRANTY; without even the implied warranty
- * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
- * PURPOSE. See the GNU General Public License for more details.
- *
- * You should have received a copy of the GNU General Public License
- * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
- * The Jalview Authors are detailed in the 'AUTHORS' file.
- -->
-<html>
-<head>
-<title>Web Services</title>
-</head>
-<body>
- <p>
- <strong>Web services</strong>
- </p>
-
- <p>Jalview includes clients for a variety of web services for both
- bioinformatic data retrieval and analysis.
- <ul>
- <li>The <a href="../features/seqfetch.html">Sequence
- Fetcher</a> utilises web services for sequence, alignment and
- structure retrieval provided by the European Bioinformatics
- Institute (EBI) and Distributed Annotation System servers that are
- capable of serving sequences.
- </li>
- <li>The <a href="dbreffetcher.html">Database Reference
- Fetcher</a> transfers database references and annotation from the public
- sequence databases.
- </li>
- <li>The <strong>Web Services</strong> menu in each alignment
- window also provides access to the following:
- <ul>
- <li>Programs for <a href="msaclient.html">multiple
- sequence alignment</a>, made available <em>via</em> <a
- href="JABAWS.html">Java Bioinformatic Analysis
- Web Service (JABAWS)</a> servers.
- </li>
- <li>Jalview SOAP Web Services for <a href="jnet.html">secondary
- structure prediction</a> based at the University of Dundee.
- </li>
- <li>Services for alignment analysis, such as <a
- href="shmr.html">Multi-Harmony</a>.
- </ul>
- <p>
- <strong>Web Service Dialog Box</strong>
- </p> <img src="clwqueued.gif">
- <p>This dialog box is displayed when a web service job is
- submitted. It gives the name of the service and any method
- citation information, and monitors the progress of the
- calculation. The cancel button will permanently cancel the job,
- but this is only possible for some services.</p> The <a
- href="webServicesPrefs.html">Web Services Preference
- panel</a> controls the display and appearance of the submission and
- analysis services in the <strong>Web Services</strong> menu.
- </li>
- <li>If Jalview encounters problems accessing any services, it
- may display a <a href="webServicesPrefs.html#wswarnings">warning
- dialog box</a> (this can be turned off using the web services
- preferences tab).
- </li>
- </ul>
- </p>
- <p>
- <strong>More about Jalview's Web Services</strong> <br>
- Jalview's distributed computations utilise <a
- href="http://en.wikipedia.org/wiki/SOAP">SOAP</a> and <a
- href="http://en.wikipedia.org/wiki/Representational_State_Transfer">REST</a>
- web services exposing sequence alignment, analysis, and secondary
- structure prediction programs. Originally, Jalview 2's services were
- maintained by the Barton group at the University of Dundee, and ran
- programs on the Life Sciences High-performance Computing Cluster.
- With the advent of <a href="http://www.compbio.dundee.ac.uk/jabaws">JABAWS</a>,
- however, it is possible for anyone to host Jalview web services.
- </p>
-</body>
-</html>
git://source.jalview.org / jalview.git / blobdiff