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<!--
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.1)
- * Copyright (C) 2014 The Jalview Authors
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
+ * Copyright (C) 2015 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.
+ * 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/>.
+ * 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.
--->
+ -->
<head>
<title>DAS Features</title>
</head>
<body>
-<p><strong>DAS Sequence Feature Retrieval</strong></p>
-<p>Jalview includes a client for retrieving sequences and their features via
-the <a href="http://www.biodas.org">Distributed Annotation System</a>.</p>
-<ol>
- <li>Open the Feature Settings panel by selecting "View ->
- Feature Settings..."</li>
- <li>Click on the "<a href="dassettings.html">DAS Settings</a>"
- tabbed pane.</li>
- <li>Select the sources to use for DAS feature retrieval, then
- click the "Fetch DAS Features" button.
- <ul>
- <li>Cancelling Feature Retrieval<br>
- Press the <strong>Cancel Fetch</strong> button to immediately stop
- feature retrieval. This will not remove any features already added to
- the alignment, but will halt any outstanding DAS requests.<em>The
- cancel fetch button is of particular use when one or more DAS
- annotation servers are not responding!</em>
- </ul>
- </li>
-</ol>
-<p>If your DAS source selection contains sources which use Uniprot
-accession ids, you will be asked whether Jalview should find Uniprot
-Accession ids for the given sequence names. It is important to realise
-that many DAS sources only use Uniprot accession ids, rather than
-Swissprot/Uniprot sequence names.<br>
-The <a href="../webServices/dbreffetcher.html">database reference
-fetcher</a> documentation describes how Jalview discovers what database
-references are appropriate for the sequences in the alignment.
-<ul>
- <li><em>Note</em><br>
- Please remember to save your alignment if either the start/end
- numbering, or the sequence IDs were updated during the ID
- retrieval process.</li>
-</ul>
-<p>
-<p><em>DAS support was introduced in Jalview Version 2.1.</em></p>
-<p>
+ <p>
+ <strong>DAS Sequence Feature Retrieval</strong>
+ </p>
+ <p>
+ Jalview includes a client for retrieving sequences and their
+ features via the <a href="http://www.biodas.org">Distributed
+ Annotation System</a>.
+ </p>
+ <ol>
+ <li>Open the Feature Settings panel by selecting "View
+ -> Feature Settings..."</li>
+ <li>Click on the "<a href="dassettings.html">DAS
+ Settings</a>" tabbed pane.
+ </li>
+ <li>Select the sources to use for DAS feature retrieval, then
+ click the "Fetch DAS Features" button.
+ <ul>
+ <li>Cancelling Feature Retrieval<br> Press the <strong>Cancel
+ Fetch</strong> button to immediately stop feature retrieval. This
+ will not remove any features already added to the alignment,
+ but will halt any outstanding DAS requests.<em>The cancel
+ fetch button is of particular use when one or more DAS
+ annotation servers are not responding!</em>
+ </ul>
+ </li>
+ </ol>
+ <p>
+ If your DAS source selection contains sources which use Uniprot
+ accession ids, you will be asked whether Jalview should find Uniprot
+ Accession ids for the given sequence names. It is important to
+ realise that many DAS sources only use Uniprot accession ids, rather
+ than Swissprot/Uniprot sequence names.<br> The <a
+ href="../webServices/dbreffetcher.html"
+ >database reference fetcher</a> documentation describes how Jalview
+ discovers what database references are appropriate for the sequences
+ in the alignment.
+ <ul>
+ <li><em>Note</em><br> Please remember to save your
+ alignment if either the start/end numbering, or the sequence IDs
+ were updated during the ID retrieval process.</li>
+ </ul>
+ <p>
+ <p>
+ <em>DAS support was introduced in Jalview Version 2.1.</em>
+ </p>
+ <p>
</body>
</html>
git://source.jalview.org / jalview.git / blobdiff