JAL-1711 and JAL-1714 documentation updated
authortcofoegbu <tcnofoegbu@dundee.ac.uk>
Tue, 28 Apr 2015 10:49:30 +0000 (11:49 +0100)
committertcofoegbu <tcnofoegbu@dundee.ac.uk>
Tue, 28 Apr 2015 10:49:30 +0000 (11:49 +0100)
help/html/features/pdbsequencefetcher.html

index 3d0eedb..0a7802e 100644 (file)
                as the choice database from the <strong>'Select Database
                        Retrieval Source'</strong> interface of <a href="seqfetch.html">Sequence
                        Fetcher</a>.
-       </p><br>
+       </p>
+       <br>
 
        <img src="pdbseqfetcher.png" align="left"
                alt="PDB sequence fetcher (introduced in Jalview 2.x.x)">
-               
+
        <br>
        <p>
                <strong>Searching the PDB Database</strong><br> Once the
                field to search by in the PDB database, the default option is <strong>'ALL'</strong>.
                Furthermore, the PDB search interface also provides the following
                functionalities:
-       
        <ul>
-               <li>Retrieving a unique chain for a PDB entry: <br>To retrieve a
-                       specific chain for a PDB entry, append the PDB ID with a colon
-                       followed by the chain code in the search box. eg: 1xyz:A
-                        </li>
+               <li>Retrieving a unique chain for a PDB entry: <br>To
+                       retrieve a specific chain for a PDB entry, append the PDB ID with a
+                       colon followed by the chain code in the search box. eg: 1xyz:A
+               </li>
 
-               <li>Querying multiple PDB Id's in one operation:<br>The PDB search 
-               interface supports querying of multiple PDB Ids in one operation by
-               separating the list of PDB Ids with a semi-colon i.e: 1xyz;2xyz;3xyz </li>
+               <li>Querying multiple PDB Id's in one operation:<br>The PDB
+                       search interface supports querying of multiple PDB Ids in one
+                       operation by separating the list of PDB Ids with a semi-colon i.e:
+                       1xyz;2xyz;3xyz
+               </li>
 
-               <li>Wild card searching: <br>The PDB sequence fetcher also provides
-                       support for wild card querying of the PDB database. <br>Single
+               <li>Wild card searching: <br>The PDB sequence fetcher also
+                       provides support for wild card querying of the PDB database. <br>Single
                        character (matches a single character) - ? The search string te?t
                        would match both test and text. <br>Multiple characters (matches
                        zero or more sequential characters) - * The wildcard search: tes* -
                </li>
        </ul>
        <p>
-               <strong>Customising displayed meta-data</strong> <br>To change the
-               displayed meta-data in the search result, click the <strong>'Configure
-                       Displayed Columns'</strong> tab, then tick off the options wanted. 
+               <strong>Customising displayed meta-data</strong> <br>To change
+               the displayed meta-data in the search result, click the <strong>'Configure
+                       Displayed Columns'</strong> tab, then tick off the options wanted.
+       </p>
+       <p>
+               <strong>Importing Sequence</strong><br> After querying the PDB
+               database, to import the found data into Jalview, select the entries
+               you wish to import then click the ok button at the bottom of the
+               interface.
        </p>
-       <p><strong>Importing Sequence</strong><br>
-       After querying the PDB database, to import the found data into Jalview, select the entries you wish to import then click the ok button at the bottom of the interface.</p>
        <p>
                <em>The PDB Sequence Fetcher interface was introduced in Jalview
                        2.x.x.</em>