-<html>
-<head>
-<title>Multiple Alignment Views</title>
-</head>
-<body>
-<p><strong>Multiple Alignment Views<strong></p>
-<p>Multiple alignment views allows the same alignment to be viewed
-independently in many different ways simultaneously. Each view is an
-independent visualization of the same alignment, so each may have a
-different ordering, colouring, row and column hiding and seuqence
-feature and annotation display setting, but alignment, feature and
-annotation edits are common to all, since this affects the underlying
-data.</p>
-<p>Create a new view using the <strong>"View→New
-View"</strong> menu item, or by pressing <strong>Control+T</strong>. A newly
-created view will be identical to the view it was created from, but any
-changes to the way the alignment is coloured or displayed will only
-affect the new view.</p>
-<p>A particular view may focus on some specific aspect of an
-alignment - for example, hiding all but the region of an alignment
-containing a particular domain. <strong>Right-clicking</strong> a view's
-tab opens the View Name dialog box, allowing it to be renamed to
-something more meaningful.</p>
-<p><strong>Viewing Multiple Views Simultaneously</strong></p>
-<p>Multiple views of an alignment are, by default, gathered together
-as tabs within a single alignment window. They can be viewed
-simultanously by pressing <strong>X</strong> (or via <strong>"View→Expand"</strong>)
-to expand each view into its own linked alignment window. Expanded views
-are gathered back into into a single tabbed alignment window by pressing
-<strong>G</strong>, or by selecting <strong>"View→Gather"</strong>).
-</p>
-<p><strong>Hidden Sequence Representatives and Multiple
-Views</strong></p>
-<p>There are some unexpected interactions between hidden sequence
-representatives and their display in multiple views. See the
-corresponding entry in the <a href="hiddenRegions.html">documentation
-for hidden regions</a>.</p>
-<p><strong>Structure and Analysis Viewers and Multiple
-Views</strong></p>
-<p>A tree calculated on a particular view, or loaded onto it, is by
-default associated with just that view. However, the <a
- href="../calculations/treeviewer.html">Tree Viewer's</a> <strong>"View→Associate
-leaves"</strong> submenu allows a tree's view association to be changed to
-to any or all other views.</p>
-<p>The results of a <a href="../calculations/pca.html">PCA
-calculation</a> on a particular view may also be associated with other
-views, using the PCA Viewer's <strong>"View→Associate
-Nodes"</strong> submenu.</p>
-<p>Currently, a <a href="pdbviewer.html">PDB Structure Viewer</a>
-opened on a structure associated with a sequence in a particular view
-will only be associated with the seuqence as displayed in that view. <br>
-<em>This will be resolved in a future release</em><!-- also, by default, only be associated
-with the sequence as it is displayed in that view. The
-"View→Associate View" submenu allows the association of
-alternative views.</p> -->
-<p><em>Multiple Views were introduced in Jalview 2.2</em></p>
-</body>
-</html>
+<html>\r
+<head>\r
+<title>Multiple Alignment Views</title>\r
+</head>\r
+<body>\r
+<p><strong>Multiple Alignment Views</strong></p>\r
+<p>Multiple alignment views allows the same alignment to be viewed\r
+independently in many different ways simultaneously. Each view is an\r
+independent visualization of the same alignment, so each may have a\r
+different ordering, colouring, row and column hiding and seuqence\r
+feature and annotation display setting, but alignment, feature and\r
+annotation edits are common to all, since this affects the underlying\r
+data.</p>\r
+<p>Create a new view using the <strong>"View→New\r
+View"</strong> menu item, or by pressing <strong>Control+T</strong>. A newly\r
+created view will be identical to the view it was created from, but any\r
+changes to the way the alignment is coloured or displayed will only\r
+affect the new view.</p>\r
+<p>A particular view may focus on some specific aspect of an\r
+alignment - for example, hiding all but the region of an alignment\r
+containing a particular domain. <strong>Right-clicking</strong> a view's\r
+tab opens the View Name dialog box, allowing it to be renamed to\r
+something more meaningful.</p>\r
+<p><strong>Viewing Multiple Views Simultaneously</strong></p>\r
+<p>Multiple views of an alignment are, by default, gathered together\r
+as tabs within a single alignment window. They can be viewed\r
+simultanously by pressing <strong>X</strong> (or via <strong>"View→Expand"</strong>)\r
+to expand each view into its own linked alignment window. Expanded views\r
+are gathered back into into a single tabbed alignment window by pressing\r
+<strong>G</strong>, or by selecting <strong>"View→Gather"</strong>).\r
+</p>\r
+<p><strong>Hidden Sequence Representatives and Multiple\r
+Views</strong></p>\r
+<p>There are some unexpected interactions between hidden sequence\r
+representatives and their display in multiple views. See the\r
+corresponding entry in the <a href="hiddenRegions.html">documentation\r
+for hidden regions</a>.</p>\r
+<p><strong>Structure and Analysis Viewers and Multiple\r
+Views</strong></p>\r
+<p>A tree calculated on a particular view, or loaded onto it, is by\r
+default associated with just that view. However, the <a\r
+ href="../calculations/treeviewer.html">Tree Viewer's</a> <strong>"View→Associate\r
+leaves"</strong> submenu allows a tree's view association to be changed to\r
+to any or all other views.</p>\r
+<p>The results of a <a href="../calculations/pca.html">PCA\r
+calculation</a> on a particular view may also be associated with other\r
+views, using the PCA Viewer's <strong>"View→Associate\r
+Nodes"</strong> submenu.</p>\r
+<p>Currently, a <a href="pdbviewer.html">PDB Structure Viewer</a>\r
+opened on a structure associated with a sequence in a particular view\r
+will only be associated with the seuqence as displayed in that view. <br>\r
+<em>This will be resolved in a future release</em><!-- also, by default, only be associated\r
+with the sequence as it is displayed in that view. The\r
+"View→Associate View" submenu allows the association of\r
+alternative views.</p> -->\r
+<p><em>Multiple Views were introduced in Jalview 2.2</em></p>\r
+</body>\r
+</html>\r
git://source.jalview.org / jalview.git / commitdiff