From: jprocter
Date: Fri, 6 Feb 2009 14:51:48 +0000 (+0000)
Subject: show unconserved gui and annotation file attribute
X-Git-Tag: Release_2_5~351
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;ds=sidebyside;h=9a0f8bd63ac90b6afad56e321a7556be3cfabd49;p=jalview.git
show unconserved gui and annotation file attribute
---
diff --git a/help/html/features/annotationsFormat.html b/help/html/features/annotationsFormat.html
index ef08774..cc73162 100755
--- a/help/html/features/annotationsFormat.html
+++ b/help/html/features/annotationsFormat.html
@@ -100,7 +100,8 @@ GRAPHLINE graph_name value label colo
textColThreshold=0
idColour=ff3322
hide=false
- hidecols=false
+ hidecols=false
+ showunconserved=false
- if the idColour property
is given without specifying a colour scheme with the colour
property, then the idColour will also be used to colour the sequence.
diff --git a/help/html/features/clarguments.html b/help/html/features/clarguments.html
index 28e605a..cf444a1 100644
--- a/help/html/features/clarguments.html
+++ b/help/html/features/clarguments.html
@@ -48,14 +48,14 @@
Run Jalview without User Interface
-
+
-tree FILE
diff --git a/help/html/menus/alwformat.html b/help/html/menus/alwformat.html
index 24bc5a1..97cb88e 100644
--- a/help/html/menus/alwformat.html
+++ b/help/html/menus/alwformat.html
@@ -50,6 +50,9 @@
spaces.
You may set the default gap character in preferences.
+ - Show Unconserved
+ When this is selected, all consensus sequence symbols will be rendered as a '.', highlighting mutations in highly conserved alignments.
+
- Centre Column Labels
When this is selected, the text labels within each annotation row will be centred on the column that they are associated with.
diff --git a/help/html/menus/popupMenu.html b/help/html/menus/popupMenu.html
index 9cf5358..abc7de7 100755
--- a/help/html/menus/popupMenu.html
+++ b/help/html/menus/popupMenu.html
@@ -66,7 +66,10 @@ not be accessible when in 'Cursor Mode' (toggled with the F2 key).
Selecting this will display a "Colour Chooser"
window. Select a colour than press OK to set the border colour of
a group.
-
+ - Show Unconserved
+ When this is selected, all symbols in the group matching the consensus sequence at that column will be rendered as a '.', highlighting mutations in the group area.
+
+
|