details:
http://www.bx.psu.edu/hg/galaxy/rev/8e81eced2601
changeset: 1483:8e81eced2601
user: Dan Blankenberg <dan(a)bx.psu.edu>
date: Wed Aug 27 12:06:47 2008 -0400
description:
Allow the user to optionally set a reference sequence in GMAJ.
1 file(s) affected in this change:
tools/visualization/GMAJ.xml
diffs (23 lines):
diff -r c77dea3e745a -r 8e81eced2601 tools/visualization/GMAJ.xml
--- a/tools/visualization/GMAJ.xml Tue Aug 26 17:07:44 2008 -0400
+++ b/tools/visualization/GMAJ.xml Wed Aug 27 12:06:47 2008 -0400
@@ -3,6 +3,7 @@
<command interpreter="python">GMAJ.py $out_file1 $maf_input $gmaj_file
$filenames_file</command>
<inputs>
<param name="maf_input" type="data" format="maf"
label="Alignment File" optional="False"/>
+ <param name="refseq" label="Reference Sequence"
value="" type="text" help="Leave empty to allow interactive
selection."/>
<repeat name="annotations" title="Annotations">
<param name="species" type="select" label="Species of
Annotation" multiple="False">
<options>
@@ -70,7 +71,11 @@
title = "Galaxy: $maf_input.name"
alignfile = input.maf
+#if $refseq.value:
+refseq = $refseq
+#else:
refseq = any
+#end if
tabext = .bed .gff .gtf
#if $nowarn.value:
nowarn = $nowarn