opensource/galaxy
3
0
Fork 0
mirror of https://github.com/galaxyproject/galaxy.git synced 2026-09-24 16:30:27 +08:00
Code Issues Packages Projects Releases Wiki Activity

Fix linkToGProfile test

Browse Source
This commit is contained in:
mvdbeek
2018-09-05 14:22:01 +02:00
parent c1dffec4ec
commit 05f18d029b
2 changed files with 6 additions and 6 deletions
Download Patch File Download Diff File Expand all files Collapse all files
tools/phenotype_association/linkToGProfile.pl
+1 -1
View File
@@ -77,7 +77,7 @@ if (@pos) { $params{"region_query"} = 1; }
open(FH, ">", $out) or die "Couldn't open $out, $!\n";
print FH "<html><head><title>g:Profiler link</title></head><body>\n";
print FH '<form method="POST" action="http://biit.cs.ut.ee/gprofiler/index.cgi">';
print FH '<form method="POST" action="http://biit.cs.ut.ee/gprofiler/index.cgi">', "\n";
foreach my $k (keys %params) {
print FH "<input type='hidden' name='$k' value='$params{$k}'>\n";
}
tools/phenotype_association/linkToGProfile.xml
+5 -5
View File
@@ -1,8 +1,8 @@
<tool id="hgv_linkToGProfile" name="g:Profiler" version="1.0.0">
<description>tools for functional profiling of gene lists</description>
<command interpreter="perl">
linkToGProfile.pl $input $type $out_file1 -region=$region -gene=$genes -chr=${input.metadata.chromCol} -start=${input.metadata.startCol} -end=${input.metadata.endCol}
<command detect_errors="exit_code">
perl '$__tool_directory__/linkToGProfile.pl' '$input' $type '$out_file1' -region='$region' -gene=$genes -chr=${input.metadata.chromCol} -start=${input.metadata.startCol} -end=${input.metadata.endCol}
</command>
<inputs>
@@ -34,10 +34,10 @@
<tests>
<test>
<param name="input" ftype="tabular" value="linkToGProfile.tabular" />
<param name="input" ftype="bed" value="linkToGProfile.tabular" />
<param name="genes" value="2" />
<param name="type" value="ENTREZGENE_ACC" />
<output name="out_file1" file="linkToGProfile_1.out" />
<param name="type" value="Entrez Gene Acc" />
<output name="out_file1" file="linkToGProfile_1.out" sort="true"/>
</test>
</tests>