Mercurial > repos > iuc > featurecounts

changeset 4:d417fb66494e draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/featurecounts commit 57dfb61ba50ecfbe8f1c624fdbe2d0a3a8deaa04
author iuc
date Thu, 26 Jan 2017 12:33:53 -0500
parents dae123c03a74
children de2c5e5a206c
files featurecounts.xml
diffstat 1 files changed, 39 insertions(+), 13 deletions(-) [+]
line wrap: on
line diff
--- a/featurecounts.xml	Thu Nov 10 03:05:17 2016 -0500
+++ b/featurecounts.xml	Thu Jan 26 12:33:53 2017 -0500
@@ -386,7 +386,9 @@
             <param name="format" value="tabdel_short" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_1_short.tab"/>
+            <output name="output_short" file="output_1_short.tab">
+                <metadata name="column_names" value="Geneid,featureCounts_input1.bam"/>
+            </output>
             <output name="output_summary" file="output_1_summary.tab"/>
         </test>
         <test>
@@ -395,8 +397,12 @@
             <param name="format" value="tabdel_medium" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_1_medium.tab"/>
-            <output name="output_summary" file="output_1_summary.tab"/>
+            <output name="output_medium" file="output_1_medium.tab">
+                <metadata name="column_names" value="Geneid,featureCounts_input1.bam,Length"/>
+            </output>
+            <output name="output_summary" file="output_1_summary.tab">
+                <metadata name="column_names" value="Status,featureCounts_input1.bam"/>
+            </output>
         </test>
         <test>
             <param name="alignment" value="featureCounts_input1.bam" ftype="bam" />
@@ -404,9 +410,15 @@
             <param name="format" value="tabdel_full" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_1_full.tab"/>
-            <output name="output_summary" file="output_1_summary.tab"/>
-            <output name="output_feature_lengths" file="output_feature_lengths.tab"/>
+            <output name="output_full" file="output_1_full.tab">
+                <metadata name="column_names" value="Geneid,Chr,Start,End,Strand,Length,featureCounts_input1.bam"/>
+            </output>
+            <output name="output_summary" file="output_1_summary.tab">
+                <metadata name="column_names" value="Status,featureCounts_input1.bam"/>
+            </output>
+            <output name="output_feature_lengths" file="output_feature_lengths.tab">
+                <metadata name="column_names" value="Feature,Length"/>
+            </output>
         </test>
         
         <test>
@@ -415,8 +427,12 @@
             <param name="format" value="tabdel_short" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_2_short.tab"/>
-            <output name="output_summary" file="output_2_summary.tab"/>
+            <output name="output_short" file="output_2_short.tab">
+                <metadata name="column_names" value="Geneid,featureCounts_input1.bam"/>
+            </output>
+            <output name="output_summary" file="output_2_summary.tab">
+                <metadata name="column_names" value="Status,featureCounts_input1.bam"/>
+            </output>
         </test>
         <test>
             <param name="alignment" value="featureCounts_input1.bam" ftype="bam" />
@@ -424,8 +440,12 @@
             <param name="format" value="tabdel_medium" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_2_medium.tab"/>
-            <output name="output_summary" file="output_2_summary.tab"/>
+            <output name="output_medium" file="output_2_medium.tab">
+                <metadata name="column_names" value="Geneid,featureCounts_input1.bam,Length"/>
+            </output>
+            <output name="output_summary" file="output_2_summary.tab">
+                <metadata name="column_names" value="Status,featureCounts_input1.bam"/>
+            </output>
         </test>
         <test>
             <param name="alignment" value="featureCounts_input1.bam" ftype="bam" />
@@ -433,9 +453,15 @@
             <param name="format" value="tabdel_full" />
             <param name="include_feature_length_file" value="true"/>
             <param name="ref_source" value="history" />
-            <output name="output" file="output_2_full.tab"/>
-            <output name="output_summary" file="output_2_summary.tab"/>
-            <output name="output_feature_lengths" file="output_feature_lengths.tab"/>
+            <output name="output_full" file="output_2_full.tab">
+                <metadata name="column_names" value="Geneid,Chr,Start,End,Strand,Length,featureCounts_input1.bam"/>
+            </output>
+            <output name="output_summary" file="output_2_summary.tab">
+                <metadata name="column_names" value="Status,featureCounts_input1.bam"/>
+            </output>
+            <output name="output_feature_lengths" file="output_feature_lengths.tab">
+                <metadata name="column_names" value="Feature,Length"/>
+            </output>
         </test>
     </tests>