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changeset 3:bb7e0ccc0029 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/art commit 4f3b019991c8a322870d1130a7c0a34d5c09758f
author iuc
date Tue, 28 Jun 2016 11:32:19 -0400
parents 7a12314c5b64
children 531ff1d417b6
files art_454.xml art_illumina.xml art_solid.xml macros.xml
diffstat 4 files changed, 20 insertions(+), 20 deletions(-) [+]
line wrap: on
line diff
--- a/art_454.xml	Thu Nov 19 12:32:17 2015 -0500
+++ b/art_454.xml	Tue Jun 28 11:32:19 2016 -0400
@@ -110,7 +110,7 @@
           <param name="input_seq_file" value="input.fa" />
           <param name="fold_coverage" value="20" />
           <param name="choice" value="single_end" />
-          <output name="output_fq1_single" file="art.454.01.fq" />
+          <output name="output_fq1_single" file="art.454.01.fq" compare="sim_size" delta="5000" />
       </test>
       <test>
           <param name="rndSeed" value="42" />
@@ -118,8 +118,8 @@
           <param name="fold_coverage" value="20" />
           <param name="choice" value="single_end" />
           <param name="sam" value="True" />
-          <output name="output_fq1_single" file="art.454.01.fq" />
-          <output name="output_sam" file="art.454.01.sam" lines_diff="2"/>
+          <output name="output_fq1_single" file="art.454.01.fq" compare="sim_size" delta="5000" />
+          <output name="output_sam" file="art.454.01.sam" compare="sim_size" delta="5000"/>
       </test>
       <!-- Paired End tests -->
       <test>
@@ -130,9 +130,9 @@
           <param name="fragment_size" value="105" />
           <param name="fragment_sd" value="5" />
           <param name="sam" value="True" />
-          <output name="output_fq1_paired" file="art.454.021.fq" />
-          <output name="output_fq2_paired" file="art.454.022.fq" />
-          <output name="output_sam" file="art.454.02.sam" lines_diff="2"/>
+          <output name="output_fq1_paired" file="art.454.021.fq" compare="sim_size" delta="5000" />
+          <output name="output_fq2_paired" file="art.454.022.fq" compare="sim_size" delta="5000" />
+          <output name="output_sam" file="art.454.02.sam" compare="sim_size" delta="5000"/>
       </test>
   </tests>
   <help><![CDATA[
--- a/art_illumina.xml	Thu Nov 19 12:32:17 2015 -0500
+++ b/art_illumina.xml	Tue Jun 28 11:32:19 2016 -0400
@@ -116,9 +116,9 @@
           <param name="aln" value="True" />
           <param name="sam" value="True" />
 
-          <output name="output_fq1_single" file="art.illumina.01.fq" />
-          <output name="output_aln1_single" file="art.illumina.01.aln" lines_diff="2"/>
-          <output name="output_sam" file="art.illumina.01.sam" lines_diff="2"/>
+          <output name="output_fq1_single" file="art.illumina.01.fq" compare="sim_size" delta="5000" />
+          <output name="output_aln1_single" file="art.illumina.01.aln" compare="sim_size" delta="5000"/>
+          <output name="output_sam" file="art.illumina.01.sam" compare="sim_size" delta="5000"/>
       </test>
       <test>
           <param name="rndSeed" value="42" />
@@ -131,11 +131,11 @@
           <param name="aln" value="True" />
           <param name="sam" value="True" />
 
-          <output name="output_fq1_paired" file="art.illumina.021.fq" />
-          <output name="output_fq2_paired" file="art.illumina.022.fq" />
-          <output name="output_aln1_paired" file="art.illumina.021.aln" lines_diff="2"/>
-          <output name="output_aln2_paired" file="art.illumina.022.aln" lines_diff="2"/>
-          <output name="output_sam" file="art.illumina.02.sam" lines_diff="2"/>
+          <output name="output_fq1_paired" file="art.illumina.021.fq" compare="sim_size" delta="5000" />
+          <output name="output_fq2_paired" file="art.illumina.022.fq" compare="sim_size" delta="5000" />
+          <output name="output_aln1_paired" file="art.illumina.021.aln" compare="sim_size" delta="5000"/>
+          <output name="output_aln2_paired" file="art.illumina.022.aln" compare="sim_size" delta="5000"/>
+          <output name="output_sam" file="art.illumina.02.sam" compare="sim_size" delta="5000"/>
       </test>
   </tests>
   <help><![CDATA[
--- a/art_solid.xml	Thu Nov 19 12:32:17 2015 -0500
+++ b/art_solid.xml	Tue Jun 28 11:32:19 2016 -0400
@@ -123,7 +123,7 @@
           <param name="choice" value="single_end" />
           <param name="sam" value="False" />
 
-          <output name="output_fq1_single" file="art.solid.01.fq" />
+          <output name="output_fq1_single" file="art.solid.01.fq" compare="sim_size" delta="5000" />
       </test>
       <test>
           <param name="rndSeed" value="42" />
@@ -136,9 +136,9 @@
           <param name="fragment_sd" value="10" />
           <param name="sam" value="True" />
 
-          <output name="output_fq1_paired" file="art.solid.02_F3.fq" />
-          <output name="output_fq2_paired" file="art.solid.02_F5.fq" />
-          <output name="output_sam" file="art.solid.02.sam" lines_diff="2"/>
+          <output name="output_fq1_paired" file="art.solid.02_F3.fq" compare="sim_size" delta="5000" />
+          <output name="output_fq2_paired" file="art.solid.02_F5.fq" compare="sim_size" delta="5000" />
+          <output name="output_sam" file="art.solid.02.sam" compare="sim_size" delta="5000"/>
       </test>
   </tests>
   <help><![CDATA[
--- a/macros.xml	Thu Nov 19 12:32:17 2015 -0500
+++ b/macros.xml	Tue Jun 28 11:32:19 2016 -0400
@@ -1,9 +1,9 @@
 <macros>
-    <token name="@WRAPPER_VERSION@">2014.11.03.0</token>
+    <token name="@WRAPPER_VERSION@">3.19.15</token>
 
     <xml name="requirements">
       <requirements>
-        <requirement type="package" version="2014_11_03">art</requirement>
+        <requirement type="package" version="3.19.15">art</requirement>
         <yield/>
       </requirements>
     </xml>