Mercurial > repos > artbio > sr_bowtie

changeset 4:3c9d01ebc56d draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sr_bowtie commit a5600be04bcee6b6e5418ab689f05bb5b815fe31
author artbio
date Fri, 21 Sep 2018 09:33:28 -0400
parents 61ab0d4bd187
children 0281bb245635
files sRbowtie.xml
diffstat 1 files changed, 13 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/sRbowtie.xml	Thu Feb 01 13:07:22 2018 -0500
+++ b/sRbowtie.xml	Fri Sep 21 09:33:28 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="bowtieForSmallRNA" name="sR_bowtie" version="2.0.3">
+<tool id="bowtieForSmallRNA" name="sR_bowtie" version="2.1.0">
     <description>for small RNA short reads</description>
     <requirements>
         <requirement type="package" version="1.1.2=py27_0">bowtie</requirement>
@@ -124,11 +124,21 @@
                 </conditional>
             </actions>
         </data>
-        <data format="fasta" label="Matched reads" name="aligned">
+        <data format="fastqsanger" label="Matched reads" name="aligned">
             <filter>additional_fasta == "al" or additional_fasta == "al_and_unal"</filter>
+            <actions>
+                <action type="format">
+                    <option type="from_param" name="input" param_attribute="ext" />
+                </action>
+            </actions>
         </data>
-        <data format="fasta" label="Unmatched reads" name="unaligned">
+        <data format="fastqsanger" label="Unmatched reads" name="unaligned">
             <filter>additional_fasta == "unal" or additional_fasta == "al_and_unal"</filter>
+            <actions>
+                <action type="format">
+                    <option type="from_param" name="input" param_attribute="ext" />
+                </action>
+            </actions>
         </data>
     </outputs>
     <tests>