Mercurial > repos > bgruening > trim_galore

changeset 14:949f01671246 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/trim_galore commit 6aa3014c2c6f9ef9ee71b20cfffec461b3a102a5
author bgruening
date Thu, 01 Jun 2017 12:15:10 -0400
parents b6c00b82f623
children 084bbd8ba7b8
files trim_galore.xml
diffstat 1 files changed, 9 insertions(+), 9 deletions(-) [+]
line wrap: on
line diff
--- a/trim_galore.xml	Thu Jun 01 08:59:04 2017 -0400
+++ b/trim_galore.xml	Thu Jun 01 12:15:10 2017 -0400
@@ -338,7 +338,7 @@
             <param name="sPaired" value="single" />
             <param name="settingsType" value="custom" />
             <param name="report" value="true" />
-            <output name="trimmed_reads_single" file="sanger_full_range_results1.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/>
+            <output name="trimmed_reads_single" file="sanger_full_range_results1.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
             <output name="report_file" file="sanger_full_range_report_results1gz.txt" ftype="txt" lines_diff="9" />
         </test>
 
@@ -352,7 +352,7 @@
             <param name="input_singles" value="sanger_full_range_original_sanger.fastq.gz" ftype="fastqsanger.gz" />
             <param name="sPaired" value="single" />
             <param name="trimming_select" value="--illumina" />
-            <output name="trimmed_reads_single" file="sanger_full_range_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/>
+            <output name="trimmed_reads_single" file="sanger_full_range_results2.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
         </test>
 
         <test>
@@ -365,7 +365,7 @@
             <param name="input_singles" value="sanger_full_range_original_sanger.fastq.gz" ftype="fastqsanger.gz" />
             <param name="sPaired" value="single" />
             <param name="adapter" value="AAAGAGC" />
-            <output name="trimmed_reads_single" file="sanger_full_range_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="0"/>
+            <output name="trimmed_reads_single" file="sanger_full_range_results3.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
         </test>
 
         <test>
@@ -384,8 +384,8 @@
             <param name="sPaired" value="paired" />
             <param name="settingsType" value="custom" />
             <param name="report" value="true" />
-            <output name="trimmed_reads_pair1" file="paired_example_pair1_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
-            <output name="trimmed_reads_pair2" file="paired_example_pair2_results2.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
+            <output name="trimmed_reads_pair1" file="paired_example_pair1_results2.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
+            <output name="trimmed_reads_pair2" file="paired_example_pair2_results2.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
             <output name="report_file" file="paired_example_results2gz.txt" ftype="txt" lines_diff="24" />
         </test>
 
@@ -430,13 +430,13 @@
             <output name="report_file" file="paired_collection_example_results3gz.txt" ftype="txt" lines_diff="25" />
 
             <output_collection name="trimmed_reads_paired_collection" type="paired">
-                <element name="forward" file="paired_collection_example_pair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
-                <element name="reverse" file="paired_collection_example_pair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
+                <element name="forward" file="paired_collection_example_pair1_results3.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
+                <element name="reverse" file="paired_collection_example_pair2_results3.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
             </output_collection>
 
             <output_collection name="trimmed_reads_unpaired_collection" type="paired">
-                <element name="forward" file="paired_collection_example_unpair1_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
-                <element name="reverse" file="paired_collection_example_unpair2_results3.fastq.gz" ftype="fastqsanger.gz" compare="sim_size" delta="30"/>
+                <element name="forward" file="paired_collection_example_unpair1_results3.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
+                <element name="reverse" file="paired_collection_example_unpair2_results3.fastq.gz" ftype="fastqsanger.gz" decompress="true" />
             </output_collection>
         </test>
     </tests>