Mercurial > repos > iuc > slamdunk

diff slamdunk.xml @ 5:8b62f89924a7 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/slamdunk commit 64bbe6ec9a3f3cd6241fa4cf0e0548e0e67629a0"
author iuc
date Sat, 18 Jan 2020 12:59:37 -0500
parents 24657d5edede
children 141f65f7c7c8
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--- a/slamdunk.xml	Fri May 24 13:30:30 2019 -0400
+++ b/slamdunk.xml	Sat Jan 18 12:59:37 2020 -0500
@@ -125,7 +125,7 @@
             </output_collection>
             <output_collection name="outputTsv">
                 <element name="reads_slamdunk_mapped_filtered" ftype="tabular" file="reads_slamdunk_mapped_filtered_tcount.tsv"
-                lines_diff="2"  />
+                compare="re_match"  />
             </output_collection>
             <output_collection name="outputVcf">
                 <element name="reads_slamdunk_mapped_filtered" ftype="vcf" file="reads1_snp.vcf" compare="sim_size" />
@@ -134,6 +134,7 @@
         <test>
             <!--Ensure built-in fasta works -->
             <param name="reference_source_selector" value="cached" />
+            <param name="ref_file" value="hg38full" />
             <param name="Reference" value="actb.bed" />
             <param name="reads" ftype="fastqsanger" dbkey="hg38" value="reads.fq" />
             <param name="readLength" value="100" />
@@ -148,7 +149,7 @@
             </output_collection>
             <output_collection name="outputTsv">
                 <element name="reads_slamdunk_mapped_filtered" ftype="tabular" file="reads_slamdunk_mapped_filtered_tcount.tsv"
-                lines_diff="2"  />
+                compare="re_match"  />
             </output_collection>
             <output_collection name="outputVcf">
                 <element name="reads_slamdunk_mapped_filtered" ftype="vcf" file="reads1_snp.vcf" compare="sim_size" />