Mercurial > repos > iuc > bbtools_callvariants

diff callvariants.xml @ 10:7e041c120b96 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bbtools commit cd59ba2c349865259b92302a1d70e103b8a5e3cb
author iuc
date Tue, 27 Aug 2024 10:14:45 +0000
parents 66b138a2e74c
children
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--- a/callvariants.xml	Sat May 18 19:13:20 2024 +0000
+++ b/callvariants.xml	Tue Aug 27 10:14:45 2024 +0000
@@ -39,7 +39,7 @@
     <inputs>
         <param name="input" type="data" format="bam" label="Bam file" help="Bam files produced by BBMap are recommended"/>
         <expand macro="reference_source_cond"/>
-        <param name="ploidy" type="integer" value="1" min="1" label="Ploidy" help="See help section below"/>
+        <param name="ploidy" type="integer" min="1" value="1" label="Ploidy" help="See help section below"/>
         <param name="output_format" type="select" label="Select output format">
             <option value="vcf" selected="true">vcf</option>
             <option value="gff">gff</option>
@@ -73,7 +73,7 @@
             <param name="output_variant_score_hist" value="yes"/>
             <param name="output_zygosity_hist" value="yes"/>
             <param name="output_quality_hist" value="yes"/>
-            <output name="output" file="cv_output.vcf" ftype="vcf" compare="contains"/>
+            <output name="output" file="cv_output.vcf" ftype="vcf" compare="diff" lines_diff="4"/>
             <output name="output_scorehist" file="cv_scorehist_output.tabular" ftype="tabular" compare="contains"/>
             <output name="output_zygosityhist" file="cv_zygosityhist_output.tabular" ftype="tabular" compare="contains"/>
             <output name="output_qualityhist" file="cv_qualityhist_output.tabular" ftype="tabular" compare="contains"/>
@@ -82,13 +82,13 @@
             <param name="input" value="cv_input.bam" ftype="bam"/>
             <param name="ploidy" value="2"/>
             <param name="output_format" value="gff"/>
-            <output name="output" file="cv_output.gff" ftype="gff" compare="contains"/>
+            <output name="output" file="cv_output.gff" ftype="gff" compare="contains" lines_diff="2"/>
         </test>
         <test expect_num_outputs="1">
             <param name="input" value="cv_input.bam" ftype="bam"/>
             <param name="ploidy" value="2"/>
             <param name="output_format" value="txt"/>
-            <output name="output" file="cv_output.txt" ftype="txt" compare="contains"/>
+            <output name="output" file="cv_output.txt" ftype="txt" compare="contains" lines_diff="2"/>
         </test>
     </tests>
     <help>
@@ -108,4 +108,3 @@
     </help>
     <expand macro="citations"/>
 </tool>
-