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comparison tepid-discover.xml @ 4:df634cd04be7 draft

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planemo upload for repository https://github.com/ListerLab/TEPID commit 48d24b91382cfbe7749d131657efbad47a28f569-dirty
author mvdbeek
date Fri, 06 Jan 2017 08:23:13 -0500
parents 370c325b5941
children afe2a09f802b
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3:370c325b5941 4:df634cd04be7
49 <param name="deletions" argument="--deletions" type="boolean" truevalue="--deletions" falsevalue="" label="Find deletions only?"/> 49 <param name="deletions" argument="--deletions" type="boolean" truevalue="--deletions" falsevalue="" label="Find deletions only?"/>
50 <param name="insertions" argument="--insertions" type="boolean" truevalue="--insertions" falsevalue="" label="Find insertions only?"/> 50 <param name="insertions" argument="--insertions" type="boolean" truevalue="--insertions" falsevalue="" label="Find insertions only?"/>
51 <param name="strict" argument="--strict" type="boolean" truevalue="--strict" falsevalue="" label="Report high-confidence variants only?"/> 51 <param name="strict" argument="--strict" type="boolean" truevalue="--strict" falsevalue="" label="Report high-confidence variants only?"/>
52 </inputs> 52 </inputs>
53 <outputs> 53 <outputs>
54 <data name="insertions_out" format="bed" label="tepid_discover insertions on ${on_string}"/> 54 <data name="insertions_out" format="bed" label="tepid_discover insertions on ${on_string}">
55 <data name="deletions_out" format="bed" label="tepid_discover deletions on ${on_string}"/> 55 <filter>not insertions</filter>
56 <data name="insertion_reads_out" format="txt" label="tepid_discover reads supporting insertions for ${on_string}"/> 56 </data>
57 <data name="deletion_reads_out" format="txt" label="tepid_discover reads supporting deletions for ${on_string}"/> 57 <data name="insertion_reads_out" format="txt" label="tepid_discover reads supporting insertions for ${on_string}">
58 <filter>not insertions"</filter>
59 </data>
60 <data name="deletions_out" format="bed" label="tepid_discover deletions on ${on_string}">
61 <filter>not deletions</filter>
62 </data>
63 <data name="deletion_reads_out" format="txt" label="tepid_discover reads supporting deletions for ${on_string}">
64 <filter>not deletions</filter>
65 </data>
58 </outputs> 66 </outputs>
59 <tests> 67 <tests>
60 <test> 68 <test>
61 <param name="bowtie2_bam" value="conc.bam"/> 69 <param name="bowtie2_bam" value="conc.bam"/>
62 <param name="split_bam" value="split.bam"/> 70 <param name="split_bam" value="split.bam"/>