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comparison temp.xml @ 13:72156de89c7a draft

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planemo upload for repository https://github.com/portiahollyoak/Tools commit 65ddf081d2f1a76bc4d6d91f01ab72667b9e1549
author portiahollyoak
date Mon, 23 May 2016 05:42:49 -0400
parents ca36262102d8
children bc39ae53be03
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12:ca36262102d8 13:72156de89c7a
33 <param format="txt" name="median_insertsize" type="data" label="Median Insert Length"/> 33 <param format="txt" name="median_insertsize" type="data" label="Median Insert Length"/>
34 <param name="mismatches" min="0" max="5" type="integer" value="3" label="Allow this many mismatches when aligning to TEs"/> 34 <param name="mismatches" min="0" max="5" type="integer" value="3" label="Allow this many mismatches when aligning to TEs"/>
35 <param name="minimum_score_difference" type="integer" min="10" max="37" value="30" label="Minimum score difference between optimal and suboptimal alignment to consider read uniquely mapped"></param> 35 <param name="minimum_score_difference" type="integer" min="10" max="37" value="30" label="Minimum score difference between optimal and suboptimal alignment to consider read uniquely mapped"></param>
36 </inputs> 36 </inputs>
37 <outputs> 37 <outputs>
38 <data format="bed" type="data" name="insertion_summary" label="Insertion summary file" /> 38 <data format="bed" type="data" name="insertion_summary" label="${alignment.element_identifier} Insertion summary file" />
39 <data format="bed" type="data" name="absence_summary" label="Absence summary file" /> 39 <data format="bed" type="data" name="absence_summary" label="${alignment.element_identifier} Absence summary file" />
40 <data format="zip" type="data" name="archive" label="Compressed output files" /> 40 <data format="zip" type="data" name="archive" label="${alignment.element_identifier} Compressed output files" />
41 </outputs> 41 </outputs>
42 <tests> 42 <tests>
43 <test> 43 <test>
44 <param name="alignment" value="chr2l_bwa_mem.bam" ftype="bam"/> 44 <param name="alignment" value="chr2l_bwa_mem.bam" ftype="bam"/>
45 <param name="reference2bit" value="dm6_chr2l.twobit" ftype="twobit"/> 45 <param name="reference2bit" value="dm6_chr2l.twobit" ftype="twobit"/>