Mercurial > repos > drosofff > msp_blastparser_and_hits

comparison BlastParser_and_hits.xml @ 3:8f5d48294f70 draft

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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/msp_blastparser_and_hits commit 3d9ddd0f6f3c3b97a3bebf52646731ad6771e178
author drosofff
date Mon, 19 Oct 2015 12:13:12 -0400
parents bb0d4cd765c5
children 60b6bd959929
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2:bb0d4cd765c5 3:8f5d48294f70
1 <tool id="BlastParser_and_hits" name="Parse blast output and compile hits" version="2.3.1"> 1 <tool id="BlastParser_and_hits" name="Parse blast output and compile hits" version="2.3.2">
2 <description>for virus discovery</description> 2 <description>for virus discovery</description>
3 <requirements></requirements> 3 <requirements></requirements>
4 <command interpreter="python"> 4 <command interpreter="python">
5 BlastParser_and_hits.py 5 BlastParser_and_hits.py
6 --sequences $sequences 6 --sequences $sequences
21 </command> 21 </command>
22 <inputs> 22 <inputs>
23 <param name="sequences" type="data" format="fasta" label="fasta sequences that have been blasted" /> 23 <param name="sequences" type="data" format="fasta" label="fasta sequences that have been blasted" />
24 <param name="blast" type="data" format="tabular" label="The blast output you wish to parse" /> 24 <param name="blast" type="data" format="tabular" label="The blast output you wish to parse" />
25 <param name="flanking" type="text" size="5" value= "5" label="Number of flanking nucleotides to add to hits for CAP3 assembly"/> 25 <param name="flanking" type="text" size="5" value= "5" label="Number of flanking nucleotides to add to hits for CAP3 assembly"/>
26 <param name="mode" type="select" label="Verbose or short reporting mode" help="display or not the oases contigs"> 26 <param name="mode" type="select" label="Extensive or compact reporting mode" help="display (extensive) or not (compact) the oases contigs">
27 <option value="verbose" default="true">verbose</option> 27 <option value="verbose" default="true">extensive</option>
28 <option value="short">do not report oases contigs</option> 28 <option value="short">compact</option>
29 </param> 29 </param>
30 <conditional name="additional_filters"> 30 <conditional name="additional_filters">
31 <param name="use_filters" type="select" label="Use Additional Filters?"> 31 <param name="use_filters" type="select" label="Use Additional Filters?">
32 <option value="no">No</option> 32 <option value="no">No</option>
33 <option value="yes">Yes</option> 33 <option value="yes">Yes</option>