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comparison seqtk_mergefa.xml @ 4:ecf1c30da3a2 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seqtk commit ad43df79dca3dc7c3511c6eb2ccf8589d2804eb2
author iuc
date Wed, 17 Oct 2018 05:59:21 -0400
parents bc7d99f46a5d
children a09586d5149a
comparison
equal deleted inserted replaced
3:bc7d99f46a5d 4:ecf1c30da3a2
13 $m 13 $m
14 $r 14 $r
15 $h 15 $h
16 '$in_fa1' 16 '$in_fa1'
17 '$in_fa2' 17 '$in_fa2'
18 > '$default' 18 #echo "| gzip --no-name" if $in_fa1.is_of_type('fasta.gz', 'fastq.gz') else "" # > '$default'
19 ]]></command> 19 ]]></command>
20 <inputs> 20 <inputs>
21 <param name="in_fa1" type="data" format="fasta,fastq" label="Input FASTA/Q file #1"/> 21 <param name="in_fa1" type="data" format="fasta,fastq,fasta.gz,fastq.gz" label="Input FASTA/Q file #1"/>
22 <param name="in_fa2" type="data" format="fasta,fastq" label="Input FASTA/Q file #2"/> 22 <param name="in_fa2" type="data" format="fasta,fastq,fasta.gz,fastq.gz" label="Input FASTA/Q file #2"/>
23 <param argument="-q" type="integer" value="0" label="Quality threshold"/> 23 <param argument="-q" type="integer" value="0" label="Quality threshold"/>
24 <param argument="-i" type="boolean" truevalue="-i" falsevalue="" checked="false" label="Take intersection" /> 24 <param argument="-i" type="boolean" truevalue="-i" falsevalue="" checked="false" label="Take intersection" />
25 <param argument="-m" type="boolean" truevalue="-m" falsevalue="" checked="false" label="Convert to lowercase when one of the input base is N" /> 25 <param argument="-m" type="boolean" truevalue="-m" falsevalue="" checked="false" label="Convert to lowercase when one of the input base is N" />
26 <param argument="-r" type="boolean" truevalue="-r" falsevalue="" checked="false" label="Pick a random allele from het" /> 26 <param argument="-r" type="boolean" truevalue="-r" falsevalue="" checked="false" label="Pick a random allele from het" />
27 <param argument="-h" type="boolean" truevalue="-h" falsevalue="" checked="false" label="Suppress hets in the input" /> 27 <param argument="-h" type="boolean" truevalue="-h" falsevalue="" checked="false" label="Suppress hets in the input" />
38 <test> 38 <test>
39 <param name="in_fa1" value="seqtk_mergefa1.fa"/> 39 <param name="in_fa1" value="seqtk_mergefa1.fa"/>
40 <param name="in_fa2" value="seqtk_mergefa2.fa"/> 40 <param name="in_fa2" value="seqtk_mergefa2.fa"/>
41 <param name="m" value="True" /> 41 <param name="m" value="True" />
42 <output name="default" file="seqtk_mergefa2.out" ftype="fasta"/> 42 <output name="default" file="seqtk_mergefa2.out" ftype="fasta"/>
43 </test>
44 <test>
45 <param name="in_fa1" value="seqtk_mergefa1.fa.gz" ftype="fasta.gz"/>
46 <param name="in_fa2" value="seqtk_mergefa2.fa.gz" ftype="fasta.gz"/>
47 <param name="m" value="True" />
48 <output name="default" file="seqtk_mergefa2.out.gz" ftype="fasta.gz"/>
43 </test> 49 </test>
44 </tests> 50 </tests>
45 <help><![CDATA[ 51 <help><![CDATA[
46 **What it does** 52 **What it does**
47 53