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comparison bamToFastq.xml @ 26:c0fbce5dc84a draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/bedtools commit 19967671ddd4e750f53d71274e5c12325a402811
author iuc
date Mon, 17 Oct 2016 10:13:20 -0400
parents 5efc48568d8d
children cb98f29aa1dc
comparison
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25:6c6963cf9136 26:c0fbce5dc84a
14 -fq2 '$output2' 14 -fq2 '$output2'
15 #end if 15 #end if
16 </command> 16 </command>
17 <inputs> 17 <inputs>
18 <param format="bam" name="input" type="data" label="Convert the following BAM file to FASTQ"/> 18 <param format="bam" name="input" type="data" label="Convert the following BAM file to FASTQ"/>
19 <param name="tags" type="boolean" truevalue="-tags" falsevalue="" selected="False" label="Create FASTQ based on the mate info in the BAM R2 and Q2 tags."/> 19 <param name="tags" type="boolean" truevalue="-tags" falsevalue="" checked="False" label="Create FASTQ based on the mate info in the BAM R2 and Q2 tags."/>
20 <param name="fq2" type="boolean" truevalue="-fq2" falsevalue="" selected="False" label="FASTQ for second end. 20 <param name="fq2" type="boolean" truevalue="-fq2" falsevalue="" checked="False" label="FASTQ for second end.
21 Used if BAM contains paired-end data. BAM should be sorted by query name if creating paired FASTQ with this option."/> 21 Used if BAM contains paired-end data. BAM should be sorted by query name if creating paired FASTQ with this option."/>
22 </inputs> 22 </inputs>
23 <outputs> 23 <outputs>
24 <data format="fastq" name="output" metadata_source="input" label="${input.name} (as FASTQ)"/> 24 <data format="fastq" name="output" metadata_source="input" label="${input.name} (as FASTQ)"/>
25 <data format="fastq2" name="output2" metadata_source="input" label="${input.name} (as FASTQ)"> 25 <data format="fastq2" name="output2" metadata_source="input" label="${input.name} (as FASTQ)">