Mercurial > repos > nedias > orf_tools
view orf_tool.xml @ 6:c2096761a8c3 draft
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author | nedias |
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date | Wed, 12 Oct 2016 00:05:20 -0400 |
parents | 04de7d352a3d |
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<tool id="orf_tool" name="Open Reading Frame Extract Tool" version="0.1.0"> <description>from given fasta RNA sequence</description> <requirements> <requirement type="package" version="1.64">biopython</requirement> <requirement type="python-module">Bio</requirement> </requirements> <stdio> <!-- Anything other than zero is an error --> <exit_code range="1:" /> <exit_code range=":-1" /> </stdio> <version_command interpreter="python">entry.py --version</version_command> <command interpreter="python"> entry.py -i "$input_file" -a "$output_all" -d "$output_dest" -f "$ext" -l "$length" </command> <inputs> <param name="input_file" type="data" label="Input File" format="fasta,fastq,sam,bam" help="FASTA, FASTQ, or SFF format." /> <param name="ext" type="select" value="fasta" label="Input file type"> <option value="fasta">Fasta</option> <option value="fastq">Fastq</option> <option value="sam">Sam</option> <option value="bam">Bam</option> </param> <param name="length" type="integer" value="100" max="100" min="1" label="Length" help="Percentage of the max match." /> </inputs> <outputs> <data name="output_all" format_source="input_file" metadata_source="input_file" label="$input_file.name all matches"> </data> <data name="output_dest" format_source="input_file" metadata_source="input_file" label="$input_file.name designated matches"> </data> </outputs> </tool>