Mercurial > repos > galaxyp > filter_by_fasta_ids
view filter_by_fasta_ids.xml @ 1:8d15aebf55fd draft
planemo upload commit 88309fbfadbafe82f2d8fb7b96468799f2421e30
author | galaxyp |
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date | Tue, 24 May 2016 13:05:22 -0400 |
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children | 1bd985f14938 |
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<tool id="filter_by_fasta_ids" version="1.0" name="Filter by FASTA IDs"> <description>Extract sequences from a FASTA file based on a list of IDs</description> <command> <![CDATA[ python $__tool_directory__/filter_by_fasta_ids.py $dedup '$identifiers' '$input' '$output' ]]> </command> <inputs> <param format="fasta" name="input" type="data" label="FASTA sequences"/> <param format="txt" name="identifiers" type="data" label="List of IDs to extract sequences for"/> <param name="dedup" type="boolean" truevalue="--dedup" falsevalue="" checked="true" label="Remove duplicate sequences" /> </inputs> <outputs> <data format="fasta" name="output" label="FASTA sequences for ${identifiers.name}"/> </outputs> <tests> <test> <param name="input" ftype="fasta" value="input.fasta" /> <param name="identifiers" ftype="txt" value="ids.txt" /> <output name="output" file="output_dedup.fasta" /> </test> <test> <param name="input" ftype="fasta" value="input.fasta" /> <param name="identifiers" ftype="txt" value="ids.txt" /> <param name="dedup" value="False" /> <output name="output" file="output_not_dedup.fasta" /> </test> </tests> <help> <![CDATA[ **What it does** Extract sequences from a FASTA file based on a list of IDs. ]]> </help> </tool>