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view cpt_fix_sixpack/gff3_fix_sixpack.xml @ 0:b3ed429dd8ab draft
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author | cpt |
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date | Fri, 13 May 2022 18:01:18 +0000 |
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<?xml version="1.0"?> <tool id="edu.tamu.cpt.gff3.fixsixpack" name="GFF3 Add Gene to CDS for Sixpack" version="19.1.0.0"> <description>Properly formats naive ORF caller output for Apollo</description> <macros> <import>macros.xml</import> <import>cpt-macros.xml</import> </macros> <expand macro="requirements"/> <command detect_errors="aggressive"><![CDATA[ $__tool_directory__/gff3_fix_sixpack.py @INPUT_GFF@ > $output]]></command> <inputs> <expand macro="gff3_input" /> </inputs> <outputs> <data format="gff3" name="output"/> </outputs> <tests> <test> <param name="gff3_data" value="miro.gff3" /> <output name="output" file="miro.6pfix.gff3" /> </test> <test> <param name="gff3_data" value="miro.cds.gff3" /> <output name="output" file="miro.cds6pfix.gff3" /> </test> </tests> <help><![CDATA[ **What it does** This tool **strips ALL the mRNA features** in a GFF3 file. It specifically formats the output of the naïve ORF call Sixpack such that it will be compatible with Apollo via JBrowse. ]]></help> <expand macro="citations" /> </tool>