Mercurial > repos > devteam > emboss_5
view emboss_equicktandem.xml @ 20:21a9fb508031 draft default tip
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit e0d4688a59e6eeba33adcfe803ac43d0bc2863e7"
author | iuc |
---|---|
date | Tue, 31 Aug 2021 08:05:39 +0000 |
parents | 27c43fb015f0 |
children |
line wrap: on
line source
<tool id="EMBOSS: equicktandem31" name="equicktandem" version="@VERSION@.1"> <description>Finds tandem repeats</description> <expand macro="bio_tools" /> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <code file="emboss_format_corrector.py" /> <command>equicktandem -sequence '$input1' -outfile '$out_file1' -origfile '$ofile2' -maxrepeat $maxrepeat -threshold $threshold -rformat2 $out_format1 -auto</command> <inputs> <param name="input1" type="data" format="fasta" label="Sequence" /> <param name="maxrepeat" type="integer" value="600" label="Maximum repeat size" /> <param name="threshold" type="integer" value="20" label="Threshold score" /> <param name="out_format1" type="select" label="Output report file format"> <option value="table">Table</option> <option value="embl">EMBL</option> <option value="genbank">GENBANK</option> <option value="gff">GFF</option> <option value="pir">PIR</option> <option value="swiss">SwissProt</option> <option value="dbmotif">DbMotif</option> <option value="diffseq">Diffseq</option> <option value="excel">Excel (tab delimited)</option> <option value="feattable">FeatTable</option> <option value="motif">Motif</option> <option value="regions">Regions</option> <option value="seqtable">SeqTable</option> <option value="simple">SRS Simple</option> <option value="srs">SRS</option> <option value="tagseq">TagSeq</option> </param> </inputs> <outputs> <data name="out_file1" format="table" /> <data name="ofile2" format="equicktandem" /> </outputs> <tests> <test> <param name="input1" value="1.fasta"/> <param name="maxrepeat" value="600"/> <param name="threshold" value="20"/> <param name="out_format1" value="table"/> <output name="ofile2" file="emboss_equicktandem_out.equicktandem"/> </test> </tests> <help> .. class:: warningmark The input dataset needs to be sequences. ----- You can view the original documentation here_. .. _here: http://galaxy-iuc.github.io/emboss-5.0-docs/equicktandem.html </help> <expand macro="citations" /> </tool>