Mercurial > repos > devteam > emboss_5
view emboss_cpgreport.xml @ 16:33381b9c268c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 431486be049407b094d495ae4a68bf76d27fa522
author | iuc |
---|---|
date | Mon, 28 Jan 2019 14:49:47 -0500 |
parents | 27c43fb015f0 |
children | 21a9fb508031 |
line wrap: on
line source
<tool id="EMBOSS: cpgreport16" name="cpgreport" version="@VERSION@.1"> <description>Reports all CpG rich regions</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <code file="emboss_format_corrector.py" /> <command><![CDATA[ cpgreport -sequence '$input1' -outfile '$out_file1' -outfeat '$out_file2' -offormat3 $out_format2 -score $score -auto ]]> </command> <inputs> <param name="input1" type="data" format="fasta" label="On query" /> <param name="score" type="integer" min="1" max="200" value="17" label="Score for each CG sequence found" /> <param name="out_format2" type="select" label="Output feature file format"> <option value="gff">GFF</option> <option value="embl">EMBL</option> <option value="swiss">SwissProt</option> </param> </inputs> <outputs> <data name="out_file1" format="cpgreport" /> <data name="out_file2" format="gff" /> </outputs> <tests> <test> <param name="input1" value="2.fasta"/> <param name="score" value="17"/> <param name="out_format2" value="embl"/> <output name="out_file1" file="emboss_cpgreport_out2.cpgreport"/> </test> <!-- <test> <param name="input1" value="2.fasta"/> <param name="score" value="17"/> <param name="out_format2" value="gff"/> <output name="out_file1" file="emboss_cpgreport_out1.gff"/> </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/cpgreport.html </help> <expand macro="citations" /> </tool>