Mercurial > repos > devteam > emboss_5
view emboss_palindrome.xml @ 16:33381b9c268c draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit 431486be049407b094d495ae4a68bf76d27fa522
author | iuc |
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date | Mon, 28 Jan 2019 14:49:47 -0500 |
parents | 27c43fb015f0 |
children | 21a9fb508031 |
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<tool id="EMBOSS: palindrome65" name="palindrome" version="@VERSION@.1"> <description>Looks for inverted repeats in a nucleotide sequence</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <command>palindrome -sequence '$input1' -outfile '$out_file1' -minpallen $minpallen -maxpallen $maxpallen -gaplimit $gaplimit -nummismatches $nummismatches -overlap $overlap -auto</command> <inputs> <param name="input1" type="data" format="fasta" label="Sequences" /> <param name="minpallen" type="integer" value="10" label="Minimum length of palindrome" /> <param name="maxpallen" type="integer" value="100" label="Maximum length of palindrome" /> <param name="gaplimit" type="integer" value="100" label="Maximum gap between repeated regions" /> <param name="nummismatches" type="integer" value="0" label="Number of mismatches allowed" /> <param name="overlap" type="select" label="Report overlapping matches"> <option value="yes">Yes</option> <option value="no">No</option> </param> </inputs> <outputs> <data name="out_file1" format="palindrome" /> </outputs> <tests> <test> <param name="input1" value="2.fasta"/> <param name="minpallen" value="10"/> <param name="maxpallen" value="100"/> <param name="gaplimit" value="100"/> <param name="nummismatches" value="0"/> <param name="overlap" value="yes"/> <output name="out_file1" file="emboss_palindrome_out.palindrome"/> </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/palindrome.html </help> <expand macro="citations" /> </tool>