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view emboss_seqmatchall.xml @ 16:dba489bfcd62 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit d5dfff2cd58b094e0e4a6f8dc475de5facd9700b"
author | iuc |
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date | Mon, 02 Dec 2019 21:13:50 -0500 |
parents | 8992d258e42f |
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<tool id="EMBOSS: seqmatchall83" name="seqmatchall" version="@VERSION@.1"> <description>All-against-all comparison of a set of sequences</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <code file="emboss_format_corrector.py" /> <command>seqmatchall -sequence '$input1' -outfile '$out_file1' -wordsize $wordsize -aformat2 $out_format1 -auto</command> <inputs> <param name="input1" type="data" format="fasta" label="Sequences" /> <param name="wordsize" type="integer" value="4" label="Word size" /> <param name="out_format1" type="select" label="Output alignment file format"> <option value="match">Match (m)</option> <option value="simple">Simple (m)</option> <option value="fasta">FASTA (m)</option> <option value="msf">MSF (m)</option> <option value="srs">SRS (m)</option> <option value="pair">Pair (p)</option> <option value="markx0">Markx0 (p)</option> <option value="markx1">Markx1 (p)</option> <option value="markx2">Markx2 (p)</option> <option value="markx3">Markx3 (p)</option> <option value="markx10">Markx10 (p)</option> <option value="srspair">SRS pair (p)</option> <option value="score">Score (p)</option> <option value="seqmatchall">Seqmatchall Output File</option> </param> </inputs> <outputs> <data name="out_file1" format="seqmatchall" /> </outputs> <tests> <test> <param name="input1" value="2.fasta"/> <param name="wordsize" value="2"/> <param name="out_format1" value="fasta"/> <output name="out_file1" file="emboss_seqmatchall_out.fasta"/> </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/seqmatchall.html </help> <expand macro="citations" /> </tool>