Mercurial > repos > devteam > emboss_5
view emboss_splitter.xml @ 13:d5c3794bd246 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/emboss_5 commit ca9a6baaede679d619675e48d665748a91950115
author | iuc |
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date | Mon, 23 Apr 2018 13:04:47 -0400 |
parents | 0e2484b6829b |
children | 27c43fb015f0 |
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<tool id="EMBOSS: splitter92" name="splitter" version="5.0.0.1"> <description>Split a sequence into (overlapping) smaller sequences</description> <macros> <import>macros.xml</import> </macros> <expand macro="requirements" /> <code file="emboss_format_corrector.py" /> <command>splitter -sequence '$input1' -outseq '$out_file1' -size $size -overlap $overlap -addoverlap $addoverlap -osformat2 $out_format1 -auto</command> <inputs> <param name="input1" type="data" format="fasta" label="Sequences" /> <param name="size" type="integer" value="10000" label="Size to split at" /> <param name="overlap" type="integer" value="0" label="Overlap between split sequences" /> <param name="addoverlap" type="select" label="Add overlap to size"> <option value="no">No</option> <option value="yes">Yes</option> </param> <param name="out_format1" type="select" label="Output sequence file format"> <option value="fasta">FASTA (m)</option> <option value="acedb">ACeDB (m)</option> <option value="asn1">ASN.1 (m)</option> <option value="clustal">Clustal (m)</option> <option value="codata">CODATA (m)</option> <option value="embl">EMBL (m)</option> <option value="fitch">Fitch (m)</option> <option value="gcg">Wisconsin Package GCG 9.x and 10.x (s)</option> <option value="genbank">GENBANK (m)</option> <option value="gff">GFF (m)</option> <option value="hennig86">Hennig86 (m)</option> <option value="ig">Intelligenetics (m)</option> <option value="jackknifer">Jackknifer (m)</option> <option value="jackknifernon">Jackknifernon (m)</option> <option value="mega">Mega (m)</option> <option value="meganon">Meganon (m)</option> <option value="msf">Wisconsin Package GCG's MSF (m)</option> <option value="pir">NBRF (PIR) (m)</option> <option value="ncbi">NCBI style FASTA (m)</option> <option value="nexus">Nexus/PAUP (m)</option> <option value="nexusnon">Nexusnon/PAUPnon (m)</option> <option value="phylip">PHYLIP interleaved (m)</option> <option value="phylipnon">PHYLIP non-interleaved (m)</option> <option value="selex">SELEX (m)</option> <option value="staden">Staden (s)</option> <option value="strider">DNA strider (m)</option> <option value="swiss">SwisProt entry (m)</option> <option value="text">Plain sequence (s)</option> <option value="treecon">Treecon (m)</option> </param> </inputs> <outputs> <data name="out_file1" format="fasta" /> </outputs> <tests> <test> <param name="input1" value="2.fasta"/> <param name="size" value="10000"/> <param name="overlap" value="0"/> <param name="addoverlap" value="no"/> <param name="out_format1" value="fasta"/> <output name="out_file1" file="emboss_splitter_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/splitter.html </help> <expand macro="citations" /> </tool>