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annotate splitFasta.xml @ 0:f6d6b62540f8 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
author rnateam
date Fri, 16 Oct 2015 16:13:08 -0400
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children 87bdbac78136
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f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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1 <tool id="rbc_splitfasta" name="Split Fasta" version="0.2.0">
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2 <description>files into a collection</description>
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3 <requirements>
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4 <requirement type="package" version="1.65">biopython</requirement>
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5 </requirements>
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6 <stdio>
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7 <exit_code range="1:" />
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8 </stdio>
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9 <command interpreter="python">
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10 <![CDATA[
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11 splitFasta.py $inputFile
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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12 ]]></command>
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13 <inputs>
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14 <param name="inputFile" type="data" format="fasta" label="Fasta file to split"/>
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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15 </inputs>
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16 <outputs>
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17 <collection name="splitted_fasta" type="list" label="Sequence collection in FASTA format">
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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18 <discover_datasets pattern="(?P&lt;designation&gt;.*)" directory="splits" ext="fasta" visible="false"/>
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19 </collection>
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20 </outputs>
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21 <tests>
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22 <test>
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23 <param name="inputFile" value="test.fasta" />
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24 <output_collection name="splitted_fasta">
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25 <element name="ID1.fasta" file="ID1_result1.fasta" ftype="fasta" />
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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26 <element name="ID2.fasta" file="ID2_result1.fasta" ftype="fasta" />
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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27 <element name="ID3.fasta" file="ID3_result1.fasta" ftype="fasta" />
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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28 </output_collection>
f6d6b62540f8 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/splitfasta commit 03f3cc2000e6ce876a3cb44c55c3fe878a2e7ce3-dirty
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29 </test>
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30 </tests>
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31 <help><![CDATA[
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32 Takes an input file and writes each consecutive two lines to a separate file, in a dataset collection.
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33 ]]></help>
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34 <citations>
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35 <citation type="bibtex">
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36 @ARTICLE{bgruening_galaxytools,
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37 Author = {Björn Grüning, Cameron Smith, Torsten Houwaart, Nicola Soranzo, Eric Rasche},
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38 keywords = {bioinformatics, ngs, galaxy, cheminformatics, rna},
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39 title = {{Galaxy Tools - A collection of bioinformatics and cheminformatics tools for the Galaxy environment}},
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40 url = {https://github.com/bgruening/galaxytools}
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41 }
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42 </citation>
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43 </citations>
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44 </tool>