Mercurial > repos > rnateam > splitfasta
comparison splitFasta.xml @ 0:f6d6b62540f8 draft
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 |
| parents | |
| children | 87bdbac78136 |
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| -1:000000000000 | 0:f6d6b62540f8 |
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| 1 <tool id="rbc_splitfasta" name="Split Fasta" version="0.2.0"> | |
| 2 <description>files into a collection</description> | |
| 3 <requirements> | |
| 4 <requirement type="package" version="1.65">biopython</requirement> | |
| 5 </requirements> | |
| 6 <stdio> | |
| 7 <exit_code range="1:" /> | |
| 8 </stdio> | |
| 9 <command interpreter="python"> | |
| 10 <![CDATA[ | |
| 11 splitFasta.py $inputFile | |
| 12 ]]></command> | |
| 13 <inputs> | |
| 14 <param name="inputFile" type="data" format="fasta" label="Fasta file to split"/> | |
| 15 </inputs> | |
| 16 <outputs> | |
| 17 <collection name="splitted_fasta" type="list" label="Sequence collection in FASTA format"> | |
| 18 <discover_datasets pattern="(?P<designation>.*)" directory="splits" ext="fasta" visible="false"/> | |
| 19 </collection> | |
| 20 </outputs> | |
| 21 <tests> | |
| 22 <test> | |
| 23 <param name="inputFile" value="test.fasta" /> | |
| 24 <output_collection name="splitted_fasta"> | |
| 25 <element name="ID1.fasta" file="ID1_result1.fasta" ftype="fasta" /> | |
| 26 <element name="ID2.fasta" file="ID2_result1.fasta" ftype="fasta" /> | |
| 27 <element name="ID3.fasta" file="ID3_result1.fasta" ftype="fasta" /> | |
| 28 </output_collection> | |
| 29 </test> | |
| 30 </tests> | |
| 31 <help><![CDATA[ | |
| 32 Takes an input file and writes each consecutive two lines to a separate file, in a dataset collection. | |
| 33 ]]></help> | |
| 34 <citations> | |
| 35 <citation type="bibtex"> | |
| 36 @ARTICLE{bgruening_galaxytools, | |
| 37 Author = {Björn Grüning, Cameron Smith, Torsten Houwaart, Nicola Soranzo, Eric Rasche}, | |
| 38 keywords = {bioinformatics, ngs, galaxy, cheminformatics, rna}, | |
| 39 title = {{Galaxy Tools - A collection of bioinformatics and cheminformatics tools for the Galaxy environment}}, | |
| 40 url = {https://github.com/bgruening/galaxytools} | |
| 41 } | |
| 42 </citation> | |
| 43 </citations> | |
| 44 </tool> |