Mercurial > repos > mvdbeek > get_reference_fasta
comparison get_reference_fasta.xml @ 0:b5c0b28cdfb3 draft default tip
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/get_reference_fasta commit fdd0811efc61c31f88ff17096fbe8ee8cfacd766-dirty
| author | mvdbeek |
|---|---|
| date | Thu, 25 Feb 2016 07:19:45 -0500 |
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| -1:000000000000 | 0:b5c0b28cdfb3 |
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| 1 <tool id="get_fasta_reference" name="get fasta reference" version="0.1.1"> | |
| 2 <description>Obtain reference genome sequence</description> | |
| 3 <stdio> | |
| 4 <exit_code range="1:" /> | |
| 5 </stdio> | |
| 6 <command><![CDATA[ | |
| 7 cat "$pre_installed_fasta.fields.path" > "$output" | |
| 8 ]]></command> | |
| 9 <inputs> | |
| 10 <param help="if you wish to have your fasta sequence listed contact instance administrator" label="Select a fasta sequence" name="pre_installed_fasta" type="select"> | |
| 11 <options from_data_table="all_fasta"/> | |
| 12 </param> | |
| 13 </inputs> | |
| 14 <outputs> | |
| 15 <data name="output" label="${pre_installed_fasta.value_label}" format="fasta" /> | |
| 16 </outputs> | |
| 17 <tests> | |
| 18 <test> | |
| 19 <param name="pre_installed_fasta" value="EcR_USP_224.fa"/> | |
| 20 <output name="output" file="EcR_USP_224.fa"/> | |
| 21 </test> | |
| 22 </tests> | |
| 23 <help><![CDATA[ | |
| 24 | |
| 25 Places the reference genome sequence in the current history. | |
| 26 Useful for sharing purposes or tools that work directly on fasta files. | |
| 27 | |
| 28 ]]></help> | |
| 29 </tool> |