Mercurial > repos > gga > chado_organism_get_organisms
comparison organism_get_organisms.xml @ 0:1ce80eabf7eb draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
| author | gga |
|---|---|
| date | Thu, 21 Jun 2018 08:45:28 -0400 |
| parents | |
| children | 05e1fd17832b |
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| -1:000000000000 | 0:1ce80eabf7eb |
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| 1 <?xml version="1.0"?> | |
| 2 <tool id="organism_get_organisms" name="Chado organism get" version="@WRAPPER_VERSION@.0"> | |
| 3 <description></description> | |
| 4 <macros> | |
| 5 <import>macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="requirements"/> | |
| 8 <command detect_errors="aggressive"><![CDATA[ | |
| 9 @AUTH@ | |
| 10 | |
| 11 chakin organism get_organisms | |
| 12 | |
| 13 #if $organism_id: | |
| 14 --organism_id '$organism_id' | |
| 15 #end if | |
| 16 #if $genus: | |
| 17 --genus '$genus' | |
| 18 #end if | |
| 19 #if $species: | |
| 20 --species '$species' | |
| 21 #end if | |
| 22 #if $common: | |
| 23 --common '$common' | |
| 24 #end if | |
| 25 #if $abbr: | |
| 26 --abbr '$abbr' | |
| 27 #end if | |
| 28 #if $comment: | |
| 29 --comment '$comment' | |
| 30 #end if | |
| 31 | |
| 32 | jq -S . > $results | |
| 33 ]]></command> | |
| 34 <inputs> | |
| 35 <!-- arguments --> | |
| 36 | |
| 37 <!-- options --> | |
| 38 <param name="organism_id" label="Organism Id" argument="organism_id" type="integer" help="organism_id filter" optional="True" /> | |
| 39 <param name="genus" label="Genus" argument="genus" type="text" help="genus filter" optional="True" /> | |
| 40 <param name="species" label="Species" argument="species" type="text" help="species filter" optional="True" /> | |
| 41 <param name="common" label="Common" argument="common" type="text" help="common filter" optional="True" /> | |
| 42 <param name="abbr" label="Abbr" argument="abbr" type="text" help="abbr filter" optional="True" /> | |
| 43 <param name="comment" label="Comment" argument="comment" type="text" help="comment filter" optional="True" /> | |
| 44 | |
| 45 </inputs> | |
| 46 <outputs> | |
| 47 <data format="json" name="results"/> | |
| 48 </outputs> | |
| 49 <help> | |
| 50 Get all or some organisms | |
| 51 | |
| 52 @HELP@ | |
| 53 </help> | |
| 54 </tool> |