comparison organism_add_organism.xml @ 0:51ac1ffb4f38 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 08:44:11 -0400
parents
children 5d566012d85f
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-1:000000000000 0:51ac1ffb4f38
1 <?xml version="1.0"?>
2 <tool id="organism_add_organism" name="Chado organism add" 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 add_organism
12 '$genus'
13 '$common'
14 '$abbr'
15
16 #if $species:
17 --species '$species'
18 #end if
19 #if $comment:
20 --comment '$comment'
21 #end if
22
23 | jq -S . > $results
24 ]]></command>
25 <inputs>
26 <!-- arguments -->
27 <param name="genus" label="Genus" argument="genus" type="text" help="The genus of the organism" />
28 <param name="species" label="Species" argument="species" type="text" help="The species of the organism" />
29 <param name="common" label="Common" argument="common" type="text" help="The common name of the organism" />
30 <param name="abbr" label="Abbr" argument="abbr" type="text" help="The abbreviation of the organism" />
31
32 <!-- options -->
33 <param name="comment" label="Comment" argument="comment" type="text" help="A comment / description" />
34
35 </inputs>
36 <outputs>
37 <data format="json" name="results"/>
38 </outputs>
39 <help>
40 Add a new organism to the Chado database
41
42 @HELP@
43 </help>
44 </tool>