Mercurial > repos > gga > chado_feature_load_featureprops

comparison feature_load_featureprops.xml @ 11:ae5af24183a6 draft

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planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 0b135f1ea2623ea68e41ac88e13d99e6b4ad8bea
author gga
date Mon, 08 Jul 2019 05:36:34 -0400
parents 46b3ccaa24ca
children 23550bf28405
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10:46b3ccaa24ca 11:ae5af24183a6
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <expand macro="requirements"/> 7 <expand macro="requirements"/>
8 <code file="chado.py"/> 8 <code file="chado.py"/>
9 <command detect_errors="aggressive"><![CDATA[ 9 <command detect_errors="aggressive"><![CDATA[
10 @AUTH@ 10 @START_PSQL@ &&
11 11
12 chakin feature load_featureprops 12 chakin feature load_featureprops
13 '$tab_file' 13 '$tab_file'
14 '$analysis_id' 14 '$analysis_id'
15 '$organism' 15 '$organism'
20 #end if 20 #end if
21 21
22 $match_on_name 22 $match_on_name
23 23
24 | jq -S . > '$results' 24 | jq -S . > '$results'
25
26 && @ZIP_PSQL@
25 ]]></command> 27 ]]></command>
26 <inputs> 28 <inputs>
29 <expand macro="psql_target"/>
27 <!-- arguments --> 30 <!-- arguments -->
28 <param name="tab_file" label="Tab File" argument="tab_file" type="data" format="tabular" help="Path to the tabular file to load" /> 31 <param name="tab_file" label="Tab File" argument="tab_file" type="data" format="tabular" help="Path to the tabular file to load" />
29 <param argument="analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" /> 32 <param argument="analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" />
30 <param argument="organism" type="select" dynamic_options="list_organisms()" label="Organism" /> 33 <param argument="organism" type="select" dynamic_options="list_organisms()" label="Organism" />
31 <param name="prop_type" label="Property type" argument="prop_type" type="text" help="Type of the feature property (cvterm will be created if it doesn't exist)" /> 34 <param name="prop_type" label="Property type" argument="prop_type" type="text" help="Type of the feature property (cvterm will be created if it doesn't exist)" />
37 <expand macro="wait_for"/> 40 <expand macro="wait_for"/>
38 41
39 </inputs> 42 </inputs>
40 <outputs> 43 <outputs>
41 <data format="json" name="results"/> 44 <data format="json" name="results"/>
45 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
46 <filter>psql_target['method'] == "pgtools"</filter>
47 </data>
42 </outputs> 48 </outputs>
43 <help> 49 <help>
44 Load feature properties from a tabular file (Column1: feature name or uniquename, Column2: property value) 50 Load feature properties from a tabular file (Column1: feature name or uniquename, Column2: property value)
45 51
46 @HELP@ 52 @HELP@