Mercurial > repos > gga > chado_feature_load_featureprops
diff feature_load_featureprops.xml @ 0:b5d8e6e26d01 draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
author | gga |
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date | Thu, 21 Jun 2018 08:44:44 -0400 |
parents | |
children | 1f90fb200b4d |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/feature_load_featureprops.xml Thu Jun 21 08:44:44 2018 -0400 @@ -0,0 +1,55 @@ +<?xml version="1.0"?> +<tool id="feature_load_featureprops" name="Chado load feature properties" version="@WRAPPER_VERSION@.0"> + <description></description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements"/> + <code file="chado.py"/> + <command detect_errors="aggressive"><![CDATA[ +@AUTH@ + +chakin feature load_featureprops +'$tab_file' +'$analysis_id' +'$organism' +'$prop_type' + +#if $feature_type: + --feature_type '$feature_type' +#end if +#if $match_on_name: + $match_on_name +#end if + +| jq -S . > $results + ]]></command> + <inputs> + <!-- arguments --> + <param name="tab_file" label="Tab File" argument="tab_file" type="data" format="tabular" help="Path to the tabular file to load" /> + <param argument="--analysis_id" + type="select" + dynamic_options="list_analyses()" + label="Analysis" /> + <param argument="--organism" + type="select" + dynamic_options="list_organisms()" + label="Organism" /> + <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)" /> + + <!-- options --> + <param name="feature_type" label="Feature type" argument="feature_type" type="text" help="Type of the target features in sequence ontology (will speed up loading if specified)" optional="true" /> + <param name="match_on_name" label="Match on name" argument="match_on_name" type="boolean" truevalue="--match_on_name" falsevalue="" help="Match features using their name instead of their uniquename" /> + + <expand macro="wait_for"/> + + </inputs> + <outputs> + <data format="json" name="results"/> + </outputs> + <help> +Load feature properties from a tabular file (Column1: feature name or uniquename, Column2: property value) + +@HELP@ + </help> +</tool>