Mercurial > repos > gga > chado_feature_load_featureprops
comparison 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 |
|---|---|
| date | Thu, 21 Jun 2018 08:44:44 -0400 |
| parents | |
| children | 1f90fb200b4d |
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| -1:000000000000 | 0:b5d8e6e26d01 |
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| 1 <?xml version="1.0"?> | |
| 2 <tool id="feature_load_featureprops" name="Chado load feature properties" version="@WRAPPER_VERSION@.0"> | |
| 3 <description></description> | |
| 4 <macros> | |
| 5 <import>macros.xml</import> | |
| 6 </macros> | |
| 7 <expand macro="requirements"/> | |
| 8 <code file="chado.py"/> | |
| 9 <command detect_errors="aggressive"><![CDATA[ | |
| 10 @AUTH@ | |
| 11 | |
| 12 chakin feature load_featureprops | |
| 13 '$tab_file' | |
| 14 '$analysis_id' | |
| 15 '$organism' | |
| 16 '$prop_type' | |
| 17 | |
| 18 #if $feature_type: | |
| 19 --feature_type '$feature_type' | |
| 20 #end if | |
| 21 #if $match_on_name: | |
| 22 $match_on_name | |
| 23 #end if | |
| 24 | |
| 25 | jq -S . > $results | |
| 26 ]]></command> | |
| 27 <inputs> | |
| 28 <!-- arguments --> | |
| 29 <param name="tab_file" label="Tab File" argument="tab_file" type="data" format="tabular" help="Path to the tabular file to load" /> | |
| 30 <param argument="--analysis_id" | |
| 31 type="select" | |
| 32 dynamic_options="list_analyses()" | |
| 33 label="Analysis" /> | |
| 34 <param argument="--organism" | |
| 35 type="select" | |
| 36 dynamic_options="list_organisms()" | |
| 37 label="Organism" /> | |
| 38 <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)" /> | |
| 39 | |
| 40 <!-- options --> | |
| 41 <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" /> | |
| 42 <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" /> | |
| 43 | |
| 44 <expand macro="wait_for"/> | |
| 45 | |
| 46 </inputs> | |
| 47 <outputs> | |
| 48 <data format="json" name="results"/> | |
| 49 </outputs> | |
| 50 <help> | |
| 51 Load feature properties from a tabular file (Column1: feature name or uniquename, Column2: property value) | |
| 52 | |
| 53 @HELP@ | |
| 54 </help> | |
| 55 </tool> |