Mercurial > repos > gga > chado_feature_load_gff

comparison feature_load_gff.xml @ 11:1282f881e3bf 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 05:38:50 -0400
parents 4bd9bbb4dbab
children ab5ac677d9c6
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10:4bd9bbb4dbab 11:1282f881e3bf
5 <import>macros.xml</import> 5 <import>macros.xml</import>
6 </macros> 6 </macros>
7 <code file="chado.py"/> 7 <code file="chado.py"/>
8 <expand macro="requirements"/> 8 <expand macro="requirements"/>
9 <command detect_errors="aggressive"><![CDATA[ 9 <command detect_errors="aggressive"><![CDATA[
10 @AUTH@ 10 @START_PSQL@ &&
11 11
12 chakin feature load_gff 12 chakin feature load_gff
13 '$gff' 13 '$gff'
14 '$analysis_id' 14 '$analysis_id'
15 '$organism' 15 '$organism'
40 $add_only 40 $add_only
41 41
42 --quiet 42 --quiet
43 43
44 > '$results' 44 > '$results'
45
46 && @ZIP_PSQL@
45 ]]></command> 47 ]]></command>
46 <inputs> 48 <inputs>
49 <expand macro="psql_target"/>
47 <!-- arguments --> 50 <!-- arguments -->
48 <param name="gff" label="Gff" argument="gff" type="data" format="gff" help="Path to the Fasta file to load" /> 51 <param name="gff" label="Gff" argument="gff" type="data" format="gff" help="Path to the Fasta file to load" />
49 <param argument="--analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" /> 52 <param argument="--analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" />
50 <param argument="--organism" type="select" dynamic_options="list_organisms()" label="Organism" /> 53 <param argument="--organism" type="select" dynamic_options="list_organisms()" label="Organism" />
51 54
78 81
79 <expand macro="wait_for"/> 82 <expand macro="wait_for"/>
80 </inputs> 83 </inputs>
81 <outputs> 84 <outputs>
82 <data format="txt" name="results"/> 85 <data format="txt" name="results"/>
86 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
87 <filter>psql_target['method'] == "pgtools"</filter>
88 </data>
83 </outputs> 89 </outputs>
84 <help> 90 <help>
85 Load features from a gff file 91 Load features from a gff file
86 92
87 @HELP@ 93 @HELP@