Mercurial > repos > gga > chado_feature_delete_features

annotate feature_delete_features.xml @ 13:6ae05a75766c draft

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"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit bfca9a8c38694bbf04d92a6668e4ea31cf658eb8"
author gga
date Thu, 14 Nov 2019 14:47:32 +0000
parents 082bfcda67aa
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d19c168d038c planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
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1 <?xml version="1.0"?>
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2 <tool id="feature_delete_features" name="Chado features delete" version="@WRAPPER_VERSION@">
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3 <description></description>
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4 <macros>
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5 <import>macros.xml</import>
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6 </macros>
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7 <expand macro="requirements"/>
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8 <code file="chado.py"/>
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9 <command detect_errors="aggressive"><![CDATA[
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10 @START_PSQL@ &&
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d19c168d038c planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 81a83f06b49db32928ba0cd44e5b6d0431868d27
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12 chakin feature delete_features
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13
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082bfcda67aa "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 1640878827bdc3870b6f34eded3a3f7571a1849f"
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14 #if $organism_id:
082bfcda67aa "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 1640878827bdc3870b6f34eded3a3f7571a1849f"
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15 --organism_id '$organism_id'
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16 #end if
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17 #if $analysis_id:
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18 --analysis_id '$analysis_id'
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19 #end if
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20 #if $name:
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21 --name '$name'
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22 #end if
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23 #if $uniquename:
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24 --uniquename '$uniquename'
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25 #end if
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26
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27 | jq -S . > '$results'
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29 @ZIP_PSQL@
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30 ]]></command>
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31 <inputs>
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32 <expand macro="psql_target"/>
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33 <!-- options -->
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34 <param argument="--organism_id" type="select" dynamic_options="list_organisms()" label="Organism" />
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35 <param argument="--analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" />
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36 <param name="name" label="Name" argument="--name" type="text" help="name filter" />
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37 <param name="uniquename" label="Uniquename" argument="--uniquename" type="text" help="uniquename filter" />
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38 </inputs>
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39 <outputs>
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40 <data format="json" name="results"/>
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41 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
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42 <filter>psql_target['method'] == "pgtools"</filter>
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43 </data>
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44 </outputs>
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45 <help>
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46 Get all or some features
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48 @HELP@
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49 </help>
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50 </tool>