annotate expression_delete_biomaterials.xml @ 10:f2edb0354a97 draft

"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/chado commit 7bf18c69becc57152efdadedf7ebd0bcfa382a15"
author gga
date Mon, 29 Jun 2020 09:36:04 -0400
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1 <?xml version="1.0"?>
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2 <tool id="expression_delete_biomaterials" name="Chado biomaterials 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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12 chakin expression delete_biomaterials
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14 #if $names:
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15 --names '$names'
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16 #end if
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17 #if $ids:
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18 --ids '$ids'
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19 #end if
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20 #if $organism_id:
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21 --organism_id '$organism_id'
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22 #end if
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23 #if $analysis_id:
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24 --analysis_id '$analysis_id'
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25 #end if
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26 > '$results'
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27
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28 @ZIP_PSQL@
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29 ]]></command>
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30 <inputs>
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31 <expand macro="psql_target"/>
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32 <!-- options -->
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33 <param argument="--organism_id" type="select" dynamic_options="list_organisms()" label="Organism" optional="true" />
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34 <param argument="--analysis_id" type="select" dynamic_options="list_analyses()" label="Analysis" optional="true" />
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35 <param name="names" label="Names" argument="--names" type="data" format="json" help="JSON list of biomaterial names to delete." optional="true" />
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36 <param name="ids" label="Ids" argument="--ids" type="data" format="json" help="JSON list of biomaterial ids to delete." optional="true" />
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37
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38 <expand macro="wait_for"/>
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39 </inputs>
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40 <outputs>
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41 <data format="txt" name="results"/>
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42 <data format="postgresql" name="outfile" from_work_dir="postgresql_out.tar.bz2" label="${tool.name} on ${on_string}">
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43 <filter>psql_target['method'] == "pgtools"</filter>
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44 </data>
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45 </outputs>
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46 <help>
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47 Will delete biomaterials based on selector. Only one selector will be used.
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48
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49 @HELP@
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50 </help>
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51 </tool>