Mercurial > repos > pimarin > data_manager_amrfinderplus

annotate data_manager/data_manager_amrfinderplus.xml @ 0:8e1bbef44e19 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
author pimarin
date Thu, 10 Nov 2022 15:10:15 +0000
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8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
pimarin
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1 <tool id="amrfinderplus_build_database" name="amrfinderplus" tool_type="manage_data" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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2 <description>AMRfinderplus database builder</description>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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3 <macros>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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4 <import>macro.xml</import>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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5 </macros>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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6 <expand macro="requirements"/>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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7 <command detect_errors="exit_code">
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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8 <![CDATA[
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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9 python '$__tool_directory__/data_manager_amrfinderplus.py'
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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10 '$output_file'
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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11 ]]></command>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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12 <inputs>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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13 <param name="database_select" type="select" label="Database version">
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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14 <option value="latest" selected="true">Latest available version</option>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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15 </param>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
pimarin
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16 </inputs>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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17 <outputs>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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18 <data name="output_file" format="data_manager_json"/>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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19 </outputs>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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20 <tests>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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21 <!-- Test download -->
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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22 <test expect_num_outputs="1">
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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23 <output name="output_file" value="amrfinderplus_test_data_manager.json" />
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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24 </test>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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25 </tests>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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26 <help><![CDATA[
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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27 Download the latest version of amrfinderplus database from the NCBI
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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28 ]]></help>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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29 <citations>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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30 <citation type="doi">10.1038/s41598-021-91456-0</citation>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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31 </citations>
8e1bbef44e19 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_amrfinderplus commit a7bd2bf9c3e46c3524ee640bb60c8062b3257217-dirty
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32 </tool>