Mercurial > repos > galaxyp > custom_pro_db_annotation_data_manager

annotate data_manager/customProDB_annotation.xml @ 4:b42974daa659 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
author galaxyp
date Thu, 28 Jan 2016 18:46:50 -0500
parents af0a098e15bd
children a0ca66b32792
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663ee21a8609 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
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1 <tool id="custom_pro_db_annotation_data_manager" name="CustomProDB Annotation" tool_type="manage_data" version="0.0.1">
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2 <description>builder</description>
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3 <command interpreter="Rscript --vanilla">customProDB_annotation.R
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4 --outputFile "${out_file}"
663ee21a8609 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
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5 --dbkey "${dbkey}"
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b42974daa659 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
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6 --dbkey_description ${ dbkey.get_display_text() }
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7 2&gt;&amp;1
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8 </command>
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9 <stdio>
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10 <exit_code range=":-1" />
663ee21a8609 planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot/data_manager_customProDB commit 141369f97aa2804d2bbfd9ed620ea2a5574994c2-dirty
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11 <exit_code range="1:" />
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12 </stdio>
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13 <inputs>
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14 <param type="genomebuild" name="dbkey" value="" label="UCSC dbKey for reference genome" />
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15 </inputs>
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16 <outputs>
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17 <data name="out_file" format="data_manager_json"/>
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18 </outputs>
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20 <help>
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22 .. class:: infomark
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24 **Notice:** If you leave name, description, or id blank, it will be generated automatically.
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26 </help>
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27 </tool>