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annotate wgmlst_stats.xml @ 1:5b2c48fa0175 draft

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planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
author bvalot
date Wed, 07 Dec 2022 15:25:06 +0000
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5b2c48fa0175 planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
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1 <tool id="wgmlst_stats_wrapper"
5b2c48fa0175 planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
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2 name="Statistic of cg/wgMLST database"
5b2c48fa0175 planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
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3 version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="20.05">
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4 <description></description>
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5 <macros>
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6 <import>macro.xml</import>
5b2c48fa0175 planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
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7 </macros>
5b2c48fa0175 planemo upload for repository https://github.com/bvalot/pyMLST commit fe04f6232a5f7ea78b666cb8036872902e79998b
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8 <expand macro="requirements" />
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a3cc35af3635 planemo upload for repository https://github.com/bvalot/pyMLST commit 13edfab02a5da9e374c38ecbd0e229ec0f8d53bb
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9 <stdio>
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10 <exit_code range="1:" level="fatal" />
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11 </stdio>
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12 <version_command>wgMLST -v</version_command>
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13 <command>
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14 wgMLST stats '${database}' &amp;> '${logfile}'
a3cc35af3635 planemo upload for repository https://github.com/bvalot/pyMLST commit 13edfab02a5da9e374c38ecbd0e229ec0f8d53bb
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15 </command>
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16 <inputs>
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17 <param name="database" type="data"
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18 format="sqlite"
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19 label="cg/wgMLST database"
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20 help="Sqlite format from cg/wgMLST database" />
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21 </inputs>
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22 <outputs>
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23 <data name="logfile" format="txt" label="Statistics of ${database.name}: log" />
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24 </outputs>
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25 <tests>
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26 <test expect_num_outputs="1">
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27 <param name="database" value="wgmlst_ecoli.db" />
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28 <output name="logfile" ftype="txt" file="wgmlst_ecoli.db.stats" />
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29 </test>
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30 </tests>
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31 <help>
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32 **What it does**
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34 Extract stats from a cg/wgMLST DATABASE
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36 **License and citation**
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a3cc35af3635 planemo upload for repository https://github.com/bvalot/pyMLST commit 13edfab02a5da9e374c38ecbd0e229ec0f8d53bb
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38 This Galaxy tool is Copyright © 2022 `B. Valot` and is released under the `GPL3 license`.
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39 </help>
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40 <citations>
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41 </citations>
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42 </tool>