Mercurial > repos > recetox > aplcms_to_ramclustr_converter

annotate aplcms_to_ramclustr_converter.xml @ 4:9ea34e24474f draft

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"planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 2dd20229f0c7f43dacc0d201ea50fef3c993d30e"
author recetox
date Mon, 09 Aug 2021 15:29:08 +0000
parents 07667688735e
children b9263b8fcc1e
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9ea34e24474f "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 2dd20229f0c7f43dacc0d201ea50fef3c993d30e"
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1 <tool id="aplcms_to_ramclustr_converter" name="apLCMS to RamClustR converter" version="0.1.0+galaxy0" python_template_version="3.5">
9ea34e24474f "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 2dd20229f0c7f43dacc0d201ea50fef3c993d30e"
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2 <description>converts apLCMS parquet output to RamClustR csv input</description>
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07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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3 <requirements>
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4 <requirement type="package" version="1.1.5">pandas</requirement>
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9ea34e24474f "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 2dd20229f0c7f43dacc0d201ea50fef3c993d30e"
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5 <requirement type="package" version="4.0.0">pyarrow</requirement>
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07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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6 </requirements>
07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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7 <command detect_errors="exit_code"><![CDATA[
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8 python $__tool_directory__/aplcms_to_ramclustr_converter.py --dataframe '${aplcms_dataframe}' '${out_file}'
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9 ]]></command>
07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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10 <inputs>
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11 <param name="aplcms_dataframe" type="data" format="parquet" label="apLCMS Dataframe"/>
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12 </inputs>
07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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13 <outputs>
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14 <data format="csv" name="out_file" label="Feature-by-sample ${aplcms_dataframe.name} table (csv)"/>
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15 </outputs>
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16 <tests>
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17 <test>
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18 <param name="aplcms_dataframe" value="input.parquet" ftype="parquet"/>
9ea34e24474f "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 2dd20229f0c7f43dacc0d201ea50fef3c993d30e"
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19 <output name="out_file" file="output.csv" ftype="csv"/>
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20 </test>
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21 </tests>
07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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22 <help><![CDATA[
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23 Tool to convert apLCMS output to csv file formated in accordance to RamClustR (CSV) input requirements.
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25 **Workflow position**
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26
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27 - Upstream tool: `apLCMS <https://github.com/RECETOX/galaxytools/tree/master/tools/recetox_aplcms>`_ Unsupervised or Hybrid
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29 - Downstream tool: `RamClustR <https://github.com/RECETOX/galaxytools/tree/master/tools/ramclustr>`_ (CSV)
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30 ]]></help>
07667688735e "planemo upload for repository https://github.com/RECETOX/galaxytools/tools/aplcms_to_ramclustr_converter/ commit 521769cd5af12987a119e6302f22e2e1e864ff9a"
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31 </tool>