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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann commit cb7dc8ff1810f6d335b5dd6615651f32a3ea7447
author iuc
date Fri, 27 Sep 2024 09:57:42 +0000
parents 75bedfb2078b
children
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75bedfb2078b "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann commit 077b8f34e081e6c427acb0fde0fbb97d1b241e0b"
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1 <tool id="humann_split_stratified_table" name="Split a HUMAnN table" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
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2 <description>into 2 tables (one stratified and one unstratified)</description>
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3 <macros>
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4 <import>macros.xml</import>
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5 </macros>
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6 <expand macro="edam_ontology"/>
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7 <expand macro="requirements"/>
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8 <expand macro="version"/>
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9 <command detect_errors="exit_code"><![CDATA[
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10 humann_split_stratified_table
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11 --input '$input'
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12 --output 'output'
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13 ]]></command>
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14 <inputs>
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15 <param argument="--input" type="data" format="tsv,tabular" label="Stratified input table"/>
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16 </inputs>
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17 <outputs>
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18 <data format="tabular" name="stratified" from_work_dir="output/*_stratified*" label="${tool.name} on ${on_string}: Stratified table"/>
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19 <data format="tabular" name="unstratified" from_work_dir="output/*_unstratified*" label="${tool.name} on ${on_string}: Unstratified table"/>
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20 </outputs>
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21 <tests>
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22 <test expect_num_outputs="2">
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23 <param name="input" value="demo_genefamilies.tsv"/>
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24 <output name="stratified" ftype="tabular">
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25 <assert_contents>
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26 <has_text text="UniRef90_A0A174QBF2|g__Bacteroides.s__Bacteroides_vulgatus" />
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27 <has_text text="UniRef90_A0A3E5DKA1|g__Bacteroides.s__Bacteroides_vulgatus" />
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28 </assert_contents>
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29 </output>
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30 <output name="unstratified" ftype="tabular">
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31 <assert_contents>
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32 <has_text text="UniRef90_A0A174QBF2" />
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33 <not_has_text text="UniRef90_A0A174QBF2|g__Bacteroides.s__Bacteroides_vulgatus" />
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34 <has_text text="UniRef90_A0A3E5DKA1" />
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35 <not_has_text text="UniRef90_A0A3E5DKA1|g__Bacteroides.s__Bacteroides_vulgatus" />
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36 </assert_contents>
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37 </output>
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38 </test>
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39 </tests>
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40 <help><![CDATA[
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41 @HELP_HEADER@
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42
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43 This tool splits a stratified table into two files (one stratified and one unstratified).
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44 ]]></help>
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45 <expand macro="citations"/>
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46 </tool>