Mercurial > repos > florianbegusch > qiime2_suite
diff qiime2/qiime_composition_add-pseudocount.xml @ 14:a0a8d77a991c draft
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author | florianbegusch |
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date | Thu, 03 Sep 2020 09:51:29 +0000 |
parents | f190567fe3f6 |
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--- a/qiime2/qiime_composition_add-pseudocount.xml Thu Sep 03 09:46:00 2020 +0000 +++ b/qiime2/qiime_composition_add-pseudocount.xml Thu Sep 03 09:51:29 2020 +0000 @@ -1,31 +1,42 @@ <?xml version="1.0" ?> -<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount" version="2019.7"> - <description> - Add pseudocount to table</description> - <requirements> - <requirement type="package" version="2019.7">qiime2</requirement> - </requirements> - <command><![CDATA[ +<tool id="qiime_composition_add-pseudocount" name="qiime composition add-pseudocount" + version="2020.8"> + <description>Add pseudocount to table</description> + <requirements> + <requirement type="package" version="2020.8">qiime2</requirement> + </requirements> + <command><![CDATA[ qiime composition add-pseudocount --i-table=$itable + +--p-pseudocount=$ppseudocount + --o-composition-table=ocompositiontable -#if str($ppseudocount): - --p-pseudocount=$ppseudocount +#if str($examples) != 'None': +--examples=$examples #end if + ; cp ocompositiontable.qza $ocompositiontable - ]]></command> - <inputs> - <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added. [required]" name="itable" optional="False" type="data"/> - <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1"/> - </inputs> - <outputs> - <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable"/> - </outputs> - <help><![CDATA[ + + ]]></command> + <inputs> + <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] The feature table to which pseudocounts should be added. [required]" name="itable" optional="False" type="data" /> + <param label="--p-pseudocount: INTEGER The value to add to all counts in the feature table. [default: 1]" name="ppseudocount" optional="True" type="integer" value="1" /> + <param label="--examples: Show usage examples and exit." name="examples" optional="False" type="data" /> + + </inputs> + + <outputs> + <data format="qza" label="${tool.name} on ${on_string}: compositiontable.qza" name="ocompositiontable" /> + + </outputs> + + <help><![CDATA[ Add pseudocount to table -######################## +############################################################### Increment all counts in table by pseudocount. @@ -40,9 +51,9 @@ ------- composition_table : FeatureTable[Composition] The resulting feature table. - ]]></help> -<macros> + ]]></help> + <macros> <import>qiime_citation.xml</import> -</macros> -<expand macro="qiime_citation"/> -</tool> + </macros> + <expand macro="qiime_citation"/> +</tool> \ No newline at end of file