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comparison qiime2/qiime_sample-classifier_classify-samples-ncv.xml @ 9:f190567fe3f6 draft

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author florianbegusch
date Wed, 14 Aug 2019 15:12:48 -0400
parents de4c22a52df4
children a0a8d77a991c
comparison
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8:d66c7509e8f9 9:f190567fe3f6
1 <?xml version="1.0" ?> 1 <?xml version="1.0" ?>
2 <tool id="qiime_sample-classifier_classify-samples-ncv" name="qiime sample-classifier classify-samples-ncv" version="2019.4"> 2 <tool id="qiime_sample-classifier_classify-samples-ncv" name="qiime sample-classifier classify-samples-ncv" version="2019.7">
3 <description> - Nested cross-validated supervised learning classifier.</description> 3 <description> - Nested cross-validated supervised learning classifier.</description>
4 <requirements> 4 <requirements>
5 <requirement type="package" version="2019.4">qiime2</requirement> 5 <requirement type="package" version="2019.7">qiime2</requirement>
6 </requirements> 6 </requirements>
7 <command><![CDATA[ 7 <command><![CDATA[
8 qiime sample-classifier classify-samples-ncv 8 qiime sample-classifier classify-samples-ncv
9 9
10 --i-table=$itable 10 --i-table=$itable
46 46
47 #if str($pmissingsamples) != 'None': 47 #if str($pmissingsamples) != 'None':
48 --p-missing-samples=$pmissingsamples 48 --p-missing-samples=$pmissingsamples
49 #end if 49 #end if
50 50
51 --o-probabilities=oprobabilities
51 --o-predictions=opredictions 52 --o-predictions=opredictions
52 --o-feature-importance=ofeatureimportance 53 --o-feature-importance=ofeatureimportance
53 ; 54 ;
55 cp oprobabilities.qza $oprobabilities;
54 cp opredictions.qza $opredictions; 56 cp opredictions.qza $opredictions;
55 cp ofeatureimportance.qza $ofeatureimportance 57 cp ofeatureimportance.qza $ofeatureimportance
56 ]]></command> 58 ]]></command>
57 <inputs> 59 <inputs>
58 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] Feature table containing all features that should be used for target prediction. [required]" name="itable" optional="False" type="data"/> 60 <param format="qza,no_unzip.zip" label="--i-table: ARTIFACT FeatureTable[Frequency] Feature table containing all features that should be used for target prediction. [required]" name="itable" optional="False" type="data"/>
79 81
80 <param label="--m-metadata-file METADATA" name="metadatafile" type="data" format="tabular,qza,no_unzip.zip" /> 82 <param label="--m-metadata-file METADATA" name="metadatafile" type="data" format="tabular,qza,no_unzip.zip" />
81 83
82 </inputs> 84 </inputs>
83 <outputs> 85 <outputs>
86 <data format="qza" label="${tool.name} on ${on_string}: probabilities.qza" name="oprobabilities"/>
84 <data format="qza" label="${tool.name} on ${on_string}: predictions.qza" name="opredictions"/> 87 <data format="qza" label="${tool.name} on ${on_string}: predictions.qza" name="opredictions"/>
85 <data format="qza" label="${tool.name} on ${on_string}: featureimportance.qza" name="ofeatureimportance"/> 88 <data format="qza" label="${tool.name} on ${on_string}: featureimportance.qza" name="ofeatureimportance"/>
86 </outputs> 89 </outputs>
87 <help><![CDATA[ 90 <help><![CDATA[
88 Nested cross-validated supervised learning classifier. 91 Nested cross-validated supervised learning classifier.
125 ------- 128 -------
126 predictions : SampleData[ClassifierPredictions] 129 predictions : SampleData[ClassifierPredictions]
127 Predicted target values for each input sample. 130 Predicted target values for each input sample.
128 feature_importance : FeatureData[Importance] 131 feature_importance : FeatureData[Importance]
129 Importance of each input feature to model accuracy. 132 Importance of each input feature to model accuracy.
133 probabilities : SampleData[Probabilities]
134 Predicted class probabilities for each input sample.
130 ]]></help> 135 ]]></help>
131 <macros> 136 <macros>
132 <import>qiime_citation.xml</import> 137 <import>qiime_citation.xml</import>
133 </macros> 138 </macros>
134 <expand macro="qiime_citation"/> 139 <expand macro="qiime_citation"/>