Mercurial > repos > florianbegusch > qiime2_suite

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

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author florianbegusch
date Wed, 14 Aug 2019 15:12:48 -0400
parents a025a4a89e07
children a0a8d77a991c
comparison
equal deleted inserted replaced
8:d66c7509e8f9 9:f190567fe3f6
1 <?xml version="1.0" ?> 1 <?xml version="1.0" ?>
2 <tool id="qiime_sample-classifier_classify-samples" name="qiime sample-classifier classify-samples" version="2019.4"> 2 <tool id="qiime_sample-classifier_classify-samples" name="qiime sample-classifier classify-samples" version="2019.7">
3 <description> - Train and test a cross-validated supervised learning classifier.</description> 3 <description> - Train and test a 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 8 qiime sample-classifier classify-samples
9 9
10 --i-table=$itable 10 --i-table=$itable
62 --m-metadata-file=$metadatafile 62 --m-metadata-file=$metadatafile
63 #end if 63 #end if
64 64
65 65
66 66
67 --o-probabilities=oprobabilities
67 --o-sample-estimator=osampleestimator 68 --o-sample-estimator=osampleestimator
68 --o-feature-importance=ofeatureimportance 69 --o-feature-importance=ofeatureimportance
69 --o-predictions=opredictions 70 --o-predictions=opredictions
70 --o-model-summary=omodelsummary 71 --o-model-summary=omodelsummary
71 --o-accuracy-results=oaccuracyresults 72 --o-accuracy-results=oaccuracyresults
72 ; 73 ;
74 cp oprobabilities.qza $oprobabilities;
73 cp osampleestimator.qza $osampleestimator; 75 cp osampleestimator.qza $osampleestimator;
74 cp ofeatureimportance.qza $ofeatureimportance; 76 cp ofeatureimportance.qza $ofeatureimportance;
75 cp opredictions.qza $opredictions; 77 cp opredictions.qza $opredictions;
76 qiime tools export --input-path omodelsummary.qzv --output-path out && mkdir -p '$omodelsummary.files_path' 78 qiime tools export --input-path omodelsummary.qzv --output-path out && mkdir -p '$omodelsummary.files_path'
77 && cp -r out/* '$omodelsummary.files_path' 79 && cp -r out/* '$omodelsummary.files_path'
141 143
142 <param label="--m-metadata-file METADATA" name="metadatafile" type="data" format="tabular,qza,no_unzip.zip" /> 144 <param label="--m-metadata-file METADATA" name="metadatafile" type="data" format="tabular,qza,no_unzip.zip" />
143 145
144 </inputs> 146 </inputs>
145 <outputs> 147 <outputs>
148 <data format="qza" label="${tool.name} on ${on_string}: probabilities.qza" name="oprobabilities"/>
146 <data format="qza" label="${tool.name} on ${on_string}: sampleestimator.qza" name="osampleestimator"/> 149 <data format="qza" label="${tool.name} on ${on_string}: sampleestimator.qza" name="osampleestimator"/>
147 <data format="qza" label="${tool.name} on ${on_string}: featureimportance.qza" name="ofeatureimportance"/> 150 <data format="qza" label="${tool.name} on ${on_string}: featureimportance.qza" name="ofeatureimportance"/>
148 <data format="qza" label="${tool.name} on ${on_string}: predictions.qza" name="opredictions"/> 151 <data format="qza" label="${tool.name} on ${on_string}: predictions.qza" name="opredictions"/>
149 <data format="html" label="${tool.name} on ${on_string}: modelsummary.qzv" name="omodelsummary"/> 152 <data format="html" label="${tool.name} on ${on_string}: modelsummary.qzv" name="omodelsummary"/>
150 <data format="html" label="${tool.name} on ${on_string}: accuracyresults.qzv" name="oaccuracyresults"/> 153 <data format="html" label="${tool.name} on ${on_string}: accuracyresults.qzv" name="oaccuracyresults"/>
211 model_summary : Visualization 214 model_summary : Visualization
212 Summarized parameter and (if enabled) feature selection information for 215 Summarized parameter and (if enabled) feature selection information for
213 the trained estimator. 216 the trained estimator.
214 accuracy_results : Visualization 217 accuracy_results : Visualization
215 Accuracy results visualization. 218 Accuracy results visualization.
219 probabilities : SampleData[Probabilities]
220 Predicted class probabilities for each input sample.
216 ]]></help> 221 ]]></help>
217 <macros> 222 <macros>
218 <import>qiime_citation.xml</import> 223 <import>qiime_citation.xml</import>
219 </macros> 224 </macros>
220 <expand macro="qiime_citation"/> 225 <expand macro="qiime_citation"/>