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comparison qiime2/qiime_sample-classifier_scatterplot.xml @ 4:71f124e02000 draft default tip

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Fixes
author florianbegusch
date Tue, 13 Aug 2019 07:40:25 -0400
parents 149432539226
children
comparison
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3:eda5df31da55 4:71f124e02000
8 qiime sample-classifier scatterplot 8 qiime sample-classifier scatterplot
9 9
10 --i-predictions=$ipredictions 10 --i-predictions=$ipredictions
11 --m-truth-column="$mtruthcolumn" 11 --m-truth-column="$mtruthcolumn"
12 12
13 --m-truth-file="$metadatafile" 13 --m-truth-file="$mtruthfile"
14 14
15 #if str($pmissingsamples) != 'None': 15 #if str($pmissingsamples) != 'None':
16 --p-missing-samples=$pmissingsamples 16 --p-missing-samples=$pmissingsamples
17 #end if 17 #end if
18 18
19 --o-visualization=ovisualization 19 --o-visualization=ovisualization
20 ; 20 ;
21 qiime tools export --input-path ovisualization.qzv --output-path out && mkdir -p '$ovisualization.files_path' 21 qiime tools export --input-path ovisualization.qzv --output-path out && mkdir -p '$ovisualization.files_path'
22 && cp -r out/* '$ovisualization.files_path' 22 && cp -r out/* '$ovisualization.files_path'
23 && mv '$ovisualization.files_path/index.html' '$ovisualization'; 23 && mv '$ovisualization.files_path/index.html' '$ovisualization';
24 cp mtruthfile.qza $mtruthfile
25 ]]></command> 24 ]]></command>
26 <inputs> 25 <inputs>
27 <param format="qza,no_unzip.zip" label="--i-predictions: ARTIFACT SampleData[RegressorPredictions] Predicted values to plot on y axis. Must be predictions of numeric data produced by a sample regressor. [required]" name="ipredictions" optional="False" type="data"/> 26 <param format="qza,no_unzip.zip" label="--i-predictions: ARTIFACT SampleData[RegressorPredictions] Predicted values to plot on y axis. Must be predictions of numeric data produced by a sample regressor. [required]" name="ipredictions" optional="False" type="data"/>
28 <param label="--m-truth-column: COLUMN MetadataColumn[Numeric] Metadata column (true values) to plot on x axis. [required]" name="mtruthcolumn" optional="False" type="text"/> 27 <param label="--m-truth-column: COLUMN MetadataColumn[Numeric] Metadata column (true values) to plot on x axis. [required]" name="mtruthcolumn" optional="False" type="text"/>
29 <param label="--p-missing-samples: " name="pmissingsamples" optional="True" type="select"> 28 <param label="--p-missing-samples: " name="pmissingsamples" optional="True" type="select">
30 <option selected="True" value="None">Selection is Optional</option> 29 <option selected="True" value="None">Selection is Optional</option>
31 <option value="error">error</option> 30 <option value="error">error</option>
32 <option value="ignore">ignore</option> 31 <option value="ignore">ignore</option>
33 </param> 32 </param>
34 33
35 <param label="--m-truth-file: Metadata file or artifact viewable as metadata." name="metadatafile" type="data" format="tabular,qza,no_unzip.zip" /> 34 <param label="--m-truth-file: Metadata file or artifact viewable as metadata." name="mtruthfile" type="data" format="tabular,qza,no_unzip.zip" />
36 35
37 </inputs> 36 </inputs>
38 <outputs> 37 <outputs>
39 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/> 38 <data format="html" label="${tool.name} on ${on_string}: visualization.qzv" name="ovisualization"/>
40 </outputs> 39 </outputs>