Mercurial > repos > lecorguille > camera_annotate

comparison abims_CAMERA_annotateDiffreport.xml @ 25:4b9ab71be05e draft

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planemo upload commit cfad09eb4dd6b1439b7de6a0852cd8fa22210f58
author workflow4metabolomics
date Mon, 11 Sep 2023 22:40:34 +0000
parents 512c2b701d96
children 3d63a762954a
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24:512c2b701d96 25:4b9ab71be05e
1 <tool id="abims_CAMERA_annotateDiffreport" name="CAMERA.annotate" version="2.2.6+camera@TOOL_VERSION@-galaxy0"> 1 <tool id="abims_CAMERA_annotateDiffreport" name="CAMERA.annotate" version="2.2.6+camera@TOOL_VERSION@-galaxy@VERSION_SUFFIX@">
2 2
3 <description>CAMERA annotate function. Returns annotation results (isotope peaks, adducts and fragments) and a diffreport if more than one condition.</description> 3 <description>CAMERA annotate function. Returns annotation results (isotope peaks, adducts and fragments) and a diffreport if more than one condition.</description>
4 4
5 <macros> 5 <macros>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
201 <collection name="output_diffreport_table_collection" type="list" label="${image.name[:-6]}.annotateDiffreport_table"> 201 <collection name="output_diffreport_table_collection" type="list" label="${image.name[:-6]}.annotateDiffreport_table">
202 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['tabular2'] == 'datasetcollection'</filter> 202 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['tabular2'] == 'datasetcollection'</filter>
203 <discover_datasets pattern="__designation_and_ext__" directory="tabular" format="tabular" /> 203 <discover_datasets pattern="__designation_and_ext__" directory="tabular" format="tabular" />
204 </collection> 204 </collection>
205 </outputs> 205 </outputs>
206
207 <tests> 206 <tests>
208 <test> 207 <test expect_num_outputs="5">
209 <param name="image" value="faahKO-single-class.xset.merged.group.retcor.group.fillpeaks.RData"/> 208 <param name="image" value="faahKO-single-class.xset.merged.group.retcor.group.fillpeaks.RData"/>
210 <expand macro="test_annotate_diffreport"/> 209 <expand macro="test_annotate_diffreport"/>
211 <expand macro="test_annotate_quick_true"/> 210 <expand macro="test_annotate_quick_true"/>
212 <expand macro="test_file_load_single"/> 211 <expand macro="test_file_load_single"/>
213 <output name="variableMetadata" file="faahKO.xset.group.retcor.group.fillPeaks.annotate.variableMetadata.tsv" lines_diff="2" /> 212 <output name="variableMetadata" file="faahKO.xset.group.retcor.group.fillPeaks.annotate.variableMetadata.tsv" lines_diff="2" />
214 </test> 213 </test>
215 <test> 214 <test expect_num_outputs="5">
216 <param name="image" value="faahKO-single-class.xset.merged.group.retcor.group.fillpeaks.RData"/> 215 <param name="image" value="faahKO-single-class.xset.merged.group.retcor.group.fillpeaks.RData"/>
217 <expand macro="test_annotate_diffreport"/> 216 <expand macro="test_annotate_diffreport"/>
218 <conditional name="quick_block"> 217 <conditional name="quick_block">
219 <expand macro="test_annotate_quick_false" /> 218 <expand macro="test_annotate_quick_false" />
220 <section name="findadducts"> 219 <section name="findadducts">