Mercurial > repos > lecorguille > camera_annotate

comparison abims_CAMERA_annotateDiffreport.xml @ 32:23e33e354bb7 draft

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planemo upload commit 964980509aaa30c196b7ff20dbb78293f8286f06
author lecorguille
date Wed, 05 Apr 2017 07:36:44 -0400
parents fce12d692a41
children 3b2b642542f6
comparison
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31:582764d9e292 32:23e33e354bb7
17 nSlaves \${GALAXY_SLOTS:-1} 17 nSlaves \${GALAXY_SLOTS:-1}
18 18
19 ## output 19 ## output
20 variableMetadataOutput '$variableMetadata' 20 variableMetadataOutput '$variableMetadata'
21 dataMatrixOutput '$datamatrix' 21 dataMatrixOutput '$datamatrix'
22 xsetRdataOutput '$rdata'
23 22
24 ## groupFWHM 23 ## groupFWHM
25 sigma $groupfwhm.sigma 24 sigma $groupfwhm.sigma
26 perfwhm $groupfwhm.perfwhm 25 perfwhm $groupfwhm.perfwhm
27 26
34 maxiso $findisotopes.maxiso 33 maxiso $findisotopes.maxiso
35 minfrac $findisotopes.minfrac 34 minfrac $findisotopes.minfrac
36 35
37 quick $quick_block.quick 36 quick $quick_block.quick
38 #if $quick_block.quick == "FALSE": 37 #if $quick_block.quick == "FALSE":
38 xsetRdataOutput '$rdata_quick_false'
39 39
40 ## groupcorr 40 ## groupcorr
41 cor_eic_th $quick_block.groupcorr.cor_eic_th 41 cor_eic_th $quick_block.groupcorr.cor_eic_th
42 graphMethod $quick_block.groupcorr.graphMethod 42 graphMethod $quick_block.groupcorr.graphMethod
43 pval $quick_block.groupcorr.pval 43 pval $quick_block.groupcorr.pval
51 #if $quick_block.findadducts.rules_block.rules_select == "FALSE": 51 #if $quick_block.findadducts.rules_block.rules_select == "FALSE":
52 multiplier $quick_block.findadducts.rules_block.multiplier 52 multiplier $quick_block.findadducts.rules_block.multiplier
53 #else 53 #else
54 rules $quick_block.findadducts.rules_block.rules 54 rules $quick_block.findadducts.rules_block.rules
55 #end if 55 #end if
56 #else
57 xsetRdataOutput '$rdata_quick_true'
56 #end if 58 #end if
57 59
58 #if $diffreport.options.option == "show": 60 #if $diffreport.options.option == "show":
59 ## diffreport 61 ## diffreport
60 runDiffreport TRUE 62 runDiffreport TRUE
170 </inputs> 172 </inputs>
171 173
172 <outputs> 174 <outputs>
173 <data name="variableMetadata" format="tabular" label="${image.name[:-6]}.annotate.variableMetadata.tsv" /> 175 <data name="variableMetadata" format="tabular" label="${image.name[:-6]}.annotate.variableMetadata.tsv" />
174 <data name="datamatrix" format="tabular" label="${image.name[:-6]}.annotate.dataMatrix.tsv" /> 176 <data name="datamatrix" format="tabular" label="${image.name[:-6]}.annotate.dataMatrix.tsv" />
175 <data name="rdata" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.${$quick_block.findadducts.polarity}.Rdata" > 177 <data name="rdata_quick_false" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.${$quick_block.findadducts.polarity}.Rdata" >
176 <filter>(quick_block.quick == "FALSE")</filter> 178 <filter>quick_block['quick'] == 'FALSE'</filter>
177 <change_format> 179 <change_format>
178 <when input="quick_block.findadducts.polarity" value="positive" format="rdata.camera.positive" /> 180 <when input="quick_block.findadducts.polarity" value="positive" format="rdata.camera.positive" />
179 <when input="quick_block.findadducts.polarity" value="negative" format="rdata.camera.negative" /> 181 <when input="quick_block.findadducts.polarity" value="negative" format="rdata.camera.negative" />
180 </change_format> 182 </change_format>
181 </data> 183 </data>
182 <data name="rdata" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.quick.Rdata" > 184 <data name="rdata_quick_true" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.quick.Rdata" >
183 <filter>(quick_block.quick == "TRUE")</filter> 185 <filter>quick_block['quick'] == 'TRUE'</filter>
184 </data> 186 </data>
185 <data name="output_diffreport" format="text" label="${image.name[:-6]}.annotateDiffreport" hidden="true"> 187 <data name="output_diffreport" format="text" label="${image.name[:-6]}.annotateDiffreport" hidden="true">
186 <filter>(diffreport.options.option == "show")</filter> 188 <filter>diffreport['options']['option'] == 'show'</filter>
187 </data> 189 </data>
188 </outputs> 190 </outputs>
189 191
190 <tests> 192 <tests>
191 <test> 193 <test>