Mercurial > repos > lecorguille > camera_annotate

comparison abims_CAMERA_annotateDiffreport.xml @ 20:b979ba5888f7 draft

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"planemo upload commit 0b77855ab98a4940d58727271c28990969367f4d"
author workflow4metabolomics
date Wed, 18 Mar 2020 06:36:02 -0400
parents 01459b73daf9
children 3886548ea1d1
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19:01459b73daf9 20:b979ba5888f7
1 <tool id="abims_CAMERA_annotateDiffreport" name="CAMERA.annotate" version="2.2.5+camera@TOOL_VERSION@+galaxy0"> 1 <tool id="abims_CAMERA_annotateDiffreport" name="CAMERA.annotate" version="2.2.5+camera@TOOL_VERSION@+galaxy1">
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>
183 <data name="rdata_quick_true" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.quick.Rdata" from_work_dir="annotatediff.RData"> 183 <data name="rdata_quick_true" format="rdata.camera.quick" label="${image.name[:-6]}.annotate.quick.Rdata" from_work_dir="annotatediff.RData">
184 <filter>quick_block['quick'] == 'TRUE'</filter> 184 <filter>quick_block['quick'] == 'TRUE'</filter>
185 </data> 185 </data>
186 186
187 <data name="output_diffreport_eic_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_eic.zip" from_work_dir="eic.zip" > 187 <data name="output_diffreport_eic_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_eic.zip" from_work_dir="eic.zip" >
188 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['png2'] == 'zip'</filter> 188 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['eicmax'] > 0 and diffreport['options']['png2'] == 'zip'</filter>
189 </data> 189 </data>
190 <data name="output_diffreport_box_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_box.zip" from_work_dir="box.zip" > 190 <data name="output_diffreport_box_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_box.zip" from_work_dir="box.zip" >
191 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['png2'] == 'zip'</filter> 191 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['eicmax'] > 0 and diffreport['options']['png2'] == 'zip'</filter>
192 </data> 192 </data>
193 <collection name="output_diffreport_picture_pdf" type="list" label="${image.name[:-6]}.annotateDiffreport.pdf"> 193 <collection name="output_diffreport_picture_pdf" type="list" label="${image.name[:-6]}.annotateDiffreport.pdf">
194 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['png2'] == 'pdf'</filter> 194 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['eicmax'] > 0 and diffreport['options']['png2'] == 'pdf'</filter>
195 <discover_datasets pattern="__designation_and_ext__" directory="pdf" format="pdf" /> 195 <discover_datasets pattern="__designation_and_ext__" directory="pdf" format="pdf" />
196 </collection> 196 </collection>
197 197
198 <data name="output_diffreport_table_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_table.zip" from_work_dir="tabular.zip"> 198 <data name="output_diffreport_table_zip" format="zip" label="${image.name[:-6]}.annotateDiffreport_table.zip" from_work_dir="tabular.zip">
199 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['tabular2'] == 'zip'</filter> 199 <filter>diffreport['options']['option'] == 'show' and diffreport['options']['tabular2'] == 'zip'</filter>
434 Changelog/News 434 Changelog/News
435 -------------- 435 --------------
436 436
437 .. _News: https://bioconductor.org/packages/release/bioc/news/CAMERA/NEWS 437 .. _News: https://bioconductor.org/packages/release/bioc/news/CAMERA/NEWS
438 438
439 **Version 2.2.5+camera1.42.0+galaxy1 - 09/03/2020**
440
441 - BUGFIX: Fix the zip export of the pictures (eic and boxplot)
442
439 @HELP_CAMERA_NEWVERSION_1420@ 443 @HELP_CAMERA_NEWVERSION_1420@
440 444
441 **Version 2.2.5 - 09/04/2019** 445 **Version 2.2.5 - 09/04/2019**
442 446
443 - NEW: zip export are back for pictures (eic and boxplot) and diffreport tables 447 - NEW: zip export are back for pictures (eic and boxplot) and diffreport tables