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comparison multigps.xml @ 43:61f2dedb6b85 draft

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Uploaded
author iuc
date Thu, 06 Apr 2017 11:26:41 -0400
parents b8995d2a0341
children 03cec12dafc3
comparison
equal deleted inserted replaced
42:b8995d2a0341 43:61f2dedb6b85
144 --diffp $rbec.diffp 144 --diffp $rbec.diffp
145 #end if 145 #end if
146 #end if 146 #end if
147 2>&1 147 2>&1
148 --out '$output_html.files_path' 148 --out '$output_html.files_path'
149 #if str($output_design_file) == 'yes': 149 #if str($save_design_file) == 'yes':
150 && cp '$build_design_file' '$output_design_file' 150 && cp '$build_design_file' '$output_design_file'
151 #end if 151 #end if
152 && mv $output_dir/*.counts '$replicates_counts' 152 && mv $output_dir/*.counts '$replicates_counts'
153 && mv $output_dir/*.bed '$output_bed' 153 && mv $output_dir/*.bed '$output_bed'
154 && mv $output_dir/*.html '$output_html' 154 && mv $output_dir/*.html '$output_html'
210 <when value="no" /> 210 <when value="no" />
211 </conditional> 211 </conditional>
212 <expand macro="cond_fixedreadcount" /> 212 <expand macro="cond_fixedreadcount" />
213 </repeat> 213 </repeat>
214 </repeat> 214 </repeat>
215 <param name="output_design_file" type="select" display="radio" label="Output design file?"> 215 <param name="save_design_file" type="select" display="radio" label="Output design file?">
216 <option value="no" selected="true">No</option> 216 <option value="no" selected="true">No</option>
217 <option value="yes">Yes</option> 217 <option value="yes">Yes</option>
218 </param> 218 </param>
219 <!-- Advanced options --> 219 <!-- Advanced options -->
220 <conditional name="advanced_options_cond"> 220 <conditional name="advanced_options_cond">
411 <when value="hide" /> 411 <when value="hide" />
412 </conditional> 412 </conditional>
413 </inputs> 413 </inputs>
414 <outputs> 414 <outputs>
415 <data name="output_design_file" format="tabular" label="${tool.name} (design file) on ${on_string}"> 415 <data name="output_design_file" format="tabular" label="${tool.name} (design file) on ${on_string}">
416 <filter>output_design_file == 'yes'</filter> 416 <filter>save_design_file == 'yes'</filter>
417 </data> 417 </data>
418 <data name="output_bed" format="bed" label="${tool.name} (bed) on ${on_string}"/> 418 <data name="output_bed" format="bed" label="${tool.name} (bed) on ${on_string}"/>
419 <data name="output_html" format="html" label="${tool.name} (html) on ${on_string}"/> 419 <data name="output_html" format="html" label="${tool.name} (html) on ${on_string}"/>
420 <data name="replicates_counts" format="tabular" label="${tool.name} (replicates counts) on ${on_string}"/> 420 <data name="replicates_counts" format="tabular" label="${tool.name} (replicates counts) on ${on_string}"/>
421 <data name="all_events_table" format="tabular" label="${tool.name} (all events table) on ${on_string}"/> 421 <data name="all_events_table" format="tabular" label="${tool.name} (all events table) on ${on_string}"/>