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comparison multigps.xml @ 14:ad506459969c draft

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Uploaded
author iuc
date Tue, 04 Apr 2017 16:49:55 -0400
parents 9c0a848e33b7
children 1374e0ff61b1
comparison
equal deleted inserted replaced
13:9c0a848e33b7 14:ad506459969c
10 <![CDATA[ 10 <![CDATA[
11 #set output_dir = $output_html.files_path 11 #set output_dir = $output_html.files_path
12 mkdir -p $output_dir && 12 mkdir -p $output_dir &&
13 multigps 13 multigps
14 ## General options 14 ## General options
15 --design '$design_file'
15 ## Append .txt extensions to events hrefs 16 ## Append .txt extensions to events hrefs
16 ## in output dataset so files will render 17 ## in output dataset so files will render
17 ## in the browser. 18 ## in the browser.
18 --eventsaretxt 19 --eventsaretxt
19 ## Do not run the parallel version of meme. 20 ## Do not run the parallel version of meme.
170 #for $control_items in condition_items['control_repeat']: 171 #for $control_items in condition_items['control_repeat']:
171 #set control = $control_items['control'] 172 #set control = $control_items['control']
172 #set experiment_type = $control_items['experiment_type'] 173 #set experiment_type = $control_items['experiment_type']
173 #set line = str($control_items) + '\t' + 'Control' + '\t' + str($control.ext.upper()) + '\t' + str($cond_i) 174 #set line = str($control_items) + '\t' + 'Control' + '\t' + str($control.ext.upper()) + '\t' + str($cond_i)
174 #set specify_replicate_name_cond = $control_items['specify_replicate_name_cond'] 175 #set specify_replicate_name_cond = $control_items['specify_replicate_name_cond']
175 #set specify_replicate_name = $specify_replicate_name_cond.specify_replicate_name 176 #set specify_replicate_name = $specify_replicate_name_cond['specify_replicate_name']
176 #if str($specify_replicate_name) == 'yes': 177 #if str($specify_replicate_name) == 'yes':
177 #set line = $line + '\t' + str($specify_replicate_name_cond['replicate_name']) 178 #set line = $line + '\t' + str($specify_replicate_name_cond['replicate_name'])
178 #end if 179 #end if
179 #set line = $line + '\t' + str($experiment_type) 180 #set line = $line + '\t' + str($experiment_type)
180 #set fixedreadcount_cond = $control_items['fixedreadcount_cond'] 181 #set fixedreadcount_cond = $control_items['fixedreadcount_cond']