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comparison ideas.xml @ 75:c79952f352db draft

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author greg
date Thu, 24 Aug 2017 08:41:22 -0400
parents f22ea87463bd
children a56155dbc1ae
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74:f22ea87463bd 75:c79952f352db
19 #if str($input_type) == "datasets": 19 #if str($input_type) == "datasets":
20 #set cell_type_epigenetic_factor_cond = $input_type_cond.cell_type_epigenetic_factor_cond 20 #set cell_type_epigenetic_factor_cond = $input_type_cond.cell_type_epigenetic_factor_cond
21 #set cell_type_epigenetic_factor = $cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor 21 #set cell_type_epigenetic_factor = $cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor
22 #set specify_genomic_window_cond = $input_type_cond.specify_genomic_window_cond 22 #set specify_genomic_window_cond = $input_type_cond.specify_genomic_window_cond
23 #set specify_genomic_window = $specify_genomic_window_cond.specify_genomic_window 23 #set specify_genomic_window = $specify_genomic_window_cond.specify_genomic_window
24 cp '$gen_prep_input_config' $prep_input_config && 24 cp $gen_prep_input_config $prep_input_config &&
25 prepMat 25 prepMat
26 $prep_input_config 26 $prep_input_config
27 #if str($specify_genomic_window) == 'yes': 27 #if str($specify_genomic_window) == 'yes':
28 -bed '$specify_genomic_window_cond.bed_input' 28 -bed '$specify_genomic_window_cond.bed_input'
29 #else: 29 #else:
109 && mv ./*.profile $output_profile 109 && mv ./*.profile $output_profile
110 && mv ./*.state $output_state 110 && mv ./*.state $output_state
111 ]]></command> 111 ]]></command>
112 <configfiles> 112 <configfiles>
113 <configfile name="gen_prep_input_config"><![CDATA[ 113 <configfile name="gen_prep_input_config"><![CDATA[
114 #if $input_type_cond == "datasets" and $input_type_cond['cell_type_epigenetic_factor_cond']['cell_type_epigenetic_factor'] == "manual": 114 #if str($input_type_cond) == "datasets" and str($input_type_cond.cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor) == "manual":
115 #for $input_items in $input_type_cond['cell_type_epigenetic_factor_cond']['input_repeat']: 115 #for $input_items in $input_type_cond.cell_type_epigenetic_factor_cond.input_repeat:
116 ${input_items.cell_type_name} ${input_items.epigenetic_factor_name} ${input_items.input} 116 ${input_items.cell_type_name} ${input_items.epigenetic_factor_name} ${input_items.input}
117 #end for 117 #end for
118 #end if]]></configfile> 118 #end if]]></configfile>
119 </configfiles> 119 </configfiles>
120 <inputs> 120 <inputs>