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comparison ideas.xml @ 82:f6156d2888a3 draft

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Uploaded
author greg
date Thu, 24 Aug 2017 09:31:10 -0400
parents dda8772b5864
children 09f07994247f
comparison
equal deleted inserted replaced
81:dda8772b5864 82:f6156d2888a3
108 && mv ./*.para $output_para 108 && mv ./*.para $output_para
109 && mv ./*.profile $output_profile 109 && mv ./*.profile $output_profile
110 && mv ./*.state $output_state 110 && mv ./*.state $output_state
111 ]]></command> 111 ]]></command>
112 <configfiles> 112 <configfiles>
113 <configfile name="gen_prep_input_config"><![CDATA[#if str($input_type_cond.input_type) == "datasets": 113 <configfile name="gen_prep_input_config"><![CDATA[#import os
114 #if str($input_type_cond.input_type) == "datasets":
114 #if str($input_type_cond.cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor) == "extract": 115 #if str($input_type_cond.cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor) == "extract":
115 #set $cell_type_epigenetic_factor_cond = $input_type_cond.cell_type_epigenetic_factor_cond 116 #set $cell_type_epigenetic_factor_cond = $input_type_cond.cell_type_epigenetic_factor_cond
116 #set $input_name_positions = $cell_type_epigenetic_factor_cond.input_name_positions 117 #set $input_name_positions = $cell_type_epigenetic_factor_cond.input_name_positions
117 #for $i in $cell_type_epigenetic_factor_cond.input: 118 #for $i in $cell_type_epigenetic_factor_cond.input:
118 #set $file_name_with_ext = $os.path.basename($i) 119 #set file_name_with_ext = $os.path.basename($i)
119 #set $file_name = $file_name_with_ext.split(".")[0] 120 #set file_name = $file_name_with_ext.split(".")[0]
120 #if str($input_name_positions) == "cell_first": 121 #if str($input_name_positions) == "cell_first":
121 #set $cell_type_name = $file_name.split("-")[0] 122 #set cell_type_name = $file_name.split("-")[0]
122 #set $epigenetic_factor_name = $file_name.split("-")[1] 123 #set epigenetic_factor_name = $file_name.split("-")[1]
123 #else: 124 #else:
124 #set $cell_type_name = $file_name.split("-")[1] 125 #set cell_type_name = $file_name.split("-")[1]
125 #set $epigenetic_factor_name = $file_name.split("-")[0] 126 #set epigenetic_factor_name = $file_name.split("-")[0]
126 #end if 127 #end if
127 ${cell_type_name} ${epigenetic_factor_name} ${i} 128 ${cell_type_name} ${epigenetic_factor_name} ${i}
128 #end for 129 #end for
129 #else: 130 #else:
130 #for $input_items in $input_type_cond.cell_type_epigenetic_factor_cond.input_repeat: 131 #for $input_items in $input_type_cond.cell_type_epigenetic_factor_cond.input_repeat: