# HG changeset patch
# User greg
# Date 1503581470 14400
# Node ID f6156d2888a3ec6fca9168b71a5c91d3024e4190
# Parent  dda8772b5864d981c0e306367e56f2cbe6cff61a
Uploaded

diff -r dda8772b5864 -r f6156d2888a3 ideas.xml
--- a/ideas.xml	Thu Aug 24 09:28:26 2017 -0400
+++ b/ideas.xml	Thu Aug 24 09:31:10 2017 -0400
@@ -110,19 +110,20 @@
 && mv ./*.state $output_state
     ]]></command>
     <configfiles>
-        <configfile name="gen_prep_input_config"><![CDATA[#if str($input_type_cond.input_type) == "datasets":
+        <configfile name="gen_prep_input_config"><![CDATA[#import os
+#if str($input_type_cond.input_type) == "datasets":
     #if str($input_type_cond.cell_type_epigenetic_factor_cond.cell_type_epigenetic_factor) == "extract":
         #set $cell_type_epigenetic_factor_cond = $input_type_cond.cell_type_epigenetic_factor_cond
         #set $input_name_positions = $cell_type_epigenetic_factor_cond.input_name_positions
         #for $i in $cell_type_epigenetic_factor_cond.input:
-            #set $file_name_with_ext = $os.path.basename($i)
-            #set $file_name = $file_name_with_ext.split(".")[0]
+            #set file_name_with_ext = $os.path.basename($i)
+            #set file_name = $file_name_with_ext.split(".")[0]
             #if str($input_name_positions) == "cell_first":
-                #set $cell_type_name = $file_name.split("-")[0]
-                #set $epigenetic_factor_name = $file_name.split("-")[1]
+                #set cell_type_name = $file_name.split("-")[0]
+                #set epigenetic_factor_name = $file_name.split("-")[1]
             #else:
-                #set $cell_type_name = $file_name.split("-")[1]
-                #set $epigenetic_factor_name = $file_name.split("-")[0]
+                #set cell_type_name = $file_name.split("-")[1]
+                #set epigenetic_factor_name = $file_name.split("-")[0]
             #end if
 ${cell_type_name} ${epigenetic_factor_name} ${i}
         #end for