# HG changeset patch
# User greg
# Date 1515783552 18000
# Node ID 7efdaa2e0bf1eb5b21dde9654e18eadca47f0967
# Parent  f70a86b6c6e0c1908eedaf785e2c4d60e7244027
Uploaded

diff -r f70a86b6c6e0 -r 7efdaa2e0bf1 ideas.xml
--- a/ideas.xml	Fri Jan 12 13:46:24 2018 -0500
+++ b/ideas.xml	Fri Jan 12 13:59:12 2018 -0500
@@ -179,9 +179,13 @@
     #end if
 #end if
 #if str($perform_training) == "yes":
+    #set heatmaps_input_dir = $output_training_dir
     && mv ./*.para0 '$output_training_dir'
+    && for file in $output_training_dir/*.para0 do mv "$file" "${file/.para0/para}" done
     && mv ./*.profile0 '$output_training_dir'
+    && for file in $output_training_dir/*.profile0 do mv "$file" "${file/.profile0/profile}" done
 #else:
+    #set heatmaps_input_dir = $output_txt_dir
     && mv ./*.cluster '$output_txt_dir'
     && mv ./*.para '$output_txt_dir'
     && mv ./*.profile '$output_txt_dir'
@@ -189,7 +193,7 @@
 #end if
 #if str($output_heatmaps) == "yes":
     && Rscript '$__tool_directory__/create_heatmaps.R'
-    --input_dir '$output_txt_dir'
+    --input_dir '$heatmaps_input_dir'
     --output_dir '$output_pdf_dir'
     --script_dir '$__tool_directory__'
 #end if