# HG changeset patch
# User bornea
# Date 1472347766 14400
# Node ID 3c0ed536029ef35fcfe634ada92024b93f99dcb3
# Parent  5ad68d3a11cc8e050ab050e3bf0248f50f4fcc87
Uploaded

diff -r 5ad68d3a11cc -r 3c0ed536029e SAINT_preprocessing.xml
--- a/SAINT_preprocessing.xml	Sat Aug 27 21:13:21 2016 -0400
+++ b/SAINT_preprocessing.xml	Sat Aug 27 21:29:26 2016 -0400
@@ -1,7 +1,7 @@
 <tool id="SAINT_preprocessing_v5" name="SAINT pre-processing">
   <description></description>
   <command interpreter="python">
-    #if (str($type) == 'Scaffold'):
+    #if (str($type_select.type) == 'Scaffold'):
       SAINT_preprocessing.py $input $preybool $fasta_db $Inter_file $Prey_file 
       "
         #for $ba in $bait
@@ -11,7 +11,7 @@
         #end for
         "
       $Bait_file \$INSTALL_RUN_PATH/ $bait_bool $bait_file_in
-    #elif (str($type) == 'MaxQuant'):
+    #elif (str($type_select.type) == 'MaxQuant'):
       SAINT_preprocessing_mq_pep.py $input $preybool $fasta_db $Inter_file $Prey_file 
         "
         #for $ba in $bait
@@ -21,7 +21,7 @@
         #end for
         "
       $Bait_file \$INSTALL_RUN_PATH/ $bait_bool $bait_file_in
-    #elif (str($type) == 'Peptideshaker'):
+    #elif (str($type_select.type) == 'Peptideshaker'):
       Protein_report_processing.py "$input" $Bait_file $use_metric $fasta_db $preybool 
         "
         #for $ba in $bait
@@ -38,7 +38,7 @@
   </requirements>
   <inputs>
     <conditional name="type_select">
-      <param type="select" name="type" label="MaxQuant or Scaffold">
+      <param type="select" name="type" label="Data Source">
         <option value="MaxQuant">MaxQuant</option>
         <option value="Scaffold">Scaffold</option>
         <option value="Peptideshaker">Peptideshaker</option>