[Swift-commit] r2534 - SwiftApps/SIDGrid/swift/swift_scripts/freesurfer

[noreply at svn.ci.uchicago.edu]

Author: skenny
Date: 2009-02-13 14:23:45 -0600 (Fri, 13 Feb 2009)
New Revision: 2534

Modified:
   SwiftApps/SIDGrid/swift/swift_scripts/freesurfer/autorecon2_3.swift
Log:
fixed duplicate mapping

Modified: SwiftApps/SIDGrid/swift/swift_scripts/freesurfer/autorecon2_3.swift
===================================================================
--- SwiftApps/SIDGrid/swift/swift_scripts/freesurfer/autorecon2_3.swift	2009-02-13 13:54:41 UTC (rev 2533)
+++ SwiftApps/SIDGrid/swift/swift_scripts/freesurfer/autorecon2_3.swift	2009-02-13 20:23:45 UTC (rev 2534)
@@ -1,9 +1,9 @@
 type file {}						
 type mgzfile;
 
-(file subj_dir) autorecon2 (string subj file subj_dir_r1) { 			
+(file subj_dir) autorecon2 (string subj, file subj_dir_r1) { 			
     app {
-        autorecon2_BOTH @arg("user") subj @subj_dir;
+        autorecon2_BOTH @arg("user") subj @subj_dir_r1;
     }
 }
 
@@ -31,7 +31,7 @@
 # initial input subject dir should already be tar'ed 
 file subject_data_r1 <single_file_mapper;file=@strcat(subj, ".tar")>;
 
-file subject_data <single_file_mapper;file=@strcat(subj, ".tar")>;
+file subject_data <single_file_mapper;file=@strcat("results/",subj, ".tar")>;
 file subject_data2L <single_file_mapper;file=@strcat(subj,"L.tar")>;
 file subject_data2R <single_file_mapper;file=@strcat(subj,"R.tar")>;
 file subject_dataCOMPLETE <single_file_mapper;file=@strcat(subj,"COMPLETE.tar")>;