[Swift-commit] r2628 - SwiftApps/SIDGrid/swift/swift_scripts/afni

[noreply at svn.ci.uchicago.edu]

Author: skenny
Date: 2009-02-28 20:58:14 -0600 (Sat, 28 Feb 2009)
New Revision: 2628

Added:
   SwiftApps/SIDGrid/swift/swift_scripts/afni/GAvol2surf.swift
Log:
for the GAproject surface projections

Added: SwiftApps/SIDGrid/swift/swift_scripts/afni/GAvol2surf.swift
===================================================================
--- SwiftApps/SIDGrid/swift/swift_scripts/afni/GAvol2surf.swift	                        (rev 0)
+++ SwiftApps/SIDGrid/swift/swift_scripts/afni/GAvol2surf.swift	2009-03-01 02:58:14 UTC (rev 2628)
@@ -0,0 +1,38 @@
+#--- this is for the GAproject surface projections
+#--- testing SUMA obj
+type file{}
+
+type AFNI_obj{
+    file HEAD;
+    file BRIK;
+}
+
+type SUMA_obj{
+    file smoothwm;
+    file pial;
+}
+
+app (file out_1d) AFNI_Vol2Surf (file spec_file, SUMA_obj surface, string map, AFNI_obj surfvol, AFNI_obj grid_parent){
+    AFNI_3dVol2Surf "-spec" @spec_file "-surf_A" @surface.smoothwm "-surf_B" @surface.pial
+    "-map_func" map "-f_steps" 15 "-f_index" "voxels" "-oob_index" "-1" "-oob_value" 0 "-no_headers" "-outcols_NSD_format"
+    "-sv" @surfvol.BRIK "-grid_parent" @grid_parent.BRIK "-out_1D" @filename(out_1d);
+}
+
+
+string mapFunctions[] = ["ave"];
+string hemis[] = ["lh","rh"];
+string conditions[] = ["speech"];
+
+foreach map in mapFunctions{
+    foreach h in hemis{
+        foreach cc in conditions{
+            file spec_file<single_file_mapper; file=@strcat("inputs/011_",h,".spec")>;
+            SUMA_obj surface<simple_mapper; location="inputs", prefix=@strcat(h,"."), suffix=".asc">;
+            AFNI_obj surfvol<simple_mapper; location="inputs", prefix=@strcat("011_SurfVol_Alnd_Exp+orig.")>;
+            AFNI_obj grid_parent<simple_mapper; location="inputs", prefix=@strcat(cc,"InclusiveCrit+orig.")>;
+            file output1D<single_file_mapper; file=@strcat("outputsTEST/s011_",h,"_",cc,"InclusiveCrit",map,".1D")>;
+            output1D = AFNI_Vol2Surf(spec_file, surface, map, surfvol, grid_parent);
+        }
+    }
+}
+