@@ -282,7 +282,11 @@ class GTMPVCInputSpec(FSTraitedSpec):
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desc = "set the tissue fraction resolution parameter (def is 0.5)" ,
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)
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- rbv = traits .Bool (argstr = "--rbv" , requires = ["subjects_dir" ], desc = "perform Region-based Voxelwise (RBV) PVC" )
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+ rbv = traits .Bool (
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+ argstr = "--rbv" ,
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+ requires = ["subjects_dir" ],
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+ desc = "perform Region-based Voxelwise (RBV) PVC" ,
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+ )
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rbv_res = traits .Float (
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argstr = "--rbv-res %f" ,
@@ -293,7 +297,8 @@ class GTMPVCInputSpec(FSTraitedSpec):
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traits .Float ,
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traits .List (traits .String ),
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argstr = "--mg %f %s..." ,
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- desc = "gmthresh RefId1 RefId2 ...: perform Mueller-Gaertner PVC, gmthresh is min gm pvf bet 0 and 1" )
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+ desc = "gmthresh RefId1 RefId2 ...: perform Mueller-Gaertner PVC, gmthresh is min gm pvf bet 0 and 1" ,
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+ )
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mg_ref_cerebral_wm = traits .Bool (
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argstr = "--mg-ref-cerebral-wm" , desc = " set MG RefIds to 2 and 41"
@@ -369,8 +374,16 @@ class GTMPVCInputSpec(FSTraitedSpec):
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save_yhat0 = traits .Bool (argstr = "--save-yhat0" , desc = "save signal estimate (yhat)" )
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optimization_schema = traits .Enum (
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- "3D" , "2D" , "1D" , "3D_MB" , "2D_MB" , "1D_MB" , "MBZ" , "MB3" ,
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- argstr = "--opt %s" , desc = "opt : optimization schema for applying adaptive GTM"
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+ "3D" ,
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+ "2D" ,
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+ "1D" ,
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+ "3D_MB" ,
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+ "2D_MB" ,
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+ "1D_MB" ,
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+ "MBZ" ,
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+ "MB3" ,
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+ argstr = "--opt %s" ,
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+ desc = "opt : optimization schema for applying adaptive GTM" ,
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)
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opt_tol = traits .Tuple (
@@ -479,7 +492,19 @@ class GTMPVC(FSCommand):
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def _format_arg (self , name , spec , val ):
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if name == 'optimization_schema' :
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- return spec .argstr % {"3D" :0 , "2D" :1 , "1D" :2 , "3D_MB" :3 , "2D_MB" :4 , "1D_MB" :5 , "MBZ" :6 , "MB3" :7 }[val ]
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+ return (
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+ spec .argstr
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+ % {
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+ "3D" : 0 ,
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+ "2D" : 1 ,
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+ "1D" : 2 ,
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+ "3D_MB" : 3 ,
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+ "2D_MB" : 4 ,
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+ "1D_MB" : 5 ,
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+ "MBZ" : 6 ,
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+ "MB3" : 7 ,
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+ }[val ]
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+ )
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return super (GTMPVC , self )._format_arg (name , spec , val )
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def _list_outputs (self ):
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