ENH: Add --initcost option to BBRegister

Author: effigies

nipype/interfaces/freesurfer/preprocess.py

@@ -1159,6 +1159,8 @@ class BBRegisterInputSpec(FSTraitedSpec):
                                  desc="write the transformation matrix in LTA format")
     registered_file = traits.Either(traits.Bool, File, argstr='--o %s',
                                     desc='output warped sourcefile either True or filename')
+    init_cost_file = traits.Either(traits.Bool, File, argstr='--initcost %s',
+                                   desc='output initial registration cost file')
 
 
 class BBRegisterInputSpec6(BBRegisterInputSpec):
@@ -1175,6 +1177,7 @@ class BBRegisterOutputSpec(TraitedSpec):
     out_fsl_file = File(desc='Output FLIRT-style registration file')
     out_lta_file = File(desc='Output LTA-style registration file')
     min_cost_file = File(exists=True, desc='Output registration minimum cost file')
+    init_cost_file = File(exists=True, desc='Output initial registration cost file')
     registered_file = File(desc='Registered and resampled source file')
 
 

nipype/interfaces/freesurfer/tests/test_BBRegister.py

@@ -12,6 +12,7 @@ def test_BBRegister_inputs():
         fsldof=dict(argstr='--fsl-dof %d',),
         ignore_exception=dict(nohash=True, usedefault=True,),
         init=dict(argstr='--init-%s', mandatory=True, xor=['init_reg_file'],),
+        init_cost_file=dict(argstr='--initcost %s',),
         init_reg_file=dict(argstr='--init-reg %s', mandatory=True, xor=['init'],),
         intermediate_file=dict(argstr='--int %s',),
         out_fsl_file=dict(argstr='--fslmat %s',),
@@ -36,6 +37,7 @@ def test_BBRegister_inputs():
         ignore_exception=dict(nohash=True, usedefault=True,),
         init=dict(argstr='--init-%s', xor=['init_reg_file'],),
         init_reg_file=dict(argstr='--init-reg %s', xor=['init'],),
+        init_cost_file=dict(argstr='--initcost %s',),
         intermediate_file=dict(argstr='--int %s',),
         out_fsl_file=dict(argstr='--fslmat %s',),
         out_lta_file=dict(argstr='--lta %s', min_ver='5.2.0',),
@@ -62,7 +64,8 @@ def test_BBRegister_inputs():
 
 
 def test_BBRegister_outputs():
-    output_map = dict(min_cost_file=dict(),
+    output_map = dict(init_cost_file=dict(),
+                      min_cost_file=dict(),
                       out_fsl_file=dict(),
                       out_lta_file=dict(),
                       out_reg_file=dict(),