Added default values.

Author: chrisgorgo

examples/smri_ants_build_template_new.py

@@ -94,7 +94,7 @@
 6. Define the first iteration of template building
 """
 
-buildTemplateIteration1=antsRegistrationTemplateBuildSingleIterationWF('iteration01',"",'MULTI')
+buildTemplateIteration1=antsRegistrationTemplateBuildSingleIterationWF('iteration01')
 tbuilder.connect(initAvg, 'output_average_image', buildTemplateIteration1, 'InputSpec.fixed_image')
 tbuilder.connect(datasource, 'imageList', buildTemplateIteration1, 'InputSpec.images')
 tbuilder.connect(datasource, 'passiveImagesDictionariesList', buildTemplateIteration1, 'InputSpec.ListOfPassiveImagesDictionaries')
@@ -103,7 +103,7 @@
 7. Define the second iteration of template building
 """
 
-buildTemplateIteration2 = antsRegistrationTemplateBuildSingleIterationWF('iteration02',"",'MULTI')
+buildTemplateIteration2 = antsRegistrationTemplateBuildSingleIterationWF('iteration02')
 tbuilder.connect(buildTemplateIteration1, 'OutputSpec.template', buildTemplateIteration2, 'InputSpec.fixed_image')
 tbuilder.connect(datasource, 'imageList', buildTemplateIteration2, 'InputSpec.images')
 tbuilder.connect(datasource, 'passiveImagesDictionariesList', buildTemplateIteration2, 'InputSpec.ListOfPassiveImagesDictionaries')

nipype/workflows/smri/ants/ANTSBuildTemplate.py

@@ -96,7 +96,7 @@ def FlattenTransformAndImagesList(ListOfPassiveImagesDictionaries,transformation
 ##        'SINGLE_IMAGE' is quick shorthand when you are building an atlas with a single subject, then registration can
 ##                    be short-circuted
 ##        any other string indicates the normal mode that you would expect and replicates the shell script build_template_parallel.sh
-def ANTSTemplateBuildSingleIterationWF(iterationPhasePrefix,CLUSTER_QUEUE,mode='MULTI'):
+def ANTSTemplateBuildSingleIterationWF(iterationPhasePrefix='',CLUSTER_QUEUE='',mode='MULTI'):
 
     TemplateBuildSingleIterationWF = pe.Workflow(name = 'ANTSTemplateBuildSingleIterationWF_'+str(str(iterationPhasePrefix)) )
 

nipype/workflows/smri/ants/antsRegistrationBuildTemplate.py

@@ -109,7 +109,7 @@ def FlattenTransformAndImagesList(ListOfPassiveImagesDictionaries,transforms,inv
 ##        'SINGLE_IMAGE' is quick shorthand when you are building an atlas with a single subject, then registration can
 ##                    be short-circuted
 ##        any other string indicates the normal mode that you would expect and replicates the shell script build_template_parallel.sh
-def antsRegistrationTemplateBuildSingleIterationWF(iterationPhasePrefix,CLUSTER_QUEUE,mode='MULTI'):
+def antsRegistrationTemplateBuildSingleIterationWF(iterationPhasePrefix='',CLUSTER_QUEUE='',mode='MULTI'):
 
     TemplateBuildSingleIterationWF = pe.Workflow(name = 'antsRegistrationTemplateBuildSingleIterationWF_'+str(iterationPhasePrefix) )