Merge pull request #520 from chrisfilo/fix/slicer_path

chrisgorgo · chrisgorgo · commit 6e97b3084800 · 2013-05-08T00:40:49.000-07:00
Removed hardcoded path to slicer.
diff --git a/nipype/interfaces/slicer/converters.py b/nipype/interfaces/slicer/converters.py
@@ -41,7 +41,7 @@ class DicomToNrrdConverter(SEMLikeCommandLine):
 
     input_spec = DicomToNrrdConverterInputSpec
     output_spec = DicomToNrrdConverterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DicomToNrrdConverter "
+    _cmd = "DicomToNrrdConverter "
     _outputs_filenames = {'outputDirectory':'outputDirectory'}
 
 
@@ -74,5 +74,5 @@ class OrientScalarVolume(SEMLikeCommandLine):
 
     input_spec = OrientScalarVolumeInputSpec
     output_spec = OrientScalarVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch OrientScalarVolume "
+    _cmd = "OrientScalarVolume "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/diffusion/diffusion.py b/nipype/interfaces/slicer/diffusion/diffusion.py
@@ -58,7 +58,7 @@ class ResampleDTIVolume(SEMLikeCommandLine):
 
     input_spec = ResampleDTIVolumeInputSpec
     output_spec = ResampleDTIVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ResampleDTIVolume "
+    _cmd = "ResampleDTIVolume "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -103,7 +103,7 @@ class DWIRicianLMMSEFilter(SEMLikeCommandLine):
 
     input_spec = DWIRicianLMMSEFilterInputSpec
     output_spec = DWIRicianLMMSEFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DWIRicianLMMSEFilter "
+    _cmd = "DWIRicianLMMSEFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -153,7 +153,7 @@ class TractographyLabelMapSeeding(SEMLikeCommandLine):
 
     input_spec = TractographyLabelMapSeedingInputSpec
     output_spec = TractographyLabelMapSeedingOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch TractographyLabelMapSeeding "
+    _cmd = "TractographyLabelMapSeeding "
     _outputs_filenames = {'OutputFibers':'OutputFibers.vtk','outputdirectory':'outputdirectory'}
 
 
@@ -192,7 +192,7 @@ class DWIJointRicianLMMSEFilter(SEMLikeCommandLine):
 
     input_spec = DWIJointRicianLMMSEFilterInputSpec
     output_spec = DWIJointRicianLMMSEFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DWIJointRicianLMMSEFilter "
+    _cmd = "DWIJointRicianLMMSEFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -228,7 +228,7 @@ class DiffusionWeightedVolumeMasking(SEMLikeCommandLine):
 
     input_spec = DiffusionWeightedVolumeMaskingInputSpec
     output_spec = DiffusionWeightedVolumeMaskingOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DiffusionWeightedVolumeMasking "
+    _cmd = "DiffusionWeightedVolumeMasking "
     _outputs_filenames = {'outputBaseline':'outputBaseline.nii','thresholdMask':'thresholdMask.nii'}
 
 
@@ -261,7 +261,7 @@ class DTIimport(SEMLikeCommandLine):
 
     input_spec = DTIimportInputSpec
     output_spec = DTIimportOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DTIimport "
+    _cmd = "DTIimport "
     _outputs_filenames = {'outputTensor':'outputTensor.nii'}
 
 
@@ -302,7 +302,7 @@ class DWIToDTIEstimation(SEMLikeCommandLine):
 
     input_spec = DWIToDTIEstimationInputSpec
     output_spec = DWIToDTIEstimationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DWIToDTIEstimation "
+    _cmd = "DWIToDTIEstimation "
     _outputs_filenames = {'outputTensor':'outputTensor.nii','outputBaseline':'outputBaseline.nii'}
 
 
@@ -335,7 +335,7 @@ class DiffusionTensorScalarMeasurements(SEMLikeCommandLine):
 
     input_spec = DiffusionTensorScalarMeasurementsInputSpec
     output_spec = DiffusionTensorScalarMeasurementsOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DiffusionTensorScalarMeasurements "
+    _cmd = "DiffusionTensorScalarMeasurements "
     _outputs_filenames = {'outputScalar':'outputScalar.nii'}
 
 
@@ -367,5 +367,5 @@ class DTIexport(SEMLikeCommandLine):
 
     input_spec = DTIexportInputSpec
     output_spec = DTIexportOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DTIexport "
+    _cmd = "DTIexport "
     _outputs_filenames = {'outputFile':'outputFile'}
diff --git a/nipype/interfaces/slicer/filtering/arithmetic.py b/nipype/interfaces/slicer/filtering/arithmetic.py
@@ -36,7 +36,7 @@ class MultiplyScalarVolumes(SEMLikeCommandLine):
 
     input_spec = MultiplyScalarVolumesInputSpec
     output_spec = MultiplyScalarVolumesOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch MultiplyScalarVolumes "
+    _cmd = "MultiplyScalarVolumes "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -71,7 +71,7 @@ class MaskScalarVolume(SEMLikeCommandLine):
 
     input_spec = MaskScalarVolumeInputSpec
     output_spec = MaskScalarVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch MaskScalarVolume "
+    _cmd = "MaskScalarVolume "
     _outputs_filenames = {'OutputVolume':'OutputVolume.nii'}
 
 
@@ -105,7 +105,7 @@ class SubtractScalarVolumes(SEMLikeCommandLine):
 
     input_spec = SubtractScalarVolumesInputSpec
     output_spec = SubtractScalarVolumesOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch SubtractScalarVolumes "
+    _cmd = "SubtractScalarVolumes "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -139,7 +139,7 @@ class AddScalarVolumes(SEMLikeCommandLine):
 
     input_spec = AddScalarVolumesInputSpec
     output_spec = AddScalarVolumesOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch AddScalarVolumes "
+    _cmd = "AddScalarVolumes "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -174,5 +174,5 @@ class CastScalarVolume(SEMLikeCommandLine):
 
     input_spec = CastScalarVolumeInputSpec
     output_spec = CastScalarVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch CastScalarVolume "
+    _cmd = "CastScalarVolume "
     _outputs_filenames = {'OutputVolume':'OutputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/checkerboardfilter.py b/nipype/interfaces/slicer/filtering/checkerboardfilter.py
@@ -36,5 +36,5 @@ class CheckerBoardFilter(SEMLikeCommandLine):
 
     input_spec = CheckerBoardFilterInputSpec
     output_spec = CheckerBoardFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch CheckerBoardFilter "
+    _cmd = "CheckerBoardFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/denoising.py b/nipype/interfaces/slicer/filtering/denoising.py
@@ -39,7 +39,7 @@ class GradientAnisotropicDiffusion(SEMLikeCommandLine):
 
     input_spec = GradientAnisotropicDiffusionInputSpec
     output_spec = GradientAnisotropicDiffusionOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch GradientAnisotropicDiffusion "
+    _cmd = "GradientAnisotropicDiffusion "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -78,7 +78,7 @@ class CurvatureAnisotropicDiffusion(SEMLikeCommandLine):
 
     input_spec = CurvatureAnisotropicDiffusionInputSpec
     output_spec = CurvatureAnisotropicDiffusionOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch CurvatureAnisotropicDiffusion "
+    _cmd = "CurvatureAnisotropicDiffusion "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -111,7 +111,7 @@ class GaussianBlurImageFilter(SEMLikeCommandLine):
 
     input_spec = GaussianBlurImageFilterInputSpec
     output_spec = GaussianBlurImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch GaussianBlurImageFilter "
+    _cmd = "GaussianBlurImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -144,5 +144,5 @@ class MedianImageFilter(SEMLikeCommandLine):
 
     input_spec = MedianImageFilterInputSpec
     output_spec = MedianImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch MedianImageFilter "
+    _cmd = "MedianImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/extractskeleton.py b/nipype/interfaces/slicer/filtering/extractskeleton.py
@@ -38,5 +38,5 @@ class ExtractSkeleton(SEMLikeCommandLine):
 
     input_spec = ExtractSkeletonInputSpec
     output_spec = ExtractSkeletonOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ExtractSkeleton "
+    _cmd = "ExtractSkeleton "
     _outputs_filenames = {'OutputImageFileName':'OutputImageFileName.nii'}
diff --git a/nipype/interfaces/slicer/filtering/histogrammatching.py b/nipype/interfaces/slicer/filtering/histogrammatching.py
@@ -44,5 +44,5 @@ class HistogramMatching(SEMLikeCommandLine):
 
     input_spec = HistogramMatchingInputSpec
     output_spec = HistogramMatchingOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch HistogramMatching "
+    _cmd = "HistogramMatching "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/imagelabelcombine.py b/nipype/interfaces/slicer/filtering/imagelabelcombine.py
@@ -34,5 +34,5 @@ class ImageLabelCombine(SEMLikeCommandLine):
 
     input_spec = ImageLabelCombineInputSpec
     output_spec = ImageLabelCombineOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ImageLabelCombine "
+    _cmd = "ImageLabelCombine "
     _outputs_filenames = {'OutputLabelMap':'OutputLabelMap.nii'}
diff --git a/nipype/interfaces/slicer/filtering/morphology.py b/nipype/interfaces/slicer/filtering/morphology.py
@@ -44,7 +44,7 @@ class GrayscaleGrindPeakImageFilter(SEMLikeCommandLine):
 
     input_spec = GrayscaleGrindPeakImageFilterInputSpec
     output_spec = GrayscaleGrindPeakImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch GrayscaleGrindPeakImageFilter "
+    _cmd = "GrayscaleGrindPeakImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -84,5 +84,5 @@ class GrayscaleFillHoleImageFilter(SEMLikeCommandLine):
 
     input_spec = GrayscaleFillHoleImageFilterInputSpec
     output_spec = GrayscaleFillHoleImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch GrayscaleFillHoleImageFilter "
+    _cmd = "GrayscaleFillHoleImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/n4itkbiasfieldcorrection.py b/nipype/interfaces/slicer/filtering/n4itkbiasfieldcorrection.py
@@ -45,5 +45,5 @@ class N4ITKBiasFieldCorrection(SEMLikeCommandLine):
 
     input_spec = N4ITKBiasFieldCorrectionInputSpec
     output_spec = N4ITKBiasFieldCorrectionOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch N4ITKBiasFieldCorrection "
+    _cmd = "N4ITKBiasFieldCorrection "
     _outputs_filenames = {'outputimage':'outputimage.nii','outputbiasfield':'outputbiasfield.nii'}
diff --git a/nipype/interfaces/slicer/filtering/resamplescalarvectordwivolume.py b/nipype/interfaces/slicer/filtering/resamplescalarvectordwivolume.py
@@ -60,5 +60,5 @@ class ResampleScalarVectorDWIVolume(SEMLikeCommandLine):
 
     input_spec = ResampleScalarVectorDWIVolumeInputSpec
     output_spec = ResampleScalarVectorDWIVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ResampleScalarVectorDWIVolume "
+    _cmd = "ResampleScalarVectorDWIVolume "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/thresholdscalarvolume.py b/nipype/interfaces/slicer/filtering/thresholdscalarvolume.py
@@ -39,5 +39,5 @@ class ThresholdScalarVolume(SEMLikeCommandLine):
 
     input_spec = ThresholdScalarVolumeInputSpec
     output_spec = ThresholdScalarVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ThresholdScalarVolume "
+    _cmd = "ThresholdScalarVolume "
     _outputs_filenames = {'OutputVolume':'OutputVolume.nii'}
diff --git a/nipype/interfaces/slicer/filtering/votingbinaryholefillingimagefilter.py b/nipype/interfaces/slicer/filtering/votingbinaryholefillingimagefilter.py
@@ -38,5 +38,5 @@ class VotingBinaryHoleFillingImageFilter(SEMLikeCommandLine):
 
     input_spec = VotingBinaryHoleFillingImageFilterInputSpec
     output_spec = VotingBinaryHoleFillingImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch VotingBinaryHoleFillingImageFilter "
+    _cmd = "VotingBinaryHoleFillingImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/generate_classes.py b/nipype/interfaces/slicer/generate_classes.py
@@ -410,8 +410,8 @@ def gen_filename_from_param(param, base):
                     'BSplineToDeformationField']
 
     ## SlicerExecutionModel compliant tools that are usually statically built, and don't need the Slicer3 --launcher
-    #generate_all_classes(modules_list=modules_list,launcher=[])
+    generate_all_classes(modules_list=modules_list,launcher=[])
     ## Tools compliant with SlicerExecutionModel called from the Slicer environment (for shared lib compatibility)
-    launcher = ['/home/raid3/gorgolewski/software/slicer/Slicer', '--launch']
-    generate_all_classes(modules_list=modules_list, launcher=launcher)
+    #launcher = ['/home/raid3/gorgolewski/software/slicer/Slicer', '--launch']
+    #generate_all_classes(modules_list=modules_list, launcher=launcher)
     #generate_all_classes(modules_list=['BRAINSABC'], launcher=[] )
diff --git a/nipype/interfaces/slicer/legacy/converters.py b/nipype/interfaces/slicer/legacy/converters.py
@@ -35,5 +35,5 @@ class BSplineToDeformationField(SEMLikeCommandLine):
 
     input_spec = BSplineToDeformationFieldInputSpec
     output_spec = BSplineToDeformationFieldOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch BSplineToDeformationField "
+    _cmd = "BSplineToDeformationField "
     _outputs_filenames = {'defImage':'defImage.nii'}
diff --git a/nipype/interfaces/slicer/legacy/diffusion/denoising.py b/nipype/interfaces/slicer/legacy/diffusion/denoising.py
@@ -43,5 +43,5 @@ class DWIUnbiasedNonLocalMeansFilter(SEMLikeCommandLine):
 
     input_spec = DWIUnbiasedNonLocalMeansFilterInputSpec
     output_spec = DWIUnbiasedNonLocalMeansFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch DWIUnbiasedNonLocalMeansFilter "
+    _cmd = "DWIUnbiasedNonLocalMeansFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/legacy/filtering.py b/nipype/interfaces/slicer/legacy/filtering.py
@@ -41,7 +41,7 @@ class OtsuThresholdImageFilter(SEMLikeCommandLine):
 
     input_spec = OtsuThresholdImageFilterInputSpec
     output_spec = OtsuThresholdImageFilterOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch OtsuThresholdImageFilter "
+    _cmd = "OtsuThresholdImageFilter "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
 
 
@@ -75,5 +75,5 @@ class ResampleScalarVolume(SEMLikeCommandLine):
 
     input_spec = ResampleScalarVolumeInputSpec
     output_spec = ResampleScalarVolumeOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ResampleScalarVolume "
+    _cmd = "ResampleScalarVolume "
     _outputs_filenames = {'OutputVolume':'OutputVolume.nii'}
diff --git a/nipype/interfaces/slicer/legacy/registration.py b/nipype/interfaces/slicer/legacy/registration.py
@@ -47,7 +47,7 @@ class BSplineDeformableRegistration(SEMLikeCommandLine):
 
     input_spec = BSplineDeformableRegistrationInputSpec
     output_spec = BSplineDeformableRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch BSplineDeformableRegistration "
+    _cmd = "BSplineDeformableRegistration "
     _outputs_filenames = {'resampledmovingfilename':'resampledmovingfilename.nii','outputtransform':'outputtransform.txt','outputwarp':'outputwarp.nrrd'}
 
 
@@ -95,7 +95,7 @@ class AffineRegistration(SEMLikeCommandLine):
 
     input_spec = AffineRegistrationInputSpec
     output_spec = AffineRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch AffineRegistration "
+    _cmd = "AffineRegistration "
     _outputs_filenames = {'resampledmovingfilename':'resampledmovingfilename.nii','outputtransform':'outputtransform.txt'}
 
 
@@ -137,7 +137,7 @@ class MultiResolutionAffineRegistration(SEMLikeCommandLine):
 
     input_spec = MultiResolutionAffineRegistrationInputSpec
     output_spec = MultiResolutionAffineRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch MultiResolutionAffineRegistration "
+    _cmd = "MultiResolutionAffineRegistration "
     _outputs_filenames = {'resampledImage':'resampledImage.nii','saveTransform':'saveTransform.txt'}
 
 
@@ -191,7 +191,7 @@ class RigidRegistration(SEMLikeCommandLine):
 
     input_spec = RigidRegistrationInputSpec
     output_spec = RigidRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch RigidRegistration "
+    _cmd = "RigidRegistration "
     _outputs_filenames = {'resampledmovingfilename':'resampledmovingfilename.nii','outputtransform':'outputtransform.txt'}
 
 
@@ -234,7 +234,7 @@ class LinearRegistration(SEMLikeCommandLine):
 
     input_spec = LinearRegistrationInputSpec
     output_spec = LinearRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch LinearRegistration "
+    _cmd = "LinearRegistration "
     _outputs_filenames = {'resampledmovingfilename':'resampledmovingfilename.nii','outputtransform':'outputtransform.txt'}
 
 
@@ -293,5 +293,5 @@ class ExpertAutomatedRegistration(SEMLikeCommandLine):
 
     input_spec = ExpertAutomatedRegistrationInputSpec
     output_spec = ExpertAutomatedRegistrationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch ExpertAutomatedRegistration "
+    _cmd = "ExpertAutomatedRegistration "
     _outputs_filenames = {'resampledImage':'resampledImage.nii','saveTransform':'saveTransform.txt'}
diff --git a/nipype/interfaces/slicer/legacy/segmentation.py b/nipype/interfaces/slicer/legacy/segmentation.py
@@ -38,5 +38,5 @@ class OtsuThresholdSegmentation(SEMLikeCommandLine):
 
     input_spec = OtsuThresholdSegmentationInputSpec
     output_spec = OtsuThresholdSegmentationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch OtsuThresholdSegmentation "
+    _cmd = "OtsuThresholdSegmentation "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/quantification/changequantification.py b/nipype/interfaces/slicer/quantification/changequantification.py
@@ -45,5 +45,5 @@ class IntensityDifferenceMetric(SEMLikeCommandLine):
 
     input_spec = IntensityDifferenceMetricInputSpec
     output_spec = IntensityDifferenceMetricOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch IntensityDifferenceMetric "
+    _cmd = "IntensityDifferenceMetric "
     _outputs_filenames = {'outputVolume':'outputVolume.nii','reportFileName':'reportFileName'}
diff --git a/nipype/interfaces/slicer/quantification/petstandarduptakevaluecomputation.py b/nipype/interfaces/slicer/quantification/petstandarduptakevaluecomputation.py
@@ -42,5 +42,5 @@ class PETStandardUptakeValueComputation(SEMLikeCommandLine):
 
     input_spec = PETStandardUptakeValueComputationInputSpec
     output_spec = PETStandardUptakeValueComputationOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch PETStandardUptakeValueComputation "
+    _cmd = "PETStandardUptakeValueComputation "
     _outputs_filenames = {'csvFile':'csvFile.csv'}
diff --git a/nipype/interfaces/slicer/registration/brainsfit.py b/nipype/interfaces/slicer/registration/brainsfit.py
@@ -100,5 +100,5 @@ class BRAINSFit(SEMLikeCommandLine):
 
     input_spec = BRAINSFitInputSpec
     output_spec = BRAINSFitOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch BRAINSFit "
+    _cmd = "BRAINSFit "
     _outputs_filenames = {'outputVolume':'outputVolume.nii','bsplineTransform':'bsplineTransform.mat','outputTransform':'outputTransform.mat','outputFixedVolumeROI':'outputFixedVolumeROI.nii','strippedOutputTransform':'strippedOutputTransform.mat','outputMovingVolumeROI':'outputMovingVolumeROI.nii','linearTransform':'linearTransform.mat'}
diff --git a/nipype/interfaces/slicer/registration/brainsresample.py b/nipype/interfaces/slicer/registration/brainsresample.py
@@ -47,5 +47,5 @@ class BRAINSResample(SEMLikeCommandLine):
 
     input_spec = BRAINSResampleInputSpec
     output_spec = BRAINSResampleOutputSpec
-    _cmd = "/home/raid3/gorgolewski/software/slicer/Slicer --launch BRAINSResample "
+    _cmd = "BRAINSResample "
     _outputs_filenames = {'outputVolume':'outputVolume.nii'}
diff --git a/nipype/interfaces/slicer/registration/specialized.py b/nipype/interfaces/slicer/registration/specialized.py
diff --git a/nipype/interfaces/slicer/segmentation/simpleregiongrowingsegmentation.py b/nipype/interfaces/slicer/segmentation/simpleregiongrowingsegmentation.py
diff --git a/nipype/interfaces/slicer/segmentation/specialized.py b/nipype/interfaces/slicer/segmentation/specialized.py
diff --git a/nipype/interfaces/slicer/surface.py b/nipype/interfaces/slicer/surface.py
diff --git a/nipype/interfaces/slicer/utilities.py b/nipype/interfaces/slicer/utilities.py
