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moloney / dcmstack

DICOM to Nifti conversion with meta data preservation
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phase fieldmaps not converting #7

Closed akeshavan closed 11 years ago

akeshavan commented 11 years ago

My phase fieldmaps are not converting. The error was:

File "build/bdist.linux-x86_64/egg/dcmstack/dcmmeta.py", line 1496, in from_dicom_wrapper nii_img = nb.nifti1.Nifti1Image(data, affine) File "/srv/software/python/EPD/virtualenvs/7.2/nipype0.5/lib/python2.7/site-packages/nibabel/spatialimages.py", line 317, in init self._header.set_data_dtype(data.dtype) File "/srv/software/python/EPD/virtualenvs/7.2/nipype0.5/lib/python2.7/site-packages/nibabel/analyze.py", line 578, in set_data_dtype 'data dtype "%s" not recognized' % datatype) HeaderDataError: data dtype "object" not recognized

Not sure why only my phase fieldmap datatypes are "object" instead of "int16" so I added a couple lines to get it convert. I don't think its the best fix though, so any suggestions would be appreciated!

bpinsard commented 11 years ago

this is a nibabel problem if dicom rescale values are Decimal: see https://github.com/nipy/nibabel/pull/145

moloney commented 11 years ago

I pushed a test case for the nibabel PR so should hopefully get merged soon. I am closing this issue as that is the place to fix this.