Refactored version of the IU School of Medicine neuroscience connectivity pipeline that executes pre-processing of anatomical, functional, and diffusion Magnetic Resonance Imaging data (written in Python and Bash).
path_DWI_EDDY /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY
DWIpath /N/project/adniCONN/datadir/002_S_4213_72m/DTI
fileOut /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY/eddy_output
dwifile 0_DWI
DWI file is: /N/project/adniCONN/datadir/002_S_4213_72m/DTI/0_DWI.nii.gz
/N/project/adniCONN/IUSM-ConnPipe/src/func/delta_EDDY.py:18: DeprecationWarning: get_data() is deprecated in favor of get_fdata(), which has a more predictable return type. To obtain get_data() behavior going forward, use numpy.asanyarray(img.dataobj).
deprecated from version: 3.0
Will raise <class 'nibabel.deprecator.ExpiredDeprecationError'> as of version: 5.0
DWI_vol = DWI.get_data()
corrDWI file is: /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY/eddy_output.nii.gz
/N/project/adniCONN/IUSM-ConnPipe/src/func/delta_EDDY.py:23: DeprecationWarning: get_data() is deprecated in favor of get_fdata(), which has a more predictable return type. To obtain get_data() behavior going forward, use numpy.asanyarray(img.dataobj).
deprecated from version: 3.0
Will raise <class 'nibabel.deprecator.ExpiredDeprecationError'> as of version: 5.0
corrDWI_vol = corrDWI.get_data()
echumin
commented
9 months ago
python /N/project/adniCONN/IUSM-ConnPipe/src/func/delta_EDDY.py /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY/eddy_output 0_DWI
path_DWI_EDDY /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY DWIpath /N/project/adniCONN/datadir/002_S_4213_72m/DTI fileOut /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY/eddy_output dwifile 0_DWI DWI file is: /N/project/adniCONN/datadir/002_S_4213_72m/DTI/0_DWI.nii.gz /N/project/adniCONN/IUSM-ConnPipe/src/func/delta_EDDY.py:18: DeprecationWarning: get_data() is deprecated in favor of get_fdata(), which has a more predictable return type. To obtain get_data() behavior going forward, use numpy.asanyarray(img.dataobj).
deprecated from version: 3.0
Will raise <class 'nibabel.deprecator.ExpiredDeprecationError'> as of version: 5.0 DWI_vol = DWI.get_data() corrDWI file is: /N/project/adniCONN/datadir/002_S_4213_72m/DTI/EDDY/eddy_output.nii.gz /N/project/adniCONN/IUSM-ConnPipe/src/func/delta_EDDY.py:23: DeprecationWarning: get_data() is deprecated in favor of get_fdata(), which has a more predictable return type. To obtain get_data() behavior going forward, use numpy.asanyarray(img.dataobj).
deprecated from version: 3.0
Will raise <class 'nibabel.deprecator.ExpiredDeprecationError'> as of version: 5.0 corrDWI_vol = corrDWI.get_data()