Here we provide information about functions or classes that have been removed, renamed or are deprecated (not recommended) during different release circles.
GQI integration length
Calculation of integration length in GQI2 now matches the calculation in the ‘standard’ method. Using values of 1-1.3 for either is recommended (see docs and references therein).
Peaks
The module peaks is now available from dipy.direction and it can still be accessed from dipy.reconst but it will be completelly removed in version 0.10.
Resample
The function resample from dipy.align.aniso2iso is deprecated. Please, use instead reslice from dipy.align.reslice. The module aniso2iso will be completely removed in version 0.10.
Peaks_from_model
The function peaks_from_model is now available from dipy.reconst.peaks . Please replace all imports like
from dipy.reconst.odf import peaks_from_model
with
from dipy.reconst.peaks import peaks_from_model
Target
The function target from dipy.tracking.utils now takes an affine transform instead of a voxel sizes array. Please update all code using target in a way similar to this
img = nib.load(anat)
voxel_dim = img.get_header()['pixdim'][1:4]
streamlines = utils.target(streamlines, img.get_data(), voxel_dim)
to something similar to
img = nib.load(anat)
streamlines = utils.target(streamlines, img.get_data(), img.get_affine())