Skip to content

FIX Constant column in motion regressor causes singular matrix #1057

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
merged 3 commits into from
Feb 18, 2015
Merged

FIX Constant column in motion regressor causes singular matrix #1057

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
3 commits
Select commit Hold shift + click to select a range
7fdc70d
Remove constant column from motion regressor
nathanntg Feb 7, 2015
e371323
Remove constant column from motion regressor in resting state example
nathanntg Feb 18, 2015
0f03d75
Change resting state example scripts to use linear interpolation.
nathanntg Feb 18, 2015
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
6 changes: 3 additions & 3 deletions examples/rsfmri_vol_surface_preprocessing.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -230,7 +230,7 @@ def build_filter1(motion_params, comp_norm, outliers, detrend_poly=None):
out_params = np.hstack((out_params, outlier_vector))
if detrend_poly:
timepoints = out_params.shape[0]
X = np.ones((timepoints, 1))
X = np.empty((timepoints, 0))
for i in range(detrend_poly):
X = np.hstack((X, legendre(
i + 1)(np.linspace(-1, 1, timepoints))[:, None]))
Expand Down Expand Up @@ -542,7 +542,7 @@ def create_reg_workflow(name='registration'):

warpmean = Node(ants.ApplyTransforms(), name='warpmean')
warpmean.inputs.input_image_type = 3
warpmean.inputs.interpolation = 'BSpline'
warpmean.inputs.interpolation = 'Linear'
warpmean.inputs.invert_transform_flags = [False, False]
warpmean.inputs.terminal_output = 'file'
warpmean.inputs.args = '--float'
Expand Down Expand Up @@ -771,7 +771,7 @@ def merge_files(in1, in2):
warpall = MapNode(ants.ApplyTransforms(), iterfield=['input_image'],
name='warpall')
warpall.inputs.input_image_type = 3
warpall.inputs.interpolation = 'BSpline'
warpall.inputs.interpolation = 'Linear'
warpall.inputs.invert_transform_flags = [False, False]
warpall.inputs.terminal_output = 'file'
warpall.inputs.reference_image = target_file
Expand Down
6 changes: 3 additions & 3 deletions examples/rsfmri_vol_surface_preprocessing_nipy.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -217,7 +217,7 @@ def build_filter1(motion_params, comp_norm, outliers, detrend_poly=None):
out_params = np.hstack((out_params, outlier_vector))
if detrend_poly:
timepoints = out_params.shape[0]
X = np.ones((timepoints, 1))
X = np.empty((timepoints, 0))
for i in range(detrend_poly):
X = np.hstack((X, legendre(
i + 1)(np.linspace(-1, 1, timepoints))[:, None]))
Expand Down Expand Up @@ -526,7 +526,7 @@ def create_reg_workflow(name='registration'):
"""
warpmean = Node(ants.ApplyTransforms(), name='warpmean')
warpmean.inputs.input_image_type = 3
warpmean.inputs.interpolation = 'BSpline'
warpmean.inputs.interpolation = 'Linear'
warpmean.inputs.invert_transform_flags = [False, False]
warpmean.inputs.terminal_output = 'file'
warpmean.inputs.args = '--float'
Expand Down Expand Up @@ -749,7 +749,7 @@ def merge_files(in1, in2):
warpall = MapNode(ants.ApplyTransforms(), iterfield=['input_image'],
name='warpall')
warpall.inputs.input_image_type = 3
warpall.inputs.interpolation = 'BSpline'
warpall.inputs.interpolation = 'Linear'
warpall.inputs.invert_transform_flags = [False, False]
warpall.inputs.terminal_output = 'file'
warpall.inputs.reference_image = target_file
Expand Down