Skip to content

Update fsl dtifit wrapper to include option for gradient non-linearities #1032

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
Jan 28, 2015
Merged

Update fsl dtifit wrapper to include option for gradient non-linearities #1032

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
6a09500
Added option to correct for gradient non linearities in dtifit
mick-d Jan 27, 2015
9c75f6d
Updated test for FSL DTIFit
mick-d Jan 27, 2015
8fbe242
Updated CHANGES file
mick-d Jan 27, 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
1 change: 1 addition & 0 deletions CHANGES
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,6 +1,7 @@
Next release
============

* ENH: Updated FSL dtifit to include option for grad non-linearities (https://github.com/nipy/nipype/pull/1032)
* ENH: Updated Camino tracking interfaces, which can now use FSL bedpostx output.
New options also include choice of tracker, interpolator, stepsize and
curveinterval for angle threshold (https://github.com/nipy/nipype/pull/1029)
Expand Down
3 changes: 2 additions & 1 deletion nipype/interfaces/fsl/dti.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -49,7 +49,8 @@ class DTIFitInputSpec(FSLCommandInputSpec):
cni = File(exists=True, desc='input counfound regressors', argstr='--cni=%s')
little_bit = traits.Bool(desc='only process small area of brain',
argstr='--littlebit')

gradnonlin = File(exists=True, argstr='--gradnonlin=%s',
desc='gradient non linearities')

class DTIFitOutputSpec(TraitedSpec):
V1 = File(exists=True, desc='path/name of file with the 1st eigenvector')
Expand Down
2 changes: 2 additions & 0 deletions nipype/interfaces/fsl/tests/test_auto_DTIFit.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -26,6 +26,8 @@ def test_DTIFit_inputs():
environ=dict(nohash=True,
usedefault=True,
),
gradnonlin=dict(argstr='--gradnonlin=%s',
),
ignore_exception=dict(nohash=True,
usedefault=True,
),
Expand Down