Skip to content

Conversation

@oesteban
Copy link
Member

Selects the PVE maps and PVE MAP segmentation from FSL FAST to forward it through the workflow. PVE maps are smoother (due to the regularization of the MRF), and they are actually used by aCompCor in its original implementation by Behzadi (see nipreps/fmriprep#2129).

This PR changes the contents of some derivatives and therefore targets the next minor release.

Resolves: #212.

Selects the PVE maps and PVE MAP segmentation from FSL FAST to forward
it through the workflow.
PVE maps are smoother (due to the regularization of the MRF), and they
are actually used by aCompCor in its original implementation by Behzadi
(see nipreps/fmriprep#2129).

This PR changes the contents of some derivatives and therefore targets
the next minor release.

Resolves: nipreps#212.
@pull-assistant
Copy link

Score: 1.00

Best reviewed: commit by commit


Optimal code review plan

     FIX: Progress partial volume maps instead of posteriors (FSL FAST)

Powered by Pull Assistant. Last update bcd3053 ... bcd3053. Read the comment docs.

@oesteban oesteban added this to the 0.7.0 milestone Jun 13, 2020
@codecov
Copy link

codecov bot commented Jun 13, 2020

Codecov Report

Merging #213 into master will decrease coverage by 45.88%.
The diff coverage is n/a.

Impacted file tree graph

@@             Coverage Diff             @@
##           master     #213       +/-   ##
===========================================
- Coverage   71.48%   25.60%   -45.89%     
===========================================
  Files          15       15               
  Lines         996      996               
  Branches      136      136               
===========================================
- Hits          712      255      -457     
- Misses        237      731      +494     
+ Partials       47       10       -37     
Flag Coverage Δ
#ds005 ?
#ds054 ?
Impacted Files Coverage Δ
smriprep/workflows/anatomical.py 17.21% <ø> (-51.00%) ⬇️
smriprep/cli/run.py 2.87% <0.00%> (-74.17%) ⬇️
smriprep/workflows/norm.py 30.76% <0.00%> (-69.24%) ⬇️
smriprep/__main__.py 16.66% <0.00%> (-66.67%) ⬇️
smriprep/workflows/surfaces.py 14.60% <0.00%> (-64.05%) ⬇️
smriprep/workflows/outputs.py 14.28% <0.00%> (-57.15%) ⬇️
smriprep/workflows/base.py 30.00% <0.00%> (-50.00%) ⬇️
smriprep/interfaces/freesurfer.py 19.69% <0.00%> (-40.91%) ⬇️
smriprep/interfaces/reports.py 54.43% <0.00%> (-22.79%) ⬇️
... and 1 more

Continue to review full report at Codecov.

Legend - Click here to learn more
Δ = absolute <relative> (impact), ø = not affected, ? = missing data
Powered by Codecov. Last update 2a70255...bcd3053. Read the comment docs.

@oesteban
Copy link
Member Author

I've checked locally and this works fine. It looks pretty uncontroversial and merging will help me better address nipreps/fmriprep#2130, so I'll go ahead and merge.

@oesteban oesteban merged commit 00199cc into nipreps:master Jun 14, 2020
@oesteban oesteban deleted the fix/212-fast-pve branch June 14, 2020 15:04
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment

Labels

None yet

Projects

None yet

Development

Successfully merging this pull request may close these issues.

Forward FAST's PVE maps instead of posteriors

1 participant