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Releases: nipreps/fmriprep

0.5.0

21 Jun 18:16
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With thanks to James Kent for contributions.

  • [ENH] EXPERIMENTAL: Fieldmap-less susceptibility correction with --use-syn-sdc option (#544)
  • [FIX] Reduce interpolation artifacts in ConformSeries (#564)
  • [FIX] Improve consistency of handling of fieldmaps (#565)
  • [FIX] Apply T2w pial surface refinement at correct stage of FreeSurfer pipeline (#568)
  • [ENH] Add --anat-only workflow option (#560)
  • [FIX] Output all tissue class/probability maps (#569)
  • [ENH] Upgrade to ANTs 2.2.0 (#561)

0.4.6

15 Jun 00:48
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  • [ENH] Conform and minimally resample multiple T1w images (#545)
  • [FIX] Return non-zero exit code on all errors (#554)
  • [ENH] Improve error reporting for missing subjects (#558)

0.4.5

12 Jun 12:32
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With thanks to Marcel Falkiewicz for contributions.

  • [FIX] Correctly display help in fmriprep-docker (#533)
  • [FIX] Avoid invalid symlinks when running FreeSurfer (#536)
  • [ENH] Improve dependency management for users unable to use Docker/Singularity containers (#549)
  • [FIX] Return correct exit code when a Function node fails (#554)

0.4.4

21 May 03:48
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With thanks to Feilong Ma for contributions.

  • [ENH] Option to provide a custom reference grid image (--output-grid-reference) for determining the field of view and resolution of output images (#480)
  • [ENH] Improved EPI skull stripping and tissue contrast enhancements (#519)
  • [ENH] Improve resource use estimates in FreeSurfer workflow (#506)
  • [ENH] Moved missing values in the DVARS* and FramewiseDisplacement columns of the _confounds.tsv from last row to the first row (#523)
  • [ENH] More robust initialization of the normalization procedure (#529)

0.4.3

10 May 22:38
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  • [ENH] --output-space template targets template specified by --template flag (MNI152NLin2009cAsym supported) (#498)
  • [FIX] Fix a bug causing small numerical discrepancies in input data voxel size to lead to different FOV of the output files (#513)

0.4.2

03 May 21:06
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  • [ENH] Use robust template generation for multiple T1w images (#481)
  • [ENH] Anatomical MNI outputs respect --output-space selection (#490)
  • [ENH] Added support for distortion correction using opposite phase encoding direction EPI images (#493)
  • [ENH] Switched to FSL BET for skullstripping of EPI images (#493)
  • [ENH] --omp-nthreads controls maximum per-process thread count; replaces --ants-nthreads (#500)

0.4.1

21 Apr 04:35
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  • Hotfix release (dependencies and deployment system)

0.4.0

20 Apr 16:12
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  • [ENH] Added an option to choose the degrees of freedom used when doing BOLD to T1w coregistration (--bold2t1w_dof). Set default to 9 to account for field inhomogeneities and coils heating up (#448)
  • [ENH] Added support for phase difference and GE style fieldmaps (#448)
  • [ENH] Generate GrayWhite, Pial, MidThickness and inflated surfaces (#398)
  • [ENH] Memory and performance improvements for calculating the EPI reference (#436)
  • [ENH] Sample functional series to subject and fsaverage surfaces (#391)
  • [ENH] Output spaces for functional data may be selected with --output-space option (#447)
  • [DEP] --skip-native functionality replaced by --output-space (#447)
  • [ENH] fmriprep-docker wrapper script simplifies running in a Docker environment (#317)

0.3.2

07 Apr 23:48
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With thanks to Asier Erramuzpe for contributions.

  • [ENH] Added optional slice time correction (#415)
  • [ENH] Removed redundant motion parameter conversion step using avscale (#415)
  • [ENH] FreeSurfer submillimeter reconstruction may be disabled with --no-submm-recon (#422)
  • [ENH] Switch bbregister init from fsl to coreg (FreeSurfer native #423)
  • [ENH] Motion estimation now uses a smart reference image that takes advantage of T1 saturation (#421)
  • [FIX] Fix report generation with --reports-only (#427)

0.3.1

24 Mar 23:54
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  • [ENH] Perform bias field correction of EPI images prior to coregistration (#409)
  • [FIX] Fixed an orientation issue affecting some datasets when bbregister was used (#408)