0.5.0

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

• [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

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

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

• [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

• [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

• Hotfix release (dependencies and deployment system)

0.4.0

• [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

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

• [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)