What’s new

0.9.0beta1 (June 17, 2020)

  • Adds support for HCP lifespan sequences

  • Introduces –distortion-group-merge option for combining paired scans

0.8.0 (February 12, 2020)

  • Removes oblique angles from T1w headers to fix N4 bug (#103)

0.7.2 (February 4, 2020)

  • Fixed a bug in b=0 masking when images have high signal intensity in ventricles (#99)

0.7.1 (January 29, 2020)

  • Image QC summary data is produced for each output (#95)

  • Update DSI Studio (#88)

  • Update ANTs (#80)

  • Include workflows for ss3t (#82)

  • Add some boilerplate to the FSL workflow (#38)

  • Reduce the number of calls to N4 (#74, #89)

  • Add CUDA capability in the containers (#75)

  • Add mrdegibbs and accompanying reports (#58)

  • Fix reports graphics (#64)

  • Rework the DWI grouping algorithm (#92)

0.6.7 (January 9 2020)

This release adds some rather big updates to QSIPrep.
  • FSL is updated to version 6.0.3

  • CUDA v9.1 support is added to the image (works with GPUS in Docker and Singularity)

  • A new robust b=0 masking algorith is introduced.

0.6.5 (Nov 21, 2019)

  • Improved handling of Freesurfer path (#50)

  • Better logic in commandline argument checking (#50, #62)

  • More robust brain masking for b=0 reference images (#73)

  • Bugfix for reverse phase encoding directon dwi series (#68)

  • Bugfix for warping eddy’s CNR output (#72)

0.6.4, 0.6.4-1 (Nov 11, 2019)

  • IMPORTANT: commandline call changed to use official BIDS App

  • eddy will use multiple cores if available

  • Fixed bug in sentry interaction

0.6.2, 0.6.3RC1, 0.6.3RC2 (October 27, 2019)

  • Bugfix: masking was not working on eddy.

  • Bugfix: static versioning was not workign in the container.

  • New graphics in the documentation.

  • Use BSpline Interpolation if –output-resolution is higher than the input resolution.

0.6.0RC1, 0.6.2 (October 13, 2019)

An issue was discovered in how voxel orientation interacts with TOPUP/eddy and outside fieldmaps. Unless everything is in LAS+ prior to going into TOPUP/eddy, the warps are incorrectly applied at the end of eddy. This resulted in fieldmap unwarping reports that looked good but a final output that is bizarrely warped. Additionally, GRE fieldmaps would result in outputs being under-unwarped. To fix all of these, TOPUP (if PEPOLAR fieldmaps are being used) and eddy occur in LAS+, then their outputs are converted to LPS+ for GRE fieldmaps, SyN. The rest of the pipeline happens in LPS+, like the SHORELine version.

  • Update installation method to match fMRIPrep

  • Add CI tests for reconstruction workflows

  • Make the --sloppy option affect the reconstruction workflows

  • Fixes bug in 3dSHORE reconstruction (incorrect scaling)

  • CRITICAL bug fix: convert everything to LAS+ if eddy is going to be used

  • Added built-in reconstruction workflows

  • Added Brainnetome, AICHA and the remaining Schaefer atlases

0.5.1, 0.5.1a, 0.5.2 (September 10, 2019)

  • Address issues in Nipype causing random crashes

0.5.0 (August 11, 2019)

  • Use antsMultiVariateTemplateConstruction2.sh to make a b=0 template across scan groups

  • Control the number of template iterations and deformation model with --intramodal_template_iters and --intramodal_template_transform.

0.4.6 (July 23, 2019)

  • More documentation updates

  • MSD calculated for MAPMRI

0.4.5 (July 22, 2019)

  • Scalar outputs from MAPMRI

0.4.4 (July 19, 2019)

  • Default eddy configuation changed to not use CUDA by default.

  • Valerie added content to documentation

0.4.3 (July 18, 2019)

FSL tools are used to match SHORELine motion parameters to those from eddy.

  • Fieldcoefs are calculated from PEPOLAR and GRE fieldmaps and sent to TOPUP

  • Motion estimates from SHORELine match eddy

0.4.0 (June 7, 2019)

Add workflows for eddy and TOPUP.

  • Adds eddy tests on CircleCI.