Qsiprep

Latest version: v0.19.1

Safety actively analyzes 613649 Python packages for vulnerabilities to keep your Python projects secure.

Scan your dependencies

Page 1 of 6

0.19.0

========================

Addresses stability issues in the 0.18 releases. Huge improvements to AutoTrack recon workflow
CPU use and improvements in memory use for synthseg and synthstrip

* [ENH] limit the synths to 1 thread (608)
* [DOC] fix typo in docs (606)
* [ENH] Stabilize autotrack performance (604)
* [CI] Add test for tensor-based head motion correction (605)
* [FIX] fixes steinhardt computation (603)

0.18.1

======================

0.18.0

=====================

No technical changes to the pipeline here, but citations and methods boilerplate have been updated to
reflect the changes in 0.18.0alpha0.

0.18.0alpha0

===========================

First release moving towards 1.0! Please open bug reports if anything suspicious comes up. This release
changes the anatomical workflow significantly, synthstrip and synthseg are used. The recon workflow
"dsi_studio_autotrack" has also been added.

What's Changed
* Bump sentry-sdk from 0.13.1 to 1.14.0 by dependabot in https://github.com/PennLINC/qsiprep/pull/539
* [ENH] Update FreeSurfer to 7.3.1, dmri-amico to 1.5.4 by mattcieslak in https://github.com/PennLINC/qsiprep/pull/537
* WIP: ENH: Make pyAFQ tests faster, add export all by 36000 in https://github.com/PennLINC/qsiprep/pull/534
* [ENH] move biascorrect so it runs on resampled data by default by mattcieslak in https://github.com/PennLINC/qsiprep/pull/527
* [Fix] Fix threading on DRBUDDI interface by mattcieslak in https://github.com/PennLINC/qsiprep/pull/540
* [ENH] add CNR to the imageqc.csv by mattcieslak in https://github.com/PennLINC/qsiprep/pull/541
* [FIX] pin pandas version to < 2.0.0 by mattcieslak in https://github.com/PennLINC/qsiprep/pull/543
* ENH: Replace avscale with non-fsl tools by jbh1091 in https://github.com/PennLINC/qsiprep/pull/542
* ENH: Replace fsl applymask by jbh1091 in https://github.com/PennLINC/qsiprep/pull/544
* Replace fsl split by jbh1091 in https://github.com/PennLINC/qsiprep/pull/548
* [FIX] Update distortion_group_merge.py by smeisler in https://github.com/PennLINC/qsiprep/pull/555
* [ENH] Redo anatomical workflow by mattcieslak in https://github.com/PennLINC/qsiprep/pull/553
* [FIX] remove pre bids-filter acq type argument by octomike in https://github.com/PennLINC/qsiprep/pull/557
* FIX: Replace deprecated `np.int` instances by smeisler in https://github.com/PennLINC/qsiprep/pull/558
* [WIP] ENH: 482 remove fsl dependency by jbh1091 in https://github.com/PennLINC/qsiprep/pull/498
* [ENH] Update TORTOISE for improved T2w registration by mattcieslak in https://github.com/PennLINC/qsiprep/pull/564
* [FIX] T2w anat-modality issues by mattcieslak in https://github.com/PennLINC/qsiprep/pull/565
* [FIX] update boost in tortoise by mattcieslak in https://github.com/PennLINC/qsiprep/pull/569
* [FIX] connections on multi-anat workflow by mattcieslak in https://github.com/PennLINC/qsiprep/pull/572
* [ENH] Update DSI Studio to the latest commit by mattcieslak in https://github.com/PennLINC/qsiprep/pull/573
* [ENH] Add DSI Studio AutoTrack recon workflow by mattcieslak in https://github.com/PennLINC/qsiprep/pull/576

New Contributors
* dependabot made their first contribution in https://github.com/PennLINC/qsiprep/pull/539
* jbh1091 made their first contribution in https://github.com/PennLINC/qsiprep/pull/542
* smeisler made their first contribution in https://github.com/PennLINC/qsiprep/pull/555

**Full Changelog**: https://github.com/PennLINC/qsiprep/compare/0.17.0...0.18.0alpha0

0.16.1

=========================

Adds a critical fix for ABCD-style acquisitions (described in 449). This change forces
TOPUP to use the raw, unprocessed b=0 images from the DWI series and the epi fieldmaps to
estimate distortion. Previously, the most-denoised version of each image was used in
TOPUP. To disable this change and return to the previous behavior, use the
`--denoised-image-sdc` flag.

Note, **this is a change in the default behavior of QSIPrep!!**

*Upgrades*

* Update ITK to 5.3, update ANTs 449
* Add `--denoised-image-sdc` 465


*Bug fixes*

* Use safe_load instead of load for yaml 443
* Add fugue and prelude back to the qsiprep image 463

0.16.0rc2

========================

Fixes a naming error in the schaefer 400 atlas 428

Page 1 of 6

© 2024 Safety CLI Cybersecurity Inc. All Rights Reserved.