Releases: aramis-lab/clinica
Releases · aramis-lab/clinica
Release v0.7.2
Clinica 0.7.2
Fixed
- [Pipelines] Fix bug introduced in previous version with the use of the gunzip interface
- [DWIConnectome] Use ConstrainedSphericalDeconvolution instead of buggy EstimateFOD
Enhanced
- [Adni2Bids] Add compatibility for edge cases introduced in Adni3
Release v0.7.1
Added
- [Doc] add ukbiobank documentation
- [DWIConnectome] Fetch meta data directly from MRtrix github repository
Changed
- [Core] Enable parallelelization when grabbing files
Fixed
- [Converters] Fix several warnings
Release v0.7.0
New
- [flair-linear] new pipeline to affinely align FLAIR images to the MNI space
- [Ukbiobank] new converter to modify T1W/T2/DWI/SWI/tfmri/rsfMRI UKBiobank data into BIDS standard
Clinica v.0.6.0
Changed
- [PET*] Use
trc
instead ofacq
for BIDS compliance - [Converters] Remove supperfluous use of
acq
entity in filenames for BIDS compliance
Added
- [adni-to-bids] allow extraction of metadata from xml
- [CI] Initiate use of unit tests
Fixed
- [adni-to-bids] fix edge case for supporting
nan
session-ids
Version 0.5.6
Fixed
- [DWIPreprocessUsingT1] Updated call to antsApplyTransform
- [Utils] Replace deprecated call to pandas append by concat
Changed
- Upgrade minimum Python versino to 3.8 and upgrade dependencies
- Set BIDS version to 1.7.0 by default (overwritten for some converters)
Clinica v.0.5.5
Hotfix
- Fix
pet-linear
infinite loop problem
Clinica v.0.5.4
Added
- [
merge-tsv
] Addt1-freesurfer-longitudinal
anddwi-dti
results
Changed
- [
t1-freesurfer
] Enable t1-freesurfer to run with missing files - [all converters] Normalize subprocess calls to
dcm2niix
Fixed
- [
OASIS3
/NIFD
/HABS
] add data_description file to BIDS - [
DWI-DTI
] Remove thresholding for DECFA - [
adni-to-bids
] Tighten check onsession-id
values - [
adni-to-bids
] Fix bug related to multiple conversions
Clinica v0.5.3 Bugfixes
Added
- [
t1-freesurfer
] Add option to t1-freesurfer to project the results ofrecon-all
onto another atlas - [
CI
] Usepoetry
for dependency management
Changed
- [
CI
] Refactor non-regression tests for easier parallelization - [
Atlas
] Update checksum to make pipelines compatible withfsl 6.0.5
Fixed
- [
t1-volume*/pet*
] Add command line argumentyes
for turning interactivity off - [`t1-volume-existing-template] Fix chained invocation
- [
t1-volume*/pet-volume*] Fix default value of
--smooth` parameter for click compatibility - [
dwi-connectome
] Set--n_tracks
's type for click compatibility - [
dwi-preprocessing*
] Change type ofinitrand
anduse_cuda
to bool - [
t1-freesurfer-longitudinal
] Fix broken pipeline due to typo in code - [
Documentation
] Update OASIS3_to_bids instructions for conversion - [
StatisticsSurface
] Fix type incovariate
argument - [
StatisticsVolume
] Fix bug infeature
argument
Clinica v0.5.2 Dwi-preprocessing upgrade / bugfixes
Clinica 0.5.2
Changed
[DWI-preprocessing] Rewrite of DWI-preprocessing pipelines using FSL's eddy tool
Removed
[DeepLearningPrepareData] Migrated deeplearning-prepare-data to ClinicaDL
Fixed
[Oasis3/NIFD] Fix code for backward compatibility with pandas 1.1.x
[T1-Freesurfer/DWI] Remove Typing for compatibility with Nipype
[T1Volume] Add command line option to prevent interactive prompts
0.5.1 - Introducing Oasis3 Converter
Added
- [Oassis3-to-bids] add converter
- [Github] Add citation file
Changed
- [adni-to-bids] Improve fetching of participants
- [adni-to-bids] Image path finder more robust
- [doc] Update the OASIS3 documentation
- [CI] Code refactoring/cleanup
Fixed
- [Atlas] Fix ROI index for left amygdala in AAL2 atlas
- [adni-to-bids] Prevent crash when files exists
- [adni-to-bids] Revert behavior to encode Dementia as AD
- [adni-to-bids] Remove entries with incoherent session names
- [nifd-to-bids] Several bugfixes and enhancements
- [iotools]Fix bug on empty dataframe
- [CI] Fix bash instruction to init conda-
- [doc] Correct DWI-Connectome description paragraph