Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / aramis-lab/clinica issues and pull requests
#1083 - [FIX] Fixes to `DWIDTI` and `DWIConnectome` pipelines
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: pipeline, fix
#1082 - PET-tau does not found by adni-to-bids
Issue -
State: closed - Opened by shaharEd 8 months ago
- 3 comments
Labels: bug, converter, inactive
#1080 - Bump pre-commit/action from 3.0.0 to 3.0.1
Pull Request -
State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies, github_actions
#1079 - Pet Pipeline: Non-Selective Reprocessing of Eligible Bids Entries
Issue -
State: open - Opened by souravraha 8 months ago
- 6 comments
Labels: bug, pipeline
#1078 - [FIX] Use `compute_average_b0_task` in workflows
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: pipeline, fix
#1077 - [FIX] Fix forgotten argument in non regression tests
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: pipeline, fix
#1076 - [FIX] Fix bad names in DWI preprocessing using phasediff pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: pipeline, fix
#1075 - Cannot conduct "dwi-preprocessing-using-t1" without using cuda
Issue -
State: closed - Opened by felicityshaw 8 months ago
- 9 comments
Labels: bug, pipeline, inactive
#1074 - [ENH] Improvements to DWI preprocessing pipelines
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: enhancement, pipeline
#1073 - [FIX] Fix broken Nipype interfaces
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: pipeline, fix
#1072 - [ENH] Simplify imports for DWI pipelines
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: enhancement, pipeline
#1071 - [ENH] Set the random seed in DWI pipeline using ANTs
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: enhancement, pipeline
#1070 - [FIX] Update regexp dwi connectome utility function
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: pipeline, fix
#1069 - Clinica Pipeline Compatibility Issue with Ants Package Versions
Issue -
State: closed - Opened by souravraha 8 months ago
- 11 comments
Labels: doc
#1067 - [CI] Run DWI non regression tests on GitHub actions
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: CI
#1066 - [TST] Refactor DWI non regression tests
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
#1065 - [MAINT] Add compatibility with Python 3.12
Pull Request -
State: closed - Opened by ghisvail 8 months ago
- 2 comments
Labels: dependencies
#1064 - [CI] Split `t1-linear` and `t1-volume` non regression tests
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: CI
#1063 - [CI] Run fast non regression tests on main
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: CI
#1062 - [CI] Run unit tests on new GitHub M1 runners
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: CI
#1061 - [FIX] Fix bug with DWI ADC images which aren't removed by the ADNI to BIDS converter
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: converter, fix
#1060 - Improve Modality Detection in Clinica's ADNI to BIDS Converter
Issue -
State: closed - Opened by souravraha 8 months ago
- 2 comments
Labels: bug, converter
#1059 - [CI] Increase timeout of t1-Freesurfer test workflows from 12h to 24h...
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: CI
#1058 - Bump pillow from 10.0.1 to 10.2.0
Pull Request -
State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies, python
#1057 - [ENH] Allow the clinica file reader to read dwi dti images
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
- 1 comment
Labels: enhancement
#1056 - Allow the Clinica file reader to get DWI DTI output images
Issue -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: enhancement
#1055 - [FIX] Fix calls to `get_subject_session_list`
Pull Request -
State: closed - Opened by NicolasGensollen 8 months ago
Labels: fix
#1054 - Bump actions/setup-python from 4 to 5
Pull Request -
State: closed - Opened by dependabot[bot] 8 months ago
Labels: dependencies, github_actions
#1053 - Add BIDS Conversion for Blood Recording Data into ADNI-to-BIDS
Issue -
State: closed - Opened by Ianyliu 9 months ago
- 2 comments
Labels: enhancement, inactive
#1052 - Fix `get_subject_session_list` return value
Pull Request -
State: closed - Opened by NicolasGensollen 9 months ago
#1051 - Wrong return value documented in `get_subject_session_list`
Issue -
State: closed - Opened by NicolasGensollen 9 months ago
Labels: bug
#1050 - Improve BIDS compliance for preprocessed DWI files
Pull Request -
State: closed - Opened by NicolasGensollen 9 months ago
Labels: pipeline
#1049 - Support for DKT atlas in pet-surface
Issue -
State: closed - Opened by PavanChaggar 9 months ago
- 6 comments
Labels: enhancement, pipeline, inactive
#1048 - Bump jinja2 from 3.1.2 to 3.1.3
Pull Request -
State: closed - Opened by dependabot[bot] 9 months ago
Labels: dependencies, python
#1047 - [DOC] Some documentation fixes
Pull Request -
State: closed - Opened by NicolasGensollen 9 months ago
Labels: doc
#1046 - Bump fonttools from 4.38.0 to 4.43.0
Pull Request -
State: closed - Opened by dependabot[bot] 9 months ago
Labels: dependencies, python
#1045 - [REF TEST] Refactor data handling
Pull Request -
State: closed - Opened by NicolasGensollen 9 months ago
Labels: enhancement
#1044 - Does the Clinica ADNI-to-BIDS pipeline build field maps?
Issue -
State: closed - Opened by likeajumprope 9 months ago
- 6 comments
Labels: enhancement, converter
#1043 - Get rid of Niflow and unpin Nibabel
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
Labels: dependencies
#1042 - [DOC] Add entry in documentation for NOW 2023
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
Labels: doc
#1041 - [ADNI] Allow convert fmri multiband
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
Labels: enhancement, converter
#1040 - [CI] Run SPM based non regression tests in the same process
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
Labels: CI
#1039 - [Converters] Make sure the PhaseEncodingDirection is BIDS compliant
Issue -
State: open - Opened by MatthieuJoulot 10 months ago
- 2 comments
Labels: bug, converter
#1038 - Fix dwi positive direction in dwi-preprocessing
Pull Request -
State: closed - Opened by MatthieuJoulot 10 months ago
- 1 comment
Labels: fix
#1037 - Bump actions/setup-python from 4 to 5
Pull Request -
State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies, github_actions
#1036 - Bump actions/stale from 8 to 9
Pull Request -
State: closed - Opened by dependabot[bot] 10 months ago
Labels: dependencies, github_actions
#1035 - Fix dwi positive direction in dwi-preprocessing
Pull Request -
State: closed - Opened by MatthieuJoulot 10 months ago
#1034 - Issue with FSL PhaseEncodingDirection in DWI-Preprocessing Pipeline
Issue -
State: closed - Opened by souravraha 10 months ago
- 7 comments
Labels: bug
#1033 - Fix fast non regression tests on CI
Issue -
State: closed - Opened by NicolasGensollen 10 months ago
Labels: CI
#1032 - MAINT: Use ruff for linting and formatting
Pull Request -
State: closed - Opened by ghisvail 10 months ago
Labels: enhancement
#1031 - Add ressources estimations for pipelines
Issue -
State: open - Opened by NicolasGensollen 10 months ago
- 3 comments
Labels: doc
#1030 - Fix bad warning
Pull Request -
State: closed - Opened by camillebrianceau 10 months ago
#1029 - [FIX] Ignore real and imaginary scans in ADNI
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
#1028 - Add flair to processing check
Pull Request -
State: closed - Opened by MatthieuJoulot 10 months ago
#1027 - [FEAT] Add Pydra tasks for BIDS and CAPS I/O
Pull Request -
State: closed - Opened by ghisvail 10 months ago
- 2 comments
#1026 - MAINT: Use flake8 pre-commit hook over pep8speaks
Pull Request -
State: closed - Opened by ghisvail 10 months ago
- 1 comment
#1025 - MAINT: Add hook to ensure consistency of Poetry files
Pull Request -
State: closed - Opened by ghisvail 10 months ago
#1024 - CI: Use pre-commit for linting
Pull Request -
State: closed - Opened by ghisvail 10 months ago
- 1 comment
#1023 - Release `0.7.7`
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
#1022 - Fix RuntimeWarning in CLI due to empty option groups
Pull Request -
State: closed - Opened by NicolasGensollen 10 months ago
#1021 - [ADNI] Expose multiband fMRI conversion
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
- 1 comment
#1020 - Change maintainers email address
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
#1019 - [FIX] Fix `_create_merge_file_from_bids`
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
#1018 - [INFRA] Update `isort` version in `pre-commit` config
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
#1017 - [DOC] Fix some broken links in docs
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
- 1 comment
#1016 - [ADNI] Handle reading new format of clinical csv
Pull Request -
State: closed - Opened by MatthieuJoulot 11 months ago
- 1 comment
#1015 - [FIX] Hardcode link and description for `Genfi2BIDS`
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
#1013 - [FIX] Fix `merge-tsv` iotools
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
- 1 comment
#1012 - [IOTOOLS] Regression on clinica iotools merge-tsv
Issue -
State: closed - Opened by MatthieuJoulot 11 months ago
Labels: bug
#1011 - Request for Technical Support on Memory Issues with Clinica Software
Issue -
State: closed - Opened by mtmmu88 11 months ago
- 1 comment
Labels: inactive
#1010 - ADNI converter not able to convert T1 images
Issue -
State: closed - Opened by RR979 11 months ago
- 12 comments
Labels: bug, converter, inactive
#1009 - [ENH] Expose `n_procs` option to `Adni2BIDS` `Oasis2BIDS` and `Aibl2BIDS`
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
- 2 comments
#1007 - Enable user control over the number of jobs for converters
Issue -
State: closed - Opened by NicolasGensollen 11 months ago
- 1 comment
Labels: enhancement, converter
#1006 - Use pathlib in pipelines
Pull Request -
State: closed - Opened by NicolasGensollen 11 months ago
- 3 comments
Labels: enhancement
#1005 - [GENFI] Enable use of tsv to extract more clinical data
Pull Request -
State: closed - Opened by MatthieuJoulot 12 months ago
- 1 comment
#1004 - [FIX] fix `reconstruction_method` CLI option
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
- 1 comment
#1003 - CLI of pipeline `PETLinear` broken in `0.7.6` release
Issue -
State: closed - Opened by NicolasGensollen 12 months ago
Labels: bug, pipeline
#1002 - ADNI converter unable to handle new csv name
Issue -
State: closed - Opened by MatthieuJoulot 12 months ago
Labels: bug, converter, doc
#1001 - [GENFI] Enable use of tsv to extract more clinical data
Pull Request -
State: closed - Opened by MatthieuJoulot 12 months ago
- 1 comment
#1000 - [FIX] Fix bad session labels in `T1Linear` pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
#999 - Bump urllib3 from 1.26.17 to 1.26.18
Pull Request -
State: closed - Opened by dependabot[bot] 12 months ago
Labels: dependencies, python
#998 - Clinica Run T1-Linear Fails Due to FileNotFoundError in N4BiasFieldCorrection Node
Issue -
State: closed - Opened by mtmmu88 12 months ago
- 18 comments
Labels: bug, pipeline
#997 - [Pydra] Port `b0_flirt_pipeline` to Pydra
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
Labels: Stale
#996 - [INFRA] Split the anat pipelines between freesurfer-based and others
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
Labels: CI
#995 - WIP: Add Pydra-based pipeline for pet-surface
Pull Request -
State: closed - Opened by ghisvail 12 months ago
- 4 comments
Labels: Stale
#994 - Add support for Python 3.12
Issue -
State: closed - Opened by NicolasGensollen 12 months ago
Labels: enhancement
#993 - [INFRA] Run pet non regression tests with GitHub actions
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
#991 - [INFRA] Fix bad names in non regression workflow
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
#989 - [INFRA] Run DWI non regression tests with GitHub actions
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
- 1 comment
Labels: CI
#988 - CI: Enable cache for Poetry
Pull Request -
State: closed - Opened by ghisvail 12 months ago
#987 - [INFRA] Run anat non regression tests with GitHub actions
Pull Request -
State: closed - Opened by NicolasGensollen 12 months ago
#986 - Bump pillow from 9.3.0 to 10.0.1
Pull Request -
State: closed - Opened by dependabot[bot] 12 months ago
Labels: dependencies, python
#985 - Non regression tests for converters are slower on Linux CI machines than MacOS machines
Issue -
State: open - Opened by NicolasGensollen almost 1 year ago
- 3 comments
Labels: converter, CI
#984 - Bump urllib3 from 1.26.12 to 1.26.17
Pull Request -
State: closed - Opened by dependabot[bot] almost 1 year ago
Labels: dependencies, python
#983 - Potentially remove documentation relative to ICM cluster
Issue -
State: closed - Opened by NicolasGensollen about 1 year ago
- 2 comments
Labels: doc
#982 - [DOC] Fix some typos in the general documentation
Pull Request -
State: closed - Opened by NicolasGensollen about 1 year ago
#981 - [INFRA] Fix outdated documentation
Pull Request -
State: closed - Opened by NicolasGensollen about 1 year ago
#980 - Update documentation for pipeline `StatisticsSurface`
Issue -
State: closed - Opened by NicolasGensollen about 1 year ago
- 1 comment
Labels: doc
#979 - [TEST] Make unit test deterministic
Pull Request -
State: closed - Opened by NicolasGensollen about 1 year ago
#978 - [DOC] Fix some typos in the pipelines docs
Pull Request -
State: closed - Opened by NicolasGensollen about 1 year ago