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
#1183 - Enable debugging for converters using multiprocessing
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: enhancement
#1182 - Deprecated `get_cmap` function was removed in Matplotlib 3.9.0
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: bug
#1181 - [FIX] Fix logging in adni to bids
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1180 - [FIX] Fix inconsistent logging in function `run_dcm2niix`
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1179 - Logging of `run_dcm2niix` is not consistent with the conversion result
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
#1178 - Fix logic in adni_utils by restoring loops in create_file
Pull Request -
State: closed - Opened by AliceJoubert 5 months ago
- 2 comments
Labels: bug, converter
#1177 - add "real" and "imaginary" file endings to return fmap in adni_utils.py
Pull Request -
State: closed - Opened by likeajumprope 5 months ago
- 1 comment
#1176 - [MAINT] Delete `SurfStat` vendored toolbox
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1175 - [ENH] Proposition for adni_fmap renaming function
Pull Request -
State: closed - Opened by AliceJoubert 5 months ago
Labels: enhancement, converter
#1174 - Refactor and test `adni_fmap.py`
Issue -
State: open - Opened by NicolasGensollen 5 months ago
- 1 comment
Labels: converter
#1173 - Bump jinja2 from 3.1.3 to 3.1.4
Pull Request -
State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies, python
#1172 - [Converter] ADNI-to-BIDS does not take into account history of conversion when ran successively to the same folder
Issue -
State: open - Opened by AliceJoubert 5 months ago
- 1 comment
Labels: bug, converter
#1171 - [CI] Change unorganized folder for adni to bids tests
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1170 - Bump tqdm from 4.66.1 to 4.66.3
Pull Request -
State: closed - Opened by dependabot[bot] 5 months ago
Labels: dependencies, python
#1169 - [FIX] Fixes DWI preprocessing using T1 when images are 3D
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: fix
#1168 - Clarify in the documentation of `PETLinear` how to specify the reconstruction method
Issue -
State: open - Opened by NicolasGensollen 5 months ago
- 1 comment
Labels: doc
#1167 - pet-files not found
Issue -
State: closed - Opened by espentrydal 5 months ago
- 8 comments
Labels: bug, converter
#1166 - nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node 0-InitNode.
Issue -
State: closed - Opened by espentrydal 5 months ago
- 18 comments
Labels: bug, pipeline
#1165 - Move documentation build and deploy to GitHub Actions
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
- 3 comments
Labels: enhancement, CI
#1164 - Remove clinica surfstat toolbox
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: dependencies
#1163 - Ignore hidden CSV files in `load_clinical_csv`
Issue -
State: open - Opened by NicolasGensollen 5 months ago
- 1 comment
Labels: bug, converter
#1162 - [ENH] Unify DatasetType class
Pull Request -
State: closed - Opened by AliceJoubert 5 months ago
- 3 comments
Labels: enhancement
#1161 - [CI] Fix MacOS GitHub runner target
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: CI
#1160 - [ENH] Add crop_nifti to public API
Pull Request -
State: closed - Opened by AliceJoubert 5 months ago
Labels: enhancement
#1159 - ADNI_to_BIDS : PET : Wrong preprocessing sequence --> Results: Impossible to make bids of FDG PET : Uniform
Pull Request -
State: closed - Opened by HuguesRoy 5 months ago
#1158 - [ENH] Implement dataset description for CAPS datasets
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
- 2 comments
Labels: enhancement
#1157 - ADNI_to_BIDS : PET : Wrong preprocessing sequence
Issue -
State: closed - Opened by HuguesRoy 5 months ago
Labels: bug
#1156 - [ENH] Move crop_nifti function
Pull Request -
State: closed - Opened by AliceJoubert 5 months ago
Labels: enhancement
#1155 - [MAINT] Update OASIS website URL
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: converter
#1154 - Update OASIS URL in documentation and code
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: converter
#1153 - [MAINT] Move bids version constant definition to bids module
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1152 - [FIX] Fix `DXSUM_PDXCONV_ADNIALL` unknown clinical file for adni-to-bids converter
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1151 - Unify the two `DatasetType` enumerations
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: good first issue
#1150 - Release `0.8.1`
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
#1149 - [CI] Run CI on maintenance branches
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: CI
#1148 - Remove code duplication for function `crop_nifti`
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
- 1 comment
Labels: enhancement
#1147 - [MAINT] Move `merge_nifti_images_in_time_dimension_task` in dwi tasks module
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
- 2 comments
#1146 - [FIX] Fix DWI preprocessing using T1 rename to caps node
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: pipeline, fix
#1145 - [CI] Run CI on maintenance branches
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: CI
#1144 - [FIX] Fix `DXSUM_PDXCONV_ADNIALL` unknown clinical file for adni-to-bids converter
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: converter, fix
#1143 - The clinical `DXSUM_PDXCONV_ADNIALL` file from ADNI has been renamed to `DXSUM_PDXCONV`
Issue -
State: closed - Opened by NicolasGensollen 5 months ago
- 2 comments
Labels: bug, converter
#1142 - dwi-preprocessing-using-t1 fail with RuntimeError: Mismatch in number of expected outputs
Issue -
State: closed - Opened by espentrydal 6 months ago
- 8 comments
Labels: bug, pipeline
#1141 - [ENH] Add tasks for reading BIDS files and dataset
Pull Request -
State: closed - Opened by ghisvail 6 months ago
#1140 - [REF] Refactor converters
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
- 2 comments
#1139 - [MAINT] Delete clinica.utils.mri_registration module
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: python
#1138 - Bump idna from 3.6 to 3.7
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies, python
#1137 - Delete `clinica.utils.mri_registration` module
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: enhancement
#1136 - Some clinical CSV files downloaded by users contain double quotes
Issue -
State: closed - Opened by tharpm95 6 months ago
- 3 comments
Labels: bug, converter, inactive
#1135 - [MAINT] Move read_participant_tsv function and make it private
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: python
#1134 - [REF] Encode names of dataset as an enum
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: converter
#1133 - [MAINT] Change to regex for subject conversation to RID + tests
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: python
#1132 - [MAINT] Use of regex for subject conversion to RID + unit tests
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: python
#1131 - [MAINT] Change to use str.removesuffix
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: python
#1130 - Use regex in `_convert_subject_to_rid()`
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue
#1129 - Move `read_participant_tsv` function and make it private
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue
#1128 - Use `str.removesuffix` in t1 linear utility function
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: enhancement, good first issue
#1127 - [ENH] Check that BIDS folders have a `dataset_description.json` file
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
#1126 - [DOC] Add PVC definition to glossary
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: doc
#1125 - [DOC] Add PSF definition to glossary
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: doc
#1124 - [DOC] Add SUVR definition in glossary
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: doc
#1123 - [DOC] Add FWHM definition to glossary
Pull Request -
State: closed - Opened by AliceJoubert 6 months ago
Labels: doc
#1122 - [ENH] Refactor pet pipelines architecture
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: Stale
#1121 - [DOC] Remove unused documentation page `ICMClusterInstallation`
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: doc
#1120 - [ENH] Refactor Freesurfer pipelines architecture
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: pipeline
#1119 - Add FMAP conversion capability for ADNI
Pull Request -
State: closed - Opened by tharpm95 6 months ago
- 12 comments
#1118 - Bump pillow from 10.2.0 to 10.3.0
Pull Request -
State: closed - Opened by dependabot[bot] 6 months ago
Labels: dependencies, python
#1117 - Update the "Installation" documentation page
Issue -
State: closed - Opened by AliceJoubert 6 months ago
- 1 comment
Labels: doc, inactive
#1116 - [REF] Move DWI specific functions from `filemanip.py` utils to dwi preprocessing utils
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: pipeline
#1115 - [DOC] Remove unused documentation page `BeforeYouInstall`
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: doc
#1114 - Add glossary entry for PSF
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue, doc
#1113 - Add glossary entry for SUVR
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue, doc
#1112 - Add glossary entry for FWHM
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue, doc
#1111 - Add glossary entry for PVC
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: good first issue, doc
#1110 - [DOC] Add glossary page to the documentation
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: doc
#1109 - Release `0.8.0`
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
#1108 - [DOC] Some updates to the CAPS documentation
Pull Request -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: doc
#1107 - Add a glossary to the documentation
Issue -
State: closed - Opened by NicolasGensollen 6 months ago
Labels: doc
#1106 - [MAINT] Bump pydra to 0.23
Pull Request -
State: closed - Opened by ghisvail 6 months ago
Labels: Stale
#1105 - [REF] Refactor dependency checking logic for third party softwares
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: enhancement
#1104 - [TEST] Add tests and refactor SPM standalone configuration functions
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
#1103 - FileNotFoundError:lh.white_exp-007'
Issue -
State: closed - Opened by Luoyu-Wang 7 months ago
- 4 comments
Labels: bug, pipeline, inactive
#1102 - Seeking assistance with creating a PVC_PSF_TSV file
Issue -
State: closed - Opened by Luoyu-Wang 7 months ago
#1101 - Add version and possibly other metadata to CAPS datasets
Issue -
State: closed - Opened by NicolasGensollen 7 months ago
- 3 comments
Labels: enhancement
#1100 - [DOC] Update documentation for statistics surface pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: doc
#1099 - [DOC] Improve third-party software documentation page
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
- 3 comments
Labels: doc
#1098 - TotalReadoutTime and PhaseEncodingDirection
Issue -
State: open - Opened by ta4218 7 months ago
- 1 comment
#1097 - [CI] Load module Matlab 2019b on MacOS CI machines
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: CI
#1096 - Hippocampus mask unavailable/incompatible
Issue -
State: closed - Opened by naji-s 7 months ago
- 1 comment
Labels: bug, inactive
#1095 - Number of DWIs, b-vals and b-vecs mismatch
Issue -
State: open - Opened by ta4218 7 months ago
- 7 comments
#1094 - [INFRA] Remove Jenkinsfile for slow non regression tests
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: CI
#1093 - [INFRA] Remove Jenkinsfile for fast non regression tests
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: CI
#1092 - [FIX] Fix linter on dev
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
#1091 - [MAINT] Bump nipype from `1.8.3` to `1.8.6`
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: dependencies
#1090 - [BUG] Fix regression with max_features in sklearn
Pull Request -
State: closed - Opened by ghisvail 7 months ago
- 1 comment
#1089 - [FIX] Some fixes to T1Freesurfer longitudinal pipelines
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: pipeline, fix
#1088 - [ENH] Refactor DWI pipelines architecture
Pull Request -
State: closed - Opened by NicolasGensollen 7 months ago
Labels: enhancement, pipeline
#1087 - [BUG] Fix regression with max_features in sklearn
Pull Request -
State: closed - Opened by ghisvail 7 months ago
#1086 - BUG: Use appropriate numpy dtype for objects
Pull Request -
State: closed - Opened by ghisvail 7 months ago
#1085 - [BUG] Fix deprecation warning with SSL protocol
Pull Request -
State: closed - Opened by ghisvail 7 months ago
#1084 - [MAINT] Bump pre-commit hooks
Pull Request -
State: closed - Opened by ghisvail 7 months ago