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
#1284 - [DOC] Refactor UKB-To-BIDS documentation page
Pull Request -
State: open - Opened by AliceJoubert 27 days ago
Labels: doc
#1283 - [TEST] Put `ixi-to-bids` test back
Pull Request -
State: closed - Opened by NicolasGensollen 27 days ago
#1282 - [TEST] Temporarily skip non regression test for `ixi-to-bids`
Pull Request -
State: closed - Opened by NicolasGensollen 28 days ago
#1281 - [TEST] Skip statistic-surface test
Pull Request -
State: closed - Opened by NicolasGensollen 28 days ago
#1280 - [FIX] Fix some issues around the usage of `Tracer` and `SUVRReferenceRegion` in some pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 28 days ago
#1279 - [FIX] Fix `get_spm_version`
Pull Request -
State: closed - Opened by NicolasGensollen 29 days ago
#1278 - [FIX] Handle string and integer logging levels in `cprint`
Pull Request -
State: closed - Opened by NicolasGensollen 29 days ago
Labels: fix
#1277 - [FIX] Skip question when testing `T1Freesurfer` pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 29 days ago
#1276 - [DOC] Add documentation page for converter IXI-to-BIDS
Pull Request -
State: closed - Opened by AliceJoubert about 1 month ago
Labels: converter, doc
#1275 - [ENH] Add dependencies to CAPS `dataset_description.json`
Pull Request -
State: open - Opened by NicolasGensollen about 1 month ago
Labels: enhancement
#1274 - Add documentation for `Ixi-to-BIDS` converter
Issue -
State: closed - Opened by NicolasGensollen about 1 month ago
Labels: converter, doc
#1273 - Add non-regression tests for Ixi-to-BIDS
Issue -
State: open - Opened by NicolasGensollen about 1 month ago
Labels: converter
#1272 - [DOC] Modify `habs-to-bids` name in documentation title
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
Labels: doc
#1271 - [FIX] Fix bugs in data handling utilities
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
Labels: fix
#1270 - [FIX] Fix `InfoType` in output file names
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
Labels: fix
#1269 - Replacing unmaintained `BrainStat`
Issue -
State: open - Opened by NicolasGensollen about 1 month ago
Labels: dependencies
#1268 - [FIX] Fix numpy deprecation
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1267 - [ENH] Implement `LoggingLevel` as an `IntEnum`
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1266 - [ENH] Add third-party software version getters
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
- 1 comment
Labels: enhancement
#1265 - [DOC] Restructuration proposition
Pull Request -
State: open - Opened by AliceJoubert about 1 month ago
Labels: doc
#1264 - [MAINT] Replace broken badge in README
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1263 - [MAINT] Bump dependencies
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1262 - Release `0.8.4`
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1261 - [FIX] Specify path to SPM when using Matlab and SPM12
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
Labels: fix
#1260 - [DOC] Clarify the documentation for converters (1) : ADNI-TO-BIDS
Issue -
State: open - Opened by AliceJoubert about 1 month ago
Labels: enhancement, doc
#1259 - [CONV] ADNI-TO-BIDS/IXI-TO-BIDS : Standardization of the -sl option to -tsv
Issue -
State: open - Opened by AliceJoubert about 1 month ago
Labels: enhancement, converter
#1258 - [ENH] Replace spm index tissue map mapping with enum
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1257 - [MAINT] Update license copyright date
Pull Request -
State: closed - Opened by NicolasGensollen about 1 month ago
#1255 - Running T1-linear raises an error related to CAPS
Issue -
State: closed - Opened by AliceJoubert about 1 month ago
- 2 comments
Labels: bug
#1254 - [ENH] Add the possibility to use ANTsPy instead of ANTs for `PETLinear`
Pull Request -
State: open - Opened by NicolasGensollen about 2 months ago
#1253 - [TEST] Skip question when testing `PETVolume` pipeline
Pull Request -
State: closed - Opened by NicolasGensollen about 2 months ago
#1252 - Support latest version of the BIDS specifications
Issue -
State: open - Opened by NicolasGensollen about 2 months ago
Labels: enhancement
#1251 - [ENH] Add function `log_and_warn`
Pull Request -
State: closed - Opened by NicolasGensollen about 2 months ago
#1250 - [MAINT] Remove upper bound constraint on `cattrs` version
Pull Request -
State: closed - Opened by NicolasGensollen about 2 months ago
- 2 comments
Labels: dependencies
#1249 - Incorrect assumption in `cattrs` version constraint
Issue -
State: closed - Opened by NicolasGensollen about 2 months ago
Labels: dependencies
#1248 - [DOC] Add documentation to retrieve the labels of connectivity matrices
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
Labels: doc
#1247 - [DOC] Add FreeSurfer dependency to dwi-connectome documentation
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
- 1 comment
#1246 - Missing third-party dependency in documentation of `DWIConnectome`
Issue -
State: closed - Opened by NicolasGensollen 2 months ago
Labels: doc
#1245 - Urgent Assistance Required for Runtime Error in Clinica Version 07.6 with MATLAB 2024a and SPM12
Issue -
State: open - Opened by mtmmu88 2 months ago
- 8 comments
#1244 - [ENH] Add the possibility to use `ANTsPy` instead of `ANTs` for `T1Linear` and `FlairLinear`
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
- 1 comment
Labels: pipeline, dependencies
#1243 - [ENH] Cleaning of Iotools
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
#1242 - [FIX] Fix broken import
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
Labels: fix
#1241 - Release `0.8.3`
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
#1240 - [FIX] Fix t1-freesurfer pipeline handler
Pull Request -
State: closed - Opened by NicolasGensollen 2 months ago
Labels: fix
#1239 - [CONV] Implementing new converter for IXI dataset
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
- 8 comments
Labels: converter
#1238 - [ENH] Add function `log_and_raise`
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1237 - [REF] Move `PETSurface` pipeline to new `clinica.pipelines.pet` module
Pull Request -
State: open - Opened by NicolasGensollen 3 months ago
#1236 - [ENH] Add enumeration for hemispheres
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1235 - [FIX] Fix cross sectional to longitudinal conversion logic
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
Labels: fix
#1234 - [BUG] Type issue when trying to make a cross-sectional BIDS dataset longitudinal
Issue -
State: closed - Opened by AliceJoubert 3 months ago
Labels: bug
#1233 - Release `0.8.2`
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1232 - [CI] Remove poetry install step from documentation pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1231 - [MAINT] Backport to maint-0.8
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1230 - [FIX] Change check on type in converter NIFD
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
Labels: fix
#1229 - [FIX] Change check on type in converter NIFD
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
#1228 - Investigate removal of weird break statement in `compute_atlas_statistics`
Issue -
State: open - Opened by NicolasGensollen 3 months ago
#1227 - [FIX] Change check on type in converter NIFD
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
- 1 comment
Labels: converter, fix
#1226 - [REF] Move `PETVolume` pipeline to new `clinica.pipelines.pet` module
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1225 - Bump zipp from 3.17.0 to 3.19.1
Pull Request -
State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies, python
#1224 - [REF] Move `PETLinear` pipeline to new `clinica.pipelines.pet` module
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1223 - [REF] Move class `PETPipeline` to new `clinica.pipelines.pet` module
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1222 - Bump certifi from 2024.2.2 to 2024.7.4
Pull Request -
State: closed - Opened by dependabot[bot] 3 months ago
Labels: dependencies, python
#1221 - [DOC] Clarify TSV file origin for PET Surface pipeline
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
Labels: doc
#1220 - [ENH] Proposition of a function to translate study ids to bids ids
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
- 2 comments
Labels: enhancement, converter
#1219 - [ENH] Improve tests for bids_utils
Pull Request -
State: closed - Opened by AliceJoubert 3 months ago
Labels: converter
#1218 - [FIX] ADNI-to-BIDS now takes into account existing scans.tsv
Pull Request -
State: open - Opened by AliceJoubert 3 months ago
Labels: converter, fix
#1217 - [FIX] Fix issue with enumeration as default value in CLI
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1216 - [MAINT] Bump `requests` from `2.32.0` to `2.32.3`
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1215 - [FIX] Fix function `crop_nifti` to perform cropping instead of resampling
Pull Request -
State: closed - Opened by NicolasGensollen 3 months ago
#1214 - Function `crop_nifti` performs resampling instead of cropping
Issue -
State: closed - Opened by NicolasGensollen 3 months ago
Labels: bug
#1213 - [TEST] Mock remote atlases in unit tests
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
- 1 comment
#1212 - Remote atlas unit tests are failing
Issue -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: bug
#1211 - Bump scikit-learn from 1.4.0 to 1.5.0
Pull Request -
State: closed - Opened by dependabot[bot] 4 months ago
Labels: dependencies, python
#1210 - Bump urllib3 from 2.2.0 to 2.2.2
Pull Request -
State: closed - Opened by dependabot[bot] 4 months ago
Labels: dependencies, python
#1209 - [DOC] Online documentation not accessible until early July
Issue -
State: closed - Opened by NicolasGensollen 4 months ago
- 1 comment
Labels: doc
#1208 - [REF] BIDS : proposition for function create_participants_df from bids_utils
Pull Request -
State: open - Opened by AliceJoubert 4 months ago
Labels: converter
#1207 - [ENH] Use enumeration for SUVR reference regions
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
#1206 - [MAINT] Missing unit tests for bids_utils
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
- 1 comment
Labels: converter
#1205 - [TEST] Update test for nifd-to-bids converter
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
#1204 - [MAINT] Remove function BidsGuess
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
Labels: converter
#1203 - [TEST] Update test for aibl-to-bids converter
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
#1202 - [TEST] Update test for habs-to-bids converter
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
#1201 - [CI] Fix deploy step in documentation pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: CI
#1200 - [REF] BIDS : refactor function `create_participants_df` from `bids_utils`
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
Labels: converter
#1199 - [DOC] ADNI-to-BIDS : add Field Mapping (FMAP) specificities
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
- 1 comment
Labels: converter, doc
#1198 - [FIX] ADNI-to-BIDS fmap conversion : delete real/imaginary files properly, enable converting to the same folder for fmap
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
- 2 comments
Labels: converter, fix
#1197 - The links for installing ITK are broken
Issue -
State: open - Opened by NicolasGensollen 4 months ago
- 1 comment
Labels: doc
#1196 - [ENH] ADNI-to-BIDS converts only subjects in the provided ADNI directory if no subjects list is given
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
Labels: enhancement, converter
#1195 - ADNI_to_BIDS utils : `load_clinical_csv`, hidden csv file matching, issue #1163
Pull Request -
State: open - Opened by HuguesRoy 4 months ago
- 1 comment
Labels: Stale, fix
#1194 - [CI] Fix typo in GitHub context variable in documentation deploy pipeline
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: CI
#1193 - [CI] Fix wrong folder name when deploying doc
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: CI
#1192 - [CI] Fix deployed documentation folder names
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: CI
#1191 - [CI] Use Github Actions to build and deploy documentation
Pull Request -
State: closed - Opened by NicolasGensollen 4 months ago
Labels: CI
#1190 - [ENH] Proposition for adni-to-bids converter FMAP renaming
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
- 3 comments
Labels: enhancement, converter
#1189 - [BUG] In adni-to-bids, empty sessions files are not cleaned up
Issue -
State: open - Opened by AliceJoubert 4 months ago
- 2 comments
Labels: bug, enhancement
#1188 - [FIX] Properly deleting real and imaginary files for FMAP in adni-to-bids converter.
Pull Request -
State: closed - Opened by AliceJoubert 4 months ago
- 2 comments
Labels: fix
#1187 - Bump requests from 2.31.0 to 2.32.0
Pull Request -
State: closed - Opened by dependabot[bot] 4 months ago
Labels: dependencies, python
#1186 - [ENH] Enable debugging in converters
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: enhancement, converter
#1185 - [FIX] Fix calls to `matplotlib.cm.get_cmap`
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: fix
#1184 - [FIX] Fix handlers addition to the clinica logger
Pull Request -
State: closed - Opened by NicolasGensollen 5 months ago
Labels: fix