Ecosyste.ms: Issues

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GitHub / nipreps/mriqc issues and pull requests

#1381 - Testing requirements for NMIND Bronze Badge

Issue - State: open - Opened by LuciMoore 5 days ago
Labels: documentation

#1380 - container versioning is not working

Issue - State: open - Opened by muehlboeck 23 days ago - 1 comment
Labels: bug

#1379 - Update sbatch to be more detailed for newer users

Pull Request - State: closed - Opened by mckenziephagen 23 days ago - 1 comment

#1378 - file size reporting: adaptive unit

Issue - State: open - Opened by bpinsard 23 days ago

#1377 - ENH: Remove additional `setup-python` action in GHA workflow file

Pull Request - State: closed - Opened by jhlegarreta about 1 month ago - 1 comment

#1376 - ENH: Specify Python version for `ruff`

Pull Request - State: closed - Opened by jhlegarreta about 1 month ago - 2 comments

#1375 - Upgrade to ruff 0.9.1

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 month ago

#1374 - DOC: Continue moving documentation to the *NiPreps*'s site

Pull Request - State: closed - Opened by oesteban about 1 month ago

#1373 - MAINT: Add @vferat to ``CONTRIBUTORS.md``

Pull Request - State: closed - Opened by oesteban about 1 month ago - 2 comments

#1372 - FIX: Containers report wrong version (revision)

Pull Request - State: closed - Opened by oesteban about 1 month ago

#1371 - FIX: Decode bytes to produce a string

Pull Request - State: closed - Opened by oesteban about 1 month ago

#1370 - ENH: Consider warnings as errors when running `pytest`

Pull Request - State: open - Opened by jhlegarreta about 1 month ago - 2 comments

#1369 - ENH: Remove redundant DIPY function

Pull Request - State: closed - Opened by jhlegarreta about 1 month ago - 1 comment

#1368 - doc: Fix missing code block start

Pull Request - State: closed - Opened by effigies about 1 month ago

#1367 - ENH: Reorganize documentation and redirect to nipreps docs

Pull Request - State: closed - Opened by oesteban about 2 months ago

#1366 - BUG: Fix elapsed runtime format

Pull Request - State: closed - Opened by jhlegarreta about 2 months ago - 2 comments

#1365 - Nan error

Issue - State: open - Opened by dhairya2001 about 2 months ago - 1 comment
Labels: bug

#1364 - Help with HBCD data dictionary for MRIQC output

Issue - State: closed - Opened by LuciMoore about 2 months ago - 2 comments
Labels: documentation

#1363 - Docker documentation

Issue - State: closed - Opened by mckenziephagen 3 months ago - 3 comments
Labels: documentation

#1360 - mriqc 24.0.2 crash

Issue - State: closed - Opened by bpinsard 4 months ago - 1 comment
Labels: bug

#1358 - Multi-shell DTI report showing same SNR for best and worst volumes

Issue - State: open - Opened by HQHuang 5 months ago - 3 comments
Labels: bug

#1357 - FIX: Containers report wrong version

Pull Request - State: closed - Opened by oesteban 5 months ago

#1356 - FIX: Passing ``bytes`` into ``str.join()``

Pull Request - State: closed - Opened by oesteban 5 months ago

#1355 - Updated SBATCH script for MRIQC protocol manuscript

Pull Request - State: closed - Opened by mckenziephagen 6 months ago - 1 comment

#1354 - BUG: puzzling erroneous version reporting in docker

Issue - State: closed - Opened by bpinsard 6 months ago - 4 comments
Labels: bug

#1353 - Can't run mriqc group analysis on a subset of the sample (separate echos)

Issue - State: open - Opened by caaam3 6 months ago - 3 comments
Labels: bug

#1352 - Exception raised while executing Node _UploadMetric

Issue - State: closed - Opened by DVSneuro 6 months ago - 4 comments
Labels: bug

#1351 - FIX: Optimize interface to minimize memory fingerprint

Pull Request - State: closed - Opened by oesteban 6 months ago

#1349 - Add a HPC troubleshooting section to the documentation

Pull Request - State: closed - Opened by vferat 6 months ago - 4 comments

#1348 - Apply ruff 0.6

Pull Request - State: closed - Opened by DimitriPapadopoulos 6 months ago - 3 comments

#1343 - ENH: Add license NOTICE to start banner

Pull Request - State: closed - Opened by oesteban 6 months ago

#1339 - ENH: Enable writing crashfiles in compressed-pickle format

Pull Request - State: closed - Opened by oesteban 6 months ago

#1336 - ENH: Handle WebAPI timeouts more gently

Pull Request - State: closed - Opened by oesteban 6 months ago

#1334 - Funky fMRIPlots with multiecho datasets

Issue - State: open - Opened by oesteban 6 months ago
Labels: bug, impact:high, multiecho

#1333 - DWI pipeline -- ``RuntimeWarning``

Issue - State: open - Opened by oesteban 6 months ago - 2 comments

#1332 - FIX: Normalize bids-filters' modality keys to be lowercase

Pull Request - State: closed - Opened by oesteban 6 months ago

#1331 - BIDS filters apparently not working for T1w and T2w

Issue - State: closed - Opened by oesteban 6 months ago
Labels: bug

#1328 - FIX: Remove unreachable code within DWI pipeline

Pull Request - State: closed - Opened by oesteban 6 months ago

#1327 - FIX: Revise bugfix #1324

Pull Request - State: closed - Opened by oesteban 6 months ago

#1326 - MAINT: Remove *Pandas*'s ``FutureWarning``

Pull Request - State: closed - Opened by oesteban 6 months ago

#1325 - FIX: Limit IQMs' node number of processes and therefore, memory

Pull Request - State: closed - Opened by oesteban 6 months ago

#1324 - FIX: Resolve numeric overflow in drift estimation node

Pull Request - State: closed - Opened by oesteban 6 months ago - 1 comment

#1323 - FIX: Address memory issues in DWI pipeline

Pull Request - State: closed - Opened by oesteban 6 months ago

#1322 - FileNotFoundError during funcMRIQC processing

Issue - State: closed - Opened by suxpert 6 months ago - 4 comments
Labels: bug

#1321 - STY: Format jupyter notebooks

Pull Request - State: closed - Opened by oesteban 6 months ago

#1319 - Error with metric upload to API

Issue - State: closed - Opened by mckenziephagen 6 months ago - 6 comments
Labels: bug

#1318 - Avoid unexpected exists when performing T1w images with low qualities

Issue - State: open - Opened by Clancy-wu 6 months ago - 4 comments
Labels: bug, sMRI, help wanted, impact:medium, effort:high, wontfix, infant imaging

#1317 - ENH: Crawl dataset's metadata only once and before Nipype's workflow

Pull Request - State: closed - Opened by oesteban 7 months ago - 6 comments

#1316 - Multi-echo BOLD pipeline: potential waste relating/after metadata extraction

Issue - State: closed - Opened by oesteban 7 months ago
Labels: bug, multiecho

#1315 - Numeric overflow when computing drift on int16 DWI (that has slope)

Issue - State: closed - Opened by psadil 7 months ago
Labels: bug

#1314 - MAINT: Remove redundant licence definition

Pull Request - State: closed - Opened by DimitriPapadopoulos 7 months ago - 7 comments

#1313 - ENH: Leverage new spun-off apply interface

Pull Request - State: closed - Opened by oesteban 7 months ago

#1312 - ENH: Update to new NiTransforms' ``apply()``

Pull Request - State: closed - Opened by oesteban 7 months ago

#1311 - ENH(dMRI): Deal gracefully with small CC masks

Pull Request - State: closed - Opened by oesteban 7 months ago - 3 comments

#1310 - MAINT: Flexibilize pandas pinned version

Pull Request - State: closed - Opened by oesteban 7 months ago

#1309 - FIX: Set ``n_procs`` instead of ``num_threads`` on node ``apply_hmc``

Pull Request - State: closed - Opened by oesteban 7 months ago - 1 comment

#1308 - Incorrect setting of `num_threads` instead of `n_procs` on nipype node

Issue - State: closed - Opened by oesteban 7 months ago
Labels: bug

#1307 - Is it possible to not hardcode HOME in Dockerfile?

Issue - State: open - Opened by yarikoptic 8 months ago - 3 comments

#1306 - DOC: add to the documentation what summary_fg means

Pull Request - State: closed - Opened by celprov 8 months ago - 2 comments

#1305 - IQMs for DWI report

Issue - State: open - Opened by dkp 8 months ago
Labels: documentation

#1304 - non-readable python files in a container

Issue - State: open - Opened by yarikoptic 8 months ago - 3 comments
Labels: bug

#1303 - T2w and acq-hippo_T2w mixed up in report

Issue - State: open - Opened by dkp 9 months ago - 5 comments
Labels: bug

#1302 - DWI bids compliant but MRIQC cannot process

Issue - State: closed - Opened by dkp 9 months ago - 17 comments
Labels: bug

#1301 - DOC: Add JHLegarreta to contributors list

Pull Request - State: closed - Opened by jhlegarreta 9 months ago - 1 comment

#1300 - MRIQC trouble with multiecho data?

Issue - State: closed - Opened by jameswyngaarden 9 months ago - 2 comments
Labels: bug

#1298 - PlotMosaicNoise node receives two connections to "in_file"

Issue - State: closed - Opened by tclose 9 months ago
Labels: bug

#1297 - Add UploadMetrics to Diffusion workflow?

Issue - State: open - Opened by agt24 10 months ago - 1 comment

#1296 - STY: Apply ruff/flake8-implicit-str-concat rule ISC001

Pull Request - State: closed - Opened by DimitriPapadopoulos 10 months ago

#1295 - FIX: Multiecho fMRI crashing with 'unhashable type' errors

Pull Request - State: closed - Opened by oesteban 10 months ago

#1294 - ENH: Add CLI entry point test

Pull Request - State: closed - Opened by jhlegarreta 10 months ago - 2 comments

#1293 - ENH: Add test for the CLI parser

Pull Request - State: closed - Opened by jhlegarreta 10 months ago - 5 comments

#1292 - ENH: Add gradient plot method

Pull Request - State: closed - Opened by jhlegarreta 10 months ago - 5 comments

#1291 - WIP: implement a textual summary for DWI

Pull Request - State: open - Opened by celprov 10 months ago

#1290 - Further problem with multi-echo lists: `TypeError: unhashable type: 'list'`

Issue - State: closed - Opened by celprov 10 months ago - 2 comments
Labels: bug, fMRI

#1288 - ENH: Added type hints to config module

Pull Request - State: closed - Opened by zvi-quantivly 10 months ago

#1287 - Filter metadata fields before plugging into the report.

Issue - State: open - Opened by oesteban 10 months ago - 1 comment

#1286 - ENH: Flatten multi-echo lists in circumstances that they fail

Pull Request - State: closed - Opened by oesteban 10 months ago - 2 comments

#1285 - ENH: Allow moving the cache folder with an environment variable

Pull Request - State: closed - Opened by oesteban 10 months ago

#1283 - Head motion estimation on DWI is poor

Issue - State: open - Opened by oesteban 10 months ago - 2 comments

#1282 - TypeError: expected str, bytes or os.PathLike object, not list

Issue - State: closed - Opened by DVSneuro 10 months ago - 6 comments
Labels: bug

#1281 - FIX: Bug in *toml* loader crashing with mixed arrays in config

Pull Request - State: closed - Opened by oesteban 10 months ago

#1280 - REL: 24.0.0rc8

Pull Request - State: closed - Opened by oesteban 10 months ago

#1279 - STY: Reformat with *ruff*

Pull Request - State: closed - Opened by oesteban 10 months ago

#1278 - FIX: Remove *DataLad* as a node

Pull Request - State: closed - Opened by oesteban 10 months ago

#1277 - ENH: Annotate nodes with ``n_procs`` to allow safe parallelization

Pull Request - State: closed - Opened by oesteban 10 months ago

#1276 - FIX: Calculation of trivial shells

Pull Request - State: closed - Opened by oesteban 10 months ago

#1275 - concurrent.futures error

Issue - State: closed - Opened by madeleinebarter 10 months ago - 8 comments
Labels: bug

#1274 - Fail for non-formatted code

Pull Request - State: closed - Opened by zvi-quantivly 10 months ago

#1273 - STY: Applied ruff formatting

Pull Request - State: closed - Opened by zvi-quantivly 10 months ago - 1 comment

#1272 - FIX: Finalized naming and connection of DWI IQMs

Pull Request - State: closed - Opened by oesteban 10 months ago