Skip to content

Issues: spinalcordtoolbox/spinalcordtoolbox

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

327 Open 2,607 Closed
327 Open 2,607 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

Improve testing coverage of CLI entry points using basic test template enhancement category: improves performance/results of an existing feature tests context: unit, integration, or functional tests
#4637 opened Sep 27, 2024 by joshuacwnewton
dipy is lazy-loaded incorrectly, causing an AttributeError when running sct_maths -denoise bug category: fixes an error in the code sct_maths context:
#4636 opened Sep 26, 2024 by hazedine 6.5
1
@joshuacwnewton
1
Very long execution time bug category: fixes an error in the code
#4635 opened Sep 23, 2024 by jcohenadad
11
Move "Labeling conventions" documentation page to a more visible location documentation category: readthedocs, sourceforge, or SCT courses
#4632 opened Sep 19, 2024 by joshuacwnewton 6.5
@joshuacwnewton
Create tutorial for rootlets model documentation category: readthedocs, sourceforge, or SCT courses
#4628 opened Sep 16, 2024 by valosekj 6.5
1
@valosekj
sct_label_vertebrae fails if some discs labels is not covered by the segmentation bug category: fixes an error in the code sct_label_vertebrae context:
#4627 opened Sep 12, 2024 by sandrinebedard
1
Integrate TotalSpineSeg project into SCT feature category: new functionality good internship project sct_deepseg context: Global entry point for all deep learning segmentation methods
#4626 opened Sep 11, 2024 by joshuacwnewton
2 tasks
@mguaypaq @joshuacwnewton
Create a morphometrics API refactoring category: improves code structure without affecting user-facing functionality sct_analyze_lesion context: SCT API: process_seg.py context: sct_extract_metric context: sct_process_segmentation context:
#4624 opened Sep 6, 2024 by mguaypaq
Installer fails on macOS with write permission error for $SCT_DIR installation category: install_sct or pip/setup.py user requested Raised by user on the SCT forum/email/GitHub. Be sure to notify them when fixed in a release.
#4623 opened Sep 5, 2024 by tomDag25
@joshuacwnewton
5
Output 'pix'/'phys' coordinates in other coordintate systems bug category: fixes an error in the code sct_get_centerline context:
#4621 opened Sep 3, 2024 by po09i 6.5
1
@joshuacwnewton
4
Standardize on matplotlib style for SCT (implicit vs. explicit, pyplot-managed figures) refactoring category: improves code structure without affecting user-facing functionality SCT API: reports context: sct_qc context:
#4613 opened Aug 28, 2024 by joshuacwnewton
sct_analyze_lesion - tissue bridges QC - possible improvements enhancement category: improves performance/results of an existing feature sct_analyze_lesion context: user requested Raised by user on the SCT forum/email/GitHub. Be sure to notify them when fixed in a release.
#4608 opened Aug 23, 2024 by valosekj 6.5
@valosekj
2
sct_analyze_lesion - output lesion length and width for the midsagittal slice sct_analyze_lesion context: user requested Raised by user on the SCT forum/email/GitHub. Be sure to notify them when fixed in a release.
#4607 opened Aug 22, 2024 by valosekj 6.5
2
@valosekj
1
sct_analyze_lesion - add support for spinal levels feature category: new functionality sct_analyze_lesion context:
#4601 opened Aug 8, 2024 by valosekj
1
Clarify steps for installing SCT onto ComputeCanada Graham (requirements.txt conflicts) installation category: install_sct or pip/setup.py OS: Linux
#4593 opened Aug 6, 2024 by sandrinebedard
10
FMRI moco argparse help description refers to non-existent -p (should be -param instead) documentation category: readthedocs, sourceforge, or SCT courses sct_fmri_moco context:
#4577 opened Jul 29, 2024 by 4rnaudB
1
sct_register_multimodal is changing the data type when using nearest neighbours interpolation bug category: fixes an error in the code
#4572 opened Jul 22, 2024 by NathanMolinier 6.5
@joshuacwnewton
1
should sct_download_data remove output folder without asking permission? enhancement category: improves performance/results of an existing feature sct_download_data context:
#4562 opened Jul 15, 2024 by jcohenadad 6.5
2
Enable testing for non-master PRs CI category: TravisCI, GitHub Actions, etc.
#4558 opened Jul 8, 2024 by joshuacwnewton
1
Add detrending to sct_fmri_compute_tsnr feature category: new functionality sct_fmri_compute_tsnr context:
#4551 opened Jun 27, 2024 by 4rnaudB
2
Add -x label to sct_register_multimodal feature category: new functionality sct_register_multimodal context:
#4549 opened Jun 27, 2024 by jcohenadad
Add entry -p sct_deepseg feature category: new functionality sct_qc context:
#4545 opened Jun 20, 2024 by jcohenadad
2
Add edge (mirror) padding as preprocessing before inference for monai models enhancement category: improves performance/results of an existing feature sct_deepseg context: Global entry point for all deep learning segmentation methods
#4542 opened Jun 19, 2024 by naga-karthik
1
Move caching logic from callers to sct_straighten_spinalcord itself refactoring category: improves code structure without affecting user-facing functionality sct_straighten_spinalcord context:
#4540 opened Jun 18, 2024 by mguaypaq
Track upstream packages to determine when we can upgrade to numpy==2.0.0 maintenance refactoring category: improves code structure without affecting user-facing functionality upstream Issue caused by software dependencies
#4535 opened Jun 17, 2024 by joshuacwnewton 6.6
1
@joshuacwnewton
3
ProTip! Exclude everything labeled bug with -label:bug.