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Issues list

[BUG] Path to trained model from brainmapper is a str, and doesn't have .suffix attribute bug Something isn't working
#470 by alessandrofelder was closed Nov 14, 2024
1
@alessandrofelder
2-D WSI Images enhancement New feature or request
#466 by eshasadia was closed Oct 29, 2024
1
[Feature] Load model weights via the napari GUI bug Something isn't working
#459 by IgorTatarnikov was closed Oct 8, 2024
1
For 2D filtering in the detection step, option for a fixed threshold instead of the n_sds_above_mean_thresh enhancement New feature or request
#449 by xmikezheng20 was closed Aug 8, 2024
@alessandrofelder
3
[BUG] Keras's incompatibility with numpy>=2 breaks cellfinder's model training bug Something isn't working
#446 by alessandrofelder was closed Sep 12, 2024
1
4
Structure splitting unsigned underflow bug Something isn't working
#435 by matham was closed Jun 10, 2024
2
2
Remove examples? enhancement New feature or request
#416 by adamltyson was closed May 14, 2024
1
1
Investigate why there's a transpose operation that cannot be removed. bug Something isn't working
#411 by adamltyson was closed May 7, 2024
8
[BUG] Cellfinder seems to get stuck on structure splitting in some situations? bug Something isn't working
#409 by alessandrofelder was closed May 9, 2024
4
Move data loading code to brainglobe_utils.image_io.load enhancement New feature or request
#405 by adamltyson was closed May 15, 2024
1
[BUG] Intermittent Segmentation Faults on CI bug Something isn't working
#404 by willGraham01 was closed May 9, 2024
14
[BUG] Writing custom config is not possible on HPC with shared installation of BrainGlobe bug Something isn't working
#393 by alessandrofelder was closed Mar 27, 2024
1
@alessandrofelder
Downloading the trained model crashes if the model directory already exists enhancement New feature or request
#390 by adamltyson was closed May 9, 2024
1
Analysis csv output does not include data about all cells classified bug Something isn't working
#389 by Eddymorphling was closed Feb 20, 2024
[Feature] Use uint16 for cell candidate detection when signal_array is small, to save memory enhancement New feature or request
#386 by alessandrofelder was closed Feb 16, 2024
3
[BUG] Inappropriate handling of unsigned integer data types bug Something isn't working
#383 by alessandrofelder was closed Feb 27, 2024
1
@alessandrofelder
1
[BUG] Multiprocessing threading causing timeouts bug Something isn't working
#372 by willGraham01 was closed Feb 20, 2024
@alessandrofelder @willGraham01
7
[BUG] CI breaks with pytest v8.0.0 bug Something isn't working
#368 by willGraham01 was closed Feb 7, 2024
1
1
[Feature] Add keyboard shortcuts to the curation interface enhancement New feature or request
#364 by adamltyson was closed Feb 7, 2024
1
@adamltyson
[Feature] Warn the user when overwriting training data in the curation interface enhancement New feature or request
#363 by adamltyson was closed Jan 18, 2024
1
@adamltyson
Update to Python 3.11 cellfinder-core Issue concerns the core backend enhancement New feature or request
#266 by adamltyson was closed May 29, 2024
1
Save models into e.g. .brainglobe/cellfinder/models cellfinder-core Issue concerns the core backend enhancement New feature or request
#268 by adamltyson was closed May 9, 2024
1
Raise a more informative error message with 2.5D data cellfinder-core Issue concerns the core backend enhancement New feature or request
#269 by adamltyson was closed Jan 10, 2024
1
Deprecation of pandas.DataFrame.append() causing cellfinder to crash bug Something isn't working
#254 by adamltyson was closed Nov 15, 2023
1
@alessandrofelder
Remove test/data/brain directory cellfinder-core Issue concerns the core backend enhancement New feature or request
#271 by adamltyson was closed Jan 4, 2024
1
@alessandrofelder
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