Published September 19, 2022
| Version 0.0.15
Software
Open
CBICA/GaNDLF: Major release before dependency updates.
Creators
- Sarthak Pati1
- Siddhesh Thakur2
- Megh
- junwenwu
- Alexander Getka
- Orhun Güley
- Sofia-Mouchtaris
- Alexander Getka3
- Ujjwal Baid
- Caleb Grenko4
- Patrick Foley5
- bahetibhakti
- karkadad
- Jose L. Agraz, PhD6
- Spyridon Thermos
- Spyridon (Spyros) Bakas2
- Garv Mehdiratta
- vahluw
- Anish Shriram
- Ekaterina Sedykh
- Karol-G
- msheller
- dlang95
- iskobleva
- 1. @cbica, @fets-ai, @conda-forge, @bioconda
- 2. University of Pennsylvania
- 3. @CBICA
- 4. National Institutes of Health
- 5. Intel Corporation
- 6. Agraz Research
Description
What's Changed
- Python 3.8 fixes by @AlexanderGetka-cbica in https://github.com/CBICA/GaNDLF/pull/453
- Version updated for development by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/452
- Fixing the
stride_sizecheck for histology inference by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/455 - Update CI (PyTest to 3.8, and Docker Image creation) by @AlexanderGetka-cbica in https://github.com/CBICA/GaNDLF/pull/461
- Bump numpy from 1.21.0 to 1.22.0 by @dependabot in https://github.com/CBICA/GaNDLF/pull/460
- Add collectStats functionality for classification tasks by @garvm7 in https://github.com/CBICA/GaNDLF/pull/463
- Ensuring params are populated correctly even if only testing data is invoked by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/466
- Added blending probability maps with original WSI by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/465
- Update data type for stride size by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/458
- Add FP16 option for model optimization by @junwenwu in https://github.com/CBICA/GaNDLF/pull/457
- Added option to not pick up pretrained weights for
imagenet_vggby @sarthakpati in https://github.com/CBICA/GaNDLF/pull/469 - Added ability to print model size and summary at run-time by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/468
- Better handling of large WSIs by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/472
- Added exception testing for histology classification by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/477
- Fixing reported Codacy fixes by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/474
- Formatting fixes for readability by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/478
- Completely excising VIPS from GaNDLF by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/480
- Update test workflow with file path filtering by @AlexanderGetka-cbica in https://github.com/CBICA/GaNDLF/pull/473
- Saving report for failure cases from
pytestas a separate log by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/482 - New metric added to calculated per-class accuracy by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/486
- Single utility function to return array from tensor/image by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/483
- Increasing unit test coverage by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/487
- Fixed the order of coordinates in
predictions.csvfor WSI inference by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/490 - Added ability to call specific post processing algorithms after reverse one-hot encoding by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/494
- Adding Largest connected component analysis as a post-processing step by @Geeks-Sid in https://github.com/CBICA/GaNDLF/pull/467
- Dedicated rescaling preprocessing function added for increased flexibility by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/496
- Fixes multi-batch issue for
per_label_accuracyby @sarthakpati in https://github.com/CBICA/GaNDLF/pull/498 - Included classification-specific metrics using overall predictions and ground truths by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/500
- version update for tagging by @sarthakpati in https://github.com/CBICA/GaNDLF/pull/501
- @garvm7 made their first contribution in https://github.com/CBICA/GaNDLF/pull/463
Full Changelog: https://github.com/CBICA/GaNDLF/compare/0.0.14...0.0.15
Files
CBICA/GaNDLF-0.0.15.zip
Files
(460.0 kB)
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Additional details
Related works
- Is supplement to
- https://github.com/CBICA/GaNDLF/tree/0.0.15 (URL)