BUG
- Multiclass ignored during inference if n_input and n_output are different. View pull request
- Merged participants.tsv file saving bug correction. View pull request
- Make change_keys method from ConfigurationManager compatible with python3.8. View pull request
DOCUMENTATION
- Add DOI JOSS. View pull request
- Adding Zenodo DOI. View pull request
ENHANCEMENT
- New loader: input from multiple BIDS datasets. View pull request
- Add pre-commit hooks to limit file size to 500KB . View pull request
- Shared weights for the two first FiLM generator layers. View pull request
- Allow for non-dictionary hyperparameters in automate_training. View pull request
FEATURE
- Enable the pipeline to run with inputs from multiple BIDS datasets. View pull request
BUG
- Fix structure wise uncertainty computation. View pull request
- Fix bugs in plot film params. View pull request
- Change condition to save FiLM parameters . View pull request
- Fix store film params. View pull request
- soft_gt param: only active after Data Augmentation. View pull request
- AnimatedGIf import and documentation. View pull request
- Fix pandas typecast issue in test_split_dataset.py. View pull request
- Make sure test_HeMIS runs tests in order. View pull request
- Fix loader/adaptative.py code with reading/writing HDF5 files. View pull request
- Automate_training: fix bug for multiple parameters. View pull request
- Load 2D GT slice as uint if not soft training. View pull request
DOCUMENTATION
- Updated affiliations, Added Marie-Helene. View pull request
- Fix missing dilate-gt.png. View pull request
- Reformat configuration_file.rst for docs. View pull request
- Add metavar to parser. View pull request
- Add a README for the Sphinx docs. View pull request
- Add documentation on packaged model format. View pull request
- Add the Twitter badge. View pull request
- Add new custom css rule for table in purpose section (#617). View pull request
- Add DeepReg to comparison table. View pull request
- Update PyTorch Ref. View pull request
- Small clarifications and typos fixes in the Unet tutorial. View pull request
- Added warning on installation to make sure proper Python version is installed. View pull request
- Made the BIDS example more general for the audience. View pull request
ENHANCEMENT
- Add new keys config manager. View pull request
- Store FiLM parameters during testing instead of training. View pull request
- Externalize command, log_directory, and bids_path fields from JSON config files to CLI. View pull request
- New loader: BidsDataframe class. View pull request
- version_info.log added in the log directory. View pull request
- Indicate folder created after running ivadomed_download_data. View pull request
- Add explanation for Windows incompatibility in installation docs. View pull request
- Specify Python version in setup.py. View pull request
- Add new filter to SliceFilter class. View pull request
- New loader: Adapt splitting methods. View pull request
TESTING
- Add functional test for automate_training run_test flag. View pull request
- Add test template files. View pull request
- Remove the testing_data folder from ivadomed. View pull request
- Bug in Coveralls release 3.0.0. View pull request
- Add tests for create_bids_dataframe function. View pull request
REFACTORING
- Reformat configuration_file.rst for docs. View pull request
- New loader: BidsDataframe class. View pull request
- Standardize the gpu ID argument. View pull request
- Unit Test cleanup. View pull request
- Remove test_script and ivado_functional_test files. View pull request
BUG
- Fix missing attribute softmax. View pull request
- Split_dataset: consider center_list when per_patient is used. View pull request
DOCUMENTATION
- Make usage clearer. View pull request
- Removing support for Python 3.9 (for now). View pull request
- Updating comparison table after review. View pull request
ENHANCEMENT
- Remove small for multiclass. View pull request
- Save config file before training. View pull request
- Apply bounding box safety factor in segment volume. View pull request
- Multichannel support for convert_to_onnx script. View pull request
FEATURE
- Select subjects for training based on metadata. View pull request
BUG
- Make is_2d retrocompatibility. View pull request
- Support multiclass if first class missing. View pull request
DOCUMENTATION
- AdapWing 3D: fix comment. View pull request
- paper.md: overview_title.png path. View pull request
- paper.bib: correct typo. View pull request
- Fix DOIs in paper.bib. View pull request
- Redirect to DokuWiki/GitHub from the contributing guidelines. View pull request
- Change path for images. View pull request
ENHANCEMENT
- automate_training: add new parameter to change multiple params. View pull request
- Softseg multiclass. View pull request
- Multiclass and multichannel support for segment volume. View pull request
FEATURE
- Create sample to balance metadata. View pull request
BUG
- paper.md: Fixed broken link. View pull request
- Change default value of config.json. View pull request
DEPENDENCIES
- Requirements.txt: force onnxruntime version. View pull request
- set h5py version in requirements.txt. View pull request
DOCUMENTATION
- JOSS submission. View pull request
ENHANCEMENT
- Some fixes to logging. View pull request
FEATURE
- Training without test set. View pull request
- FiLM for 3D Unet. View pull request
REFACTORING
- Refactor utils.py. View pull request
BUG
- Fix missing version.txt in wheels package. View pull request
DOCUMENTATION
- Added reference to arXiv citation. View pull request
- Documenting release workflow. View pull request
ENHANCEMENT
- Option to override postprocessing in segment volume. View pull request
- Configuration File Manager. View pull request
BUG
- Version format. View pull request
BUG
- Adapt all metrics to multiclass predictions. View pull request
- fix run_test gpu assignation. View pull request
DOCUMENTATION
- Improving documentation. View pull request
- Tutorial fix. View pull request
ENHANCEMENT
- Download data: Add models. View pull request
- Refactoring: Changing print and exit to raise error. View pull request
- Remove "eval" cmd. View pull request
- Custom final activation. View pull request
- Display version. View pull request
FEATURE
- Use custom data for film. View pull request
- Uncertainty as post-processing step. View pull request
BUG
- Cover image path change on README. View pull request
BUG
- Minor fixes prior release. View pull request
DEPENDENCIES
- Modify scripts/training_curve.py to avoid tensorflow dependency. View pull request
DOCUMENTATION
- Updating documentation. View pull request
- Tutorial on uncertainty estimation. View pull request
- Tutorial cascaded architecture. View pull request
ENHANCEMENT
- Retrain model without resetting weights. View pull request
- Normalized ReLU. View pull request
- Create Ivadomed download function. View pull request
FEATURE
- Evenly distribute subjects according to metadata. View pull request
- Resume training. View pull request
- Find optimal threshold with ROC analysis. View pull request
- Generate GIF during training. View pull request
- Add classifier model . View pull request
TESTING
- Create coverage and improve testing. View pull request
BUG
- Automate training seed. View pull request
- Automate training bug. View pull request
- Apply preprocessing after filter ROI. View pull request
- Fix bug in automate training. View pull request
- Transformations at test time: minor fixes. View pull request
DOCUMENTATION
- Documentation: metric more formal defintion. View pull request
- Fix few documentation issues, add content. View pull request
- Soft training: minor fixes. View pull request
- Tutorial 01: One class segmentation 2D Unet. View pull request
ENHANCEMENT
- Split dataset with no test center specified. View pull request
- showing time after training (begin/end/duration). View pull request
- Optimize binarization. View pull request
- Automate training improvement. View pull request
- Simplify code when filtering ROI. View pull request
- Scripts: Add entry points, modify doc display, and started to add github action testing. View pull request