✨ New Features

• 7b88203 - Architecture: added ConvNeXt 3D architectures (commit by @muellerdo)
• 2cfec6e - Architecture: integrated ConvNeXt 3D architectures into AUCMEDI environment (commit by @muellerdo)
• cb41966 - added multi-modality support (commit by @muellerdo)
• 5fd029c - sitk_loader: allow more dynamic resampling in terms of multi-modality (commit by @muellerdo)
• 979a660 - Architectures: removed 2D ResNeXt image architecture support (commit by @muellerdo)
• 76866a9 - Architecture: added 2D ResNeXt (50 & 101), again... (commit by @muellerdo)

🐛 Bug Fixes

• a7e335c - Ensemble: fixed incorrect callback extension (commit by @muellerdo)
• 78b3078 - classes parameter (np.array) (commit by @Sassy-Nazogram)
• f6945b8 - Evaluation: changed datatype from float to object for ROC multi-lists (commit by @muellerdo)
• 6d0df6a - Evaluation: replaced np.object with object due to deprecated (commit by @muellerdo)
• 8cb896f - Evaluation: specified groupby column to be consistent with pandas 2.X (commit by @muellerdo)

♻️ Refactors

• 4530bb9 - AutoML: added Tensorflow Addons F1 to AutoML train again (commit by @muellerdo)
• e5940db - Tutorials: reverted to TF addons F1 metric in the tutorials (commit by @muellerdo)

✅ Tests

• c2ce77b - Architecture: added unittesting for ConvNeXt 3D (commit by @muellerdo)
• 7549dc8 - unittesting for 3D multi-modality data loading (commit by @muellerdo)
• 4414024 - sitk_loader: improved unittesting for resampling of multi-modality nii/mha volumes (commit by @muellerdo)

👷 Build System

• 800713b - increased package version 3D-classification-models to 1.0.7 (commit by @muellerdo)
• 4caf08d - Updated to version 0.8.2 (commit by @muellerdo)
• 7750c96 - Tensorflow: incrased package version to 2.11.1 (commit by @muellerdo)
• 8837e06 - Tensorflow-Addons: removed TF-addon and keras-applications support (commit by @muellerdo)
• 2ce29b2 - updated dependency list (commit by @muellerdo)
• 8b7da52 - Python: dropped Python3.8 for CI and added 3.9 & 3.10 (commit by @muellerdo)
• 6cbe6e9 - Python: removed Python 3.12 again from CI as there is no TF1.4 support there (commit by @muellerdo)
• 2de4ba3 - Tensorflow-Addons: added TFaddons back due to requirements for Keras ViT.. (commit by @muellerdo)
• fc11a51 - Keras-Applications: added also back Keras Applications (and 2D ResNeXt) as classification-models-3D require it... (commit by @muellerdo)
• 6990dd5 - Python: converted python version to strings to be 3.10 instead of 3.1 (commit by @muellerdo)
• 7152f87 - plotnine: upgraded plotnine to version 0.12.0 (commit by @muellerdo)
• 5db39c1 - plotnine: fixed version to 0.12.4 (commit by @muellerdo)
• c48c4c9 - scikit: updated scikit-learn & scikit-image (commit by @muellerdo)
• ba40783 - Pillow: updated Pillow to 10.2.0 for security (commit by @muellerdo)
• da8c660 - updated to version 0.9.0 (commit by @muellerdo)

📝 Documentation Changes

• 812bb88 - Tutorials: fixed incorrect link - solves #200 (commit by @muellerdo)

🔧 Chores

• 444c11d - updated copyright to 2023 (commit by @muellerdo)
• 729a275 - merged dev branch to ConvNeXt3D PR (commit by @muellerdo)
• 22d5415 - updated copyright to 2024 (commit by @muellerdo)
• a155af8 - updated copyright on website (commit by @muellerdo)

♻️ Refactors

• 80566ed - DataGenerator: removed overlooked debugging sys.out print (commit by @muellerdo)

👷 Build System

• ecef046 - Updated to version 0.8.1 (commit by @muellerdo)

✨ New Features

• 2e8f2a9 - DataGenerator: rework deprecated keras.Iterator to keras.Sequence - Closes #76,#189 (commit by @muellerdo)

🐛 Bug Fixes

• 8f1a2e8 - Evaluation: updated deprecated np.int to np.int8 for boolean to integer matrix conversion (commit by @muellerdo)

✅ Tests

• c70fc4c - NeuralNetwork: testing for repeatition capabilities in datagenerators (commit by @muellerdo)
• 5568cfa - DataGenerator: added iteration & repetition testing as well as batch access (commit by @muellerdo)

👷 Build System

• c27c7f1 - Codecov: added config file with threshold of 1% (commit by @muellerdo)
• dc264bf - Updated to version 0.8.0 (commit by @muellerdo)

📝 Documentation Changes

• 973ff46 - README: fixed package build status badge (commit by @muellerdo)

💥 BREAKING CHANGES

• due to b38dd6d - updated various package versions (commit by @muellerdo):

  updated various package versions

✨ New Features

• 82c3e3d - Architecture: added ConvNeXt - closes #101 (commit by @muellerdo)
• 5d94fbe - Architecture: added ConvNeXt to architecture library (commit by @muellerdo)

✅ Tests

• b379dc2 - Architecture: added unittesting for ConvNeXt (commit by @muellerdo)

👷 Build System

• 34dc3ca - TensorFlow: increased tensorflow to at least v2.10 (commit by @muellerdo)
• b38dd6d - updated various package versions (commit by @muellerdo)
• d089d88 - TensorFlow-Addons: fixed typo in version (commit by @muellerdo)
• efb6297 - Updated to version 0.7.3 (commit by @muellerdo)

📝 Documentation Changes

• 1e96578 - Example: removed template pipeline of standardized framework example (commit by @muellerdo)
• 6985b72 - Example: added link to Medium blog article (commit by @muellerdo)
• a3781fa - Example: added manuscripts to framework examples (commit by @muellerdo)
• e867b34 - Reference: added ref to application preprint paper (commit by @muellerdo)

👷 Build System

• dbbdbd6 - PRs: added code quality CI to PRs targeting master (commit by @muellerdo)
• 0da9e1b - protobuf: increased to v3.20.2 as security update (commit by @muellerdo)
• 41cc227 - matplotlib: maxed to v3.5.3 due to plotnine dependency (commit by @muellerdo)
• 73304f7 - Updated to version 0.7.2 (commit by @muellerdo)

📝 Documentation Changes

• 5405268 - Website: fixed a typo in the status bar (roadmap) (commit by @muellerdo)
• f3c3186 - Classifier: enhanced the example in the API ref (commit by @muellerdo)
• 1b0a51f - add links and fix example (commit by @SherlockMones)
• 90e4651 - fix links (commit by @SherlockMones)
• f555fce - stacking: fix example (commit by @SherlockMones)
• 0250281 - Example: added multiple API examples and tutorials (commit by @muellerdo)

✨ New Features

• f02195e - Evaluation: added show option for dataset evaluation plots (commit by @muellerdo)

🐛 Bug Fixes

• 976369a - Evaluation: fix incorrect AUC computation - closes #165 (commit by @muellerdo)
• cbe64f9 - Evaluation: add non-complete data support for confusion matrix - closes #167 (commit by @muellerdo)
• 81173d3 - XAI: replace separator chars with . for xai_decoder result saving - fixes #169 (commit by @muellerdo)

✅ Tests

• ed10587 - Evaluation: added edge case support of non-complete data for confusion matrix (commit by @muellerdo)
• c6dae5d - XAI: added test for xai_decoder with directory interface (commit by @muellerdo)

👷 Build System

• abb5601 - updated to version 0.7.1 (commit by @muellerdo)

📝 Documentation Changes

• 168c1e2 - Various updates in README and addition of tutorial placeholder on website (commit by @muellerdo)
• 96bca31 - README: removed getting started chapter title artefact (commit by @muellerdo)
• 5d336f4 - Subfunctions: removed artefact init docs of ABC (commit by @muellerdo)
• 173b529 - XAI: added return docs for xai_decoder - closes #143 (commit by @muellerdo)
• 96765ed - Contributing: enhanced contributing guideline (commit by @muellerdo)

✨ New Features

• 21323b5 - Ensemble: Implemented Composite (cross-validation based stacking) (commit by @muellerdo)
• 20f61f4 - AutoML: Implemented function block - training (commit by @muellerdo)
• 099e105 - AutoML: Added multilabel support for function block training (commit by @muellerdo)
• 74fcfbd - AutoML: added metadata storing in training block (commit by @muellerdo)
• 5fab10a - AutoML: Implemented function block prediction (commit by @muellerdo)
• 2a2e9e9 - AutoML: Implemented XAI option in code block inference (commit by @muellerdo)
• 5b4c095 - Evaluation: added support for transfer learning in fitting evaluation (commit by @muellerdo)
• 47aff85 - AutoML: added evaluation plot generation in block function training (commit by @muellerdo)
• fad6f2d - AutoML: implemented block function evaluation (commit by @muellerdo)
• f7ccf82 - AutoML: Added CLI parser for Training (commit by @muellerdo)
• c521785 - AutoML: added CLI interface for YAML (commit by @muellerdo)
• 0b52a90 - AutoML: added CLI interface for prediction (commit by @muellerdo)
• 6a54157 - AutoML: added CLI interface for evaluation (commit by @muellerdo)
• 2f90edd - AutoML: added more sanity checks to evaluation function block (commit by @muellerdo)
• 7f66f48 - performance: add display option for charts (commit by @SherlockMones)
• 87ae17a - io_interfaces: add file extension to index_list (commit by @SherlockMones)
• 2d563b0 - AutoML: added binary packaging via entry script (commit by @muellerdo)
• 2c5ac70 - data_processing: Improve documentation (commit by @SherlockMones)
• 3566791 - AutoML: reworked AutoML CLI arguments - closes #151 (commit by @muellerdo)
• 96c8d44 - AutoML: dockerized AUCMEDI AutoML - closes #150 (commit by @muellerdo)
• c53819f - evaluation: display fitting progress (commit by @SherlockMones)
• 4711894 - Evaluation: added full transfer learning support for fitting evaluation - closes #157 (commit by @muellerdo)
• cbc2510 - Stacking: added automated standardize and resize parameter estimation for DataGenerator (commit by @muellerdo)

🐛 Bug Fixes

• ea04aad - Ensemble: Added missing library import in Stacking & Bagging (commit by @muellerdo)
• cc53a57 - AutoML: changed incorrect grayscale parameter of DataGenerator in training function block (commit by @muellerdo)
• 8b973d2 - AutoML: some hotfixes for AutoML XAI support (commit by @muellerdo)
• 7c78357 - AutoML: incorrect output path as directory creation (commit by @muellerdo)
• 4a23572 - AutoML: added more config parsing for CLI (3D shape, input and output path) (commit by @muellerdo)
• c31355d - Evaluation: catch no-possible AUROC computation (commit by @muellerdo)
• f4b165c - AutoML: fixed multiple architecture passing for advanced training (commit by @muellerdo)
• 6729798 - Evaluation: fixed unequal length of training epochs by multi model pipelines (commit by @muellerdo)
• c5f9712 - AutoML: forget to exluce yaml parser function in main runner (commit by @muellerdo)
• 05169cf - XAI: added missing inverse of occlusion sensitivity heatmap (commit by @muellerdo)
• 87e3f9d - evaluation: fix evaluate training charts (commit by @SherlockMones)
• e474282 - Evaluation: added support for only transfer learning epochs in evaluate_fitting() (commit by @muellerdo)

⚡ Performance Improvements

• c79110f - Ensemble: Replaced python built-in multiprocessing to pathos multiprocessing (commit by @muellerdo)
• 816fea3 - Ensemble: Re-initialize NeuralNetworks in processes to allow custom loss functions (commit by @muellerdo)
• ab6c0bc - Ensemble: allow dumping of ensemble output into already existing directories (commit by @muellerdo)
• d3988a5 - AutoML: Various improvements of the function block training (commit by @muellerdo)
• e5b8ae2 - AutoML: added sanity checks for multi_label supported metalearners (commit by @muellerdo)
• 2b9b355 - Evaluation: call explicit categorical parsing of class names for omnious class names (numbers) (commit by @muellerdo)
• 834799e - AutoML: switched csvlogger to append mode (commit by @muellerdo)
• 850a6a1 - AutoML: adjusted t...

👷 Build System

• bc2104f - Unittesting: Renamed GitHub Action workflow for package building (commit by @muellerdo)
• bc34d09 - Code-Quality: Refactored code coverage GitHub Action workflow (commit by @muellerdo)
• 34bde90 - Code-Quality: Added GitHub Action commitlint for commit convention checking (commit by @muellerdo)
• f226d89 - Code-Quality: currently disabling commitlint (commit by @muellerdo)
• 43f6c8a - Code-Quality: added configuration file for commitlint (commit by @muellerdo)
• 67c6d9b - Updated to version 0.6.1 for Zenodo release (commit by @muellerdo)

✨ New Features

• de02965 - Bagging: Implemented training process for Bagging (also closes #121) (commit by @muellerdo)
• c7cbc8e - Bagging: Implemented Bagging training in separate Processes to avoid any garbage collection issues (commit by @muellerdo)
• c9ed177 - Bagging: Implemented Bagging inference functionality (commit by @muellerdo)
• f78bba3 - Bagging: Implemented Bagging dump (result storage) functionality (commit by @muellerdo)
• 41c4114 - Bagging: Implemented Bagging load (re-using result directory) functionality (commit by @muellerdo)
• 7014130 - Metalearner: Started working on Metalearners for later usage in Stacking (commit by @muellerdo)
• cdf9f54 - Metalearner: Implemented abstract base class for Metalearner (commit by @muellerdo)
• 168116f - Stacking: Implemented ensemble learning technique Stacking (commit by @muellerdo)
• 633af82 - Metalearner: Implemented Metalearner Logistic Regression (commit by @muellerdo)
• 726c6f2 - Metalearner: Implemented Metalearner: Naive Bayes (commit by @muellerdo)
• b7d5548 - Metalearner: Added Metalearner Support Vector Machine (commit by @muellerdo)
• d07b12d - Metalearner: Added Metalearner Gaussian Process (commit by @muellerdo)
• 85b861b - Metalearner: Added Metalearner Decision Tree (commit by @muellerdo)
• 54d6f4e - Metalearner: Added Metalearner Best Model (commit by @muellerdo)
• 162b977 - Metalearner: Added Metalearner Weighted Mean (commit by @muellerdo)
• be429f6 - Metalearner: Added Random Forest - Contributes to #129 (commit by @muellerdo)
• 817e02d - Metalearner: Added k-Nearest Neighbors - Contributes to #129 (commit by @muellerdo)
• b66de88 - Metalearner: Added MLP Neural Network - Contributes to #129 (commit by @muellerdo)
• 205dd12 - Aggregate: Added Global Argmax - Contributes to #129 (commit by @muellerdo)
• 09d4b13 - Classifier: Removed two_dim parameter from Classifier (commit by @muellerdo)
• 2c8f13a - Architectures: Started working on Vision Transformer (commit by @muellerdo)
• 33068ac - Architectures: Implemented Vision Transformer Architecture (commit by @muellerdo)
• 32a43d1 - Utils: Added utility function for parsing CSVLogger fitting file to fitting dictionary (commit by @muellerdo)
• da69ac2 - Evaluation: Implemented fitting curve plotting (commit by @muellerdo)
• 393274f - Evaluation: Started implementing performance evaluation (commit by @muellerdo)
• 2962aa3 - Evaluation: Fully implemented performance evaluation (commit by @muellerdo)
• 1c80fdd - Evaluation: Added unittesting for performance evaluation (commit by @muellerdo)
• 0cdc6bd - Evaluation: Implemented comparison evaluation function (commit by @muellerdo)
• 4f90c5c - Ensemble: Added return_ensemble feature for Stacking and Bagging predictions. (commit by @muellerdo)
• c2c1a33 - Evaluation: Added returning merged and gain dataframe in Comparison Evaluation (commit by @muellerdo)
• 8da7c53 - Evaluation: Added dataset analysis evaluation function (commit by @muellerdo)

🐛 Bug Fixes

• d764ff9 - Bagging: Force setting multiprocessing start option which solves multi-assignment (commit by @muellerdo)
• 00cefe4 - Bagging: Removed unittests for deprecated model_list variable in Bagging initialization (commit by @muellerdo)
• 275b0b8 - Bagging: Fixed incorrect DataGenerator parameter mapping in predict function (commit by @muellerdo)
• 72794df - Metalearner: Fixed postprocessing of Decision Tree prediction (commit by @muellerdo)
• 546c07b - Website: Fixed 'funky' first item on landing page - Closes #106 (commit by @muellerdo)
• 2584e78 - Website: Hotfix of new introduced bug with previous commit (commit by @muellerdo)
• e44916b - Architectures: Fixed incorrect input shapes for B16 and B32 Vision Transformer Architecture (commit by @muellerdo)
• 1b554cc - Evaluation: Fixed suffix=None usage in evaluate_fitting() (commit by @muellerdo)
• c8ce20d - Classifier: Removed deprecated two_dim parameter from unittesting (commit by @muellerdo)

⚡ Performance Improvements

• c5d3131 - DataGenerator: Enhanced temporary dictionary management for prepare_images - Closes #120, #10 *...

Fixed metadata support for Augmenting.