Pykale

New Features

* [348](https://github.com/pykale/pykale/pull/348): Create stale workflow
* [356](https://github.com/pykale/pykale/pull/356): Update CIFAR CNNTransformer example to Lightning
* [358](https://github.com/pykale/pykale/pull/358): Add option to log messages to terminal
* [365](https://github.com/pykale/pykale/pull/365): Update project.yml for the new project board
* [370](https://github.com/pykale/pykale/pull/370): Support py3.10 and remove py3.7

Bug Fixes

* [372](https://github.com/pykale/pykale/pull/372): Update IPython version from <9.0 to <8.13 to support Python 3.8

Code Improvements

* [345](https://github.com/pykale/pykale/pull/345): Add file path as a dicom dataset attribute
* [346](https://github.com/pykale/pykale/pull/346): Update the polypharmacy example and GripNet implementation
* [385](https://github.com/pykale/pykale/pull/385): Refactor input parameter of the data loader in PolypharmacyDataset class
* [386](https://github.com/pykale/pykale/pull/386): Refactor documentation and resolve module visibility issues in PyKale

New Features

* [338](https://github.com/pykale/pykale/pull/338): Improve GripNet implementation
* [339](https://github.com/pykale/pykale/pull/339): Add setup options
* [340](https://github.com/pykale/pykale/pull/340): Update reading DICOM and marker visualization

Code Improvements

* [341](https://github.com/pykale/pykale/pull/341): Update Colab installation and add notebook hook
* [342](https://github.com/pykale/pykale/pull/342): Add arguments to visualize and rename examples

Documentation Updates

* [337](https://github.com/pykale/pykale/pull/337): Update GripNet example name and contributing guidelines
* [343](https://github.com/pykale/pykale/pull/343): Clarify python version supported

New Features

* [246](https://github.com/pykale/pykale/pull/246): Add MIDA, CoIRLS, distribution plot, and brain example

Bug Fixes

* [322](https://github.com/pykale/pykale/pull/322): Add pre-commit dependency for black and click
* [330](https://github.com/pykale/pykale/pull/330): Fix problems of tests for Python version 3.7, 3.8 and 3.9

Code Improvements

* [284](https://github.com/pykale/pykale/pull/284): Update DICOM reading and image visualization
* [320](https://github.com/pykale/pykale/pull/320): Add code scanning
* [321](https://github.com/pykale/pykale/pull/321): Fix cardiac MRI example visualization number of columns
* [331](https://github.com/pykale/pykale/pull/331): Update cmr example landmark visualization

Documentation Updates

* [333](https://github.com/pykale/pykale/pull/333): Update docs and readme for 0.1.0 release

New Features

* [251](https://github.com/pykale/pykale/pull/251): MFSAN support 1D input
* [273](https://github.com/pykale/pykale/pull/273): Add topk & multitask topk accuracies

Bug Fixes

* [244](https://github.com/pykale/pykale/pull/244): Update getting indicies with torch.where
* [254](https://github.com/pykale/pykale/pull/254): Fix bugs for upgrading PyTroch-lightning to 1.5
* [256](https://github.com/pykale/pykale/pull/256) & [#257](https://github.com/pykale/pykale/pull/257): Update for PyTorch 1.10 and Torchvision 0.11.1
* [286](https://github.com/pykale/pykale/pull/286): Update ipython requirement from <8.0 to <9.0

Code Improvements

* [240](https://github.com/pykale/pykale/pull/240): Refractor the code to save the images instead of opening them at runtime
* [271](https://github.com/pykale/pykale/pull/271): Fix doc build, improve docstrings and MPCA pipeline fit efficiency
* [272](https://github.com/pykale/pykale/pull/272): Update progress_bar for PyTorch Lightning & change 'target' abbreviation
* [283](https://github.com/pykale/pykale/pull/283): "val" in variable names to "valid"

Tests

* [258](https://github.com/pykale/pykale/pull/258): Use pyparsing 2.4.7 in test

Documentation Updates

* [228](https://github.com/pykale/pykale/pull/228): Zenodo json
* [243](https://github.com/pykale/pykale/pull/243): Clarify PR template
* [282](https://github.com/pykale/pykale/pull/282): Clarify when to request review and prefer just one label

Code Improvements

* [218](https://github.com/pykale/pykale/pull/218): Change logger in digits and action examples
* [219](https://github.com/pykale/pykale/pull/219): Update three notebooks
* [222](https://github.com/pykale/pykale/pull/222): Add multi source example
* [224](https://github.com/pykale/pykale/pull/224): Merge all image accesses to a unique API

Tests

* [221](https://github.com/pykale/pykale/pull/221): Add notebook "smoke tests" to CI

Documentation Updates

* [225](https://github.com/pykale/pykale/pull/225): Update readme & fix colab imgaug
* [229](https://github.com/pykale/pykale/pull/229): Add DOI to readme
* [235](https://github.com/pykale/pykale/pull/235): Fix typo and hyperlink

New Features

* [196](https://github.com/pykale/pykale/pull/196): Add Google Drive Download API
* [197](https://github.com/pykale/pykale/pull/197): Multi domain loader and office data access
* [210](https://github.com/pykale/pykale/pull/210): Multi-source domain adaptation SOTA

Code Improvements

* [201](https://github.com/pykale/pykale/pull/201): No "extras", only "normal" or "dev" installs

Tests

* [178](https://github.com/pykale/pykale/pull/178): Reduce tests for video
* [188](https://github.com/pykale/pykale/pull/188): Create download_path directory in conftest.py
* [189](https://github.com/pykale/pykale/pull/189): Create test_sampler.py and update doc for tests
* [200](https://github.com/pykale/pykale/pull/200): Nightly test run

Documentation Updates

* [165](https://github.com/pykale/pykale/pull/165): Notebook tutorial for the bindingdb_deepdta example
* [199](https://github.com/pykale/pykale/pull/199): CMR PAH notebook example
* [207](https://github.com/pykale/pykale/pull/207): Restructure notebook tutorial docs
* [212](https://github.com/pykale/pykale/pull/212): Describe use of YAML

Other Changes

* [187](https://github.com/pykale/pykale/pull/187): Add dependabot
* [205](https://github.com/pykale/pykale/pull/205): Update data dirs