Merge pull request #6 from dlmbl/changes_2024

Changes 2024

.github/workflows/build-notebooks.yaml

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+name: Build Notebooks
+on:
+  push:
+
+jobs:
+  run:
+    runs-on: ubuntu-latest
+
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Set up Python
+        uses: actions/setup-python@v4
+        with:
+          python-version: "3.10"
+
+      - name: Install dependencies
+        run: |
+          python -m pip install -U pip
+          python -m pip install jupytext nbconvert
+
+      - name: Build notebooks
+        run: |
+          jupyter nbconvert 01_CARE/solution.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output exercise.ipynb
+          jupyter nbconvert 02_Noise2Void/solution.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output exercise.ipynb
+          jupyter nbconvert 03_COSDD/solution.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output exercise.ipynb
+          jupyter nbconvert 03_COSDD/bonus-solution-generation.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output bonus-exercise.ipynb
+          jupyter nbconvert 04_DenoiSplit/solution.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output exercise.ipynb
+          jupyter nbconvert 05_bonus_Noise2Noise/n2n_solution.ipynb \
+            --ClearOutputPreprocessor.enabled=True --TagRemovePreprocessor.enabled=True --TagRemovePreprocessor.remove_cell_tags solution --to notebook \
+            --output n2n_exercise.ipynb
+
+      - uses: EndBug/add-and-commit@v9
+        with:
+          add: "*.ipynb"

.gitignore

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+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+share/python-wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+cover/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+db.sqlite3-journal
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+.pybuilder/
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+#   For a library or package, you might want to ignore these files since the code is
+#   intended to run in multiple environments; otherwise, check them in:
+# .python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# poetry
+#   Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.
+#   This is especially recommended for binary packages to ensure reproducibility, and is more
+#   commonly ignored for libraries.
+#   https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control
+#poetry.lock
+
+# pdm
+#   Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.
+#pdm.lock
+#   pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it
+#   in version control.
+#   https://pdm.fming.dev/latest/usage/project/#working-with-version-control
+.pdm.toml
+.pdm-python
+.pdm-build/
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+# pytype static type analyzer
+.pytype/
+
+# Cython debug symbols
+cython_debug/
+
+# PyCharm
+#  JetBrains specific template is maintained in a separate JetBrains.gitignore that can
+#  be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore
+#  and can be added to the global gitignore or merged into this file.  For a more nuclear
+#  option (not recommended) you can uncomment the following to ignore the entire idea folder.
+#.idea/
+
+*.ckpt
+01_CARE/runs/
+02_Noise2Void/checkpoints/
+02_Noise2Void/logs/
+03_COSDD/data/
+03_COSDD/checkpoints/
+03_COSDD/COSDD
+04_bonus_denoiSplit/tensorboard_logs/
+04_bonus_Noise2Noise/logs/
+04_DenoiSplit/denoisplit/
+04_DenoiSplit/tensorboard_logs/
+04_DenoiSplit/lightning_logs/
+05_bonus_Noise2Noise/logs/
+data/