Initial commit

Official implementation of the paper
Continuous-Time Functional Diffusion Processes

Co-Authored-By: giuliofranzese <52629439+giuliofranzese@users.noreply.github.com>
Co-Authored-By: Pietro Michiardi <pietro.michiardi@eurecom.fr>
Co-Authored-By: Simone Rossi <11166137+srossi93@users.noreply.github.com>

.editorconfig

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+# EditorConfig is awesome: https://EditorConfig.org
+
+# top-most EditorConfig file
+root = true
+
+[*]
+end_of_line = lf
+insert_final_newline = true
+max_line_length = 120
+trim_trailing_whitespace = true
+
+# 4 space indentation
+[*.py]
+indent_style = space
+indent_size = 4
+charset = utf-8
+
+[*.{yaml, yml}]
+indent_size = 2

.flake8

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+[flake8]
+# https://github.com/pytorch/pytorch/blob/master/.flake8
+max-line-length = 120
+select = B,C,E,F,P,T4,W,B9
+extend-ignore = E203, E501, W503, E731, E722, E203, E402

.gitattributes

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+# Auto detect text files and perform LF normalization
+* text=auto

.github/workflows/publish.yml

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+name: Publish
+
+on:
+  release:
+    types:
+      - created
+
+env:
+  CACHE_NUMBER: 0  # increase to reset cache manually
+  CONDA_ENV_FILE: './env.yaml'
+  CONDA_ENV_NAME: 'fdp'
+
+
+jobs:
+  build:
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ['3.10']
+        include:
+          - os: ubuntu-20.04
+            label: linux-64
+            prefix: /usr/share/miniconda3/envs/
+
+    name: ${{ matrix.label }}-py${{ matrix.python-version }}
+    runs-on: ${{ matrix.os }}
+
+    steps:
+      - name: Parametrize conda env name
+        run: echo "PY_CONDA_ENV_NAME=${{ env.CONDA_ENV_NAME }}-${{ matrix.python-version }}" >> $GITHUB_ENV
+      - name: echo conda env name
+        run: echo ${{ env.PY_CONDA_ENV_NAME }}
+
+      - name: Parametrize conda prefix
+        run: echo "PY_PREFIX=${{ matrix.prefix }}${{ env.PY_CONDA_ENV_NAME }}" >> $GITHUB_ENV
+      - name: echo conda prefix
+        run: echo ${{ env.PY_PREFIX }}
+
+      # extract the first two digits from the release note
+      - name: Set release notes tag
+        run: |
+          export RELEASE_TAG_VERSION=${{ github.event.release.tag_name }}
+          echo "RELEASE_TAG_VERSION=${RELEASE_TAG_VERSION%.*}">> $GITHUB_ENV
+
+      - name: Echo release notes tag
+        run: |
+          echo "${RELEASE_TAG_VERSION}"
+
+      - uses: actions/checkout@v2
+        with:
+          fetch-depth: 0
+
+      # Remove the python version pin from the env.yml which could be inconsistent
+      - name: Remove explicit python version from the environment
+        shell: bash -l {0}
+        run: |
+          sed -Ei '/^\s*-?\s*python\s*([#=].*)?$/d' ${{ env.CONDA_ENV_FILE }}
+          cat  ${{ env.CONDA_ENV_FILE }}
+
+      - name: Setup Mambaforge
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+            miniforge-variant: Mambaforge
+            miniforge-version: latest
+            activate-environment: ${{ env.PY_CONDA_ENV_NAME }}
+            python-version: ${{ matrix.python-version }}
+            use-mamba: true
+
+      - uses: actions/cache@v2
+        name: Conda cache
+        with:
+          path: ${{ env.PY_PREFIX }}
+          key: ${{ matrix.label }}-conda-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+        id: conda_cache
+
+      - uses: actions/cache@v2
+        name: Pip cache
+        with:
+          path: ~/.cache/pip
+          key: ${{ matrix.label }}-pip-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+
+      - uses: actions/cache@v2
+        name: Pre-commit cache
+        with:
+          path: ~/.cache/pre-commit
+          key: ${{ matrix.label }}-pre-commit-${{ hashFiles('.pre-commit-config.yaml') }}-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+
+      # Ensure the hack for the python version worked
+      - name: Ensure we have the right Python
+        shell: bash -l {0}
+        run: |
+          echo "Installed Python: $(python --version)"
+          echo "Expected: ${{ matrix.python-version }}"
+          python --version | grep "Python ${{ matrix.python-version }}"
+
+      - name: Update conda environment
+        run: mamba env update -n ${{ env.PY_CONDA_ENV_NAME }} -f ${{ env.CONDA_ENV_FILE }}
+        if: steps.conda_cache.outputs.cache-hit != 'true'
+
+      # Update pip env whether or not there was a conda cache hit
+      - name: Update pip environment
+        shell: bash -l {0}
+        run: pip install -e ".[dev]"
+        if: steps.conda_cache.outputs.cache-hit == 'true'
+
+      - run: pip3 list
+        shell: bash -l {0}
+      - run: mamba info
+      - run: mamba list
+
+       # Ensure the hack for the python version worked
+      - name: Ensure we have the right Python
+        shell: bash -l {0}
+        run: |
+          echo "Installed Python: $(python --version)"
+          echo "Expected: ${{ matrix.python-version }}"
+          python --version | grep "Python ${{ matrix.python-version }}"
+
+      - name: Run pre-commits
+        shell: bash -l {0}
+        run: |
+          pre-commit install
+          pre-commit run -v --all-files --show-diff-on-failure
+
+#      - name: Test with pytest
+#        shell: bash -l {0}
+#        run: |
+#          pytest -v
+
+      - name: Build docs website
+        shell: bash -l {0}
+        run: |
+          git config user.name ci-bot
+          git config user.email ci-bot@ci.com
+          mike deploy --rebase --push --update-aliases ${RELEASE_TAG_VERSION} latest
+
+        # Uncomment to publish on PyPI on release
+#      - name: Build SDist and wheel
+#        run: pipx run build
+#
+#      - name: Check metadata
+#        run: pipx run twine check dist/*
+#
+#      - name: Publish distribution 📦 to PyPI
+#        uses: pypa/gh-action-pypi-publish@release/v1
+#        with:
+#          user: __token__
+#          password: ${{ secrets.PYPI_API_TOKEN }}
+#
+#

.github/workflows/test_suite.yml

@@ -0,0 +1,134 @@
+name: Test Suite
+
+on:
+  push:
+    branches:
+      - master
+      - develop
+
+  pull_request:
+    types:
+      - opened
+      - reopened
+      - synchronize
+
+env:
+  CACHE_NUMBER: 1  # increase to reset cache manually
+  CONDA_ENV_FILE: './env.yaml'
+  CONDA_ENV_NAME: 'fdp'
+
+
+jobs:
+  build:
+
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: ['3.10']
+        include:
+          - os: ubuntu-20.04
+            label: linux-64
+            prefix: /usr/share/miniconda3/envs/
+
+#           - os: macos-latest
+#             label: osx-64
+#             prefix: /Users/runner/miniconda3/envs/$CONDA_ENV_NAME
+
+#           - os: windows-latest
+#             label: win-64
+#             prefix: C:\Miniconda3\envs\$CONDA_ENV_NAME
+
+    name: ${{ matrix.label }}-py${{ matrix.python-version }}
+    runs-on: ${{ matrix.os }}
+
+    steps:
+      - name: Parametrize conda env name
+        run: echo "PY_CONDA_ENV_NAME=${{ env.CONDA_ENV_NAME }}-${{ matrix.python-version }}" >> $GITHUB_ENV
+      - name: echo conda env name
+        run: echo ${{ env.PY_CONDA_ENV_NAME }}
+
+      - name: Parametrize conda prefix
+        run: echo "PY_PREFIX=${{ matrix.prefix }}${{ env.PY_CONDA_ENV_NAME }}" >> $GITHUB_ENV
+      - name: echo conda prefix
+        run: echo ${{ env.PY_PREFIX }}
+
+      - uses: actions/checkout@v2
+
+      # Remove the python version pin from the env.yml which could be inconsistent
+      - name: Remove explicit python version from the environment
+        shell: bash -l {0}
+        run: |
+          sed -Ei '/^\s*-?\s*python\s*([#=].*)?$/d' ${{ env.CONDA_ENV_FILE }}
+          cat  ${{ env.CONDA_ENV_FILE }}
+
+      - name: Setup Mambaforge
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+            miniforge-variant: Mambaforge
+            miniforge-version: latest
+            activate-environment: ${{ env.PY_CONDA_ENV_NAME }}
+            python-version: ${{ matrix.python-version }}
+            use-mamba: true
+
+      - uses: actions/cache@v2
+        name: Conda cache
+        with:
+          path: ${{ env.PY_PREFIX }}
+          key: ${{ matrix.label }}-conda-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+        id: conda_cache
+
+      - uses: actions/cache@v2
+        name: Pip cache
+        with:
+          path: ~/.cache/pip
+          key: ${{ matrix.label }}-pip-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+
+      - uses: actions/cache@v2
+        name: Pre-commit cache
+        with:
+          path: ~/.cache/pre-commit
+          key: ${{ matrix.label }}-pre-commit-${{ hashFiles('.pre-commit-config.yaml') }}-${{ matrix.python-version }}-${{ env.CACHE_NUMBER }}-${{ env.PY_CONDA_ENV_NAME }}-${{ hashFiles(env.CONDA_ENV_FILE) }}-${{hashFiles('./setup.cfg') }}
+
+      # Ensure the hack for the python version worked
+      - name: Ensure we have the right Python
+        shell: bash -l {0}
+        run: |
+          echo "Installed Python: $(python --version)"
+          echo "Expected: ${{ matrix.python-version }}"
+          python --version | grep "Python ${{ matrix.python-version }}"
+
+      - name: Update conda environment
+        run: mamba env update -n ${{ env.PY_CONDA_ENV_NAME }} -f ${{ env.CONDA_ENV_FILE }}
+        if: steps.conda_cache.outputs.cache-hit != 'true'
+
+      # Update pip env whether or not there was a conda cache hit
+      - name: Update pip environment
+        shell: bash -l {0}
+        run: pip install -e ".[dev]"
+        if: steps.conda_cache.outputs.cache-hit == 'true'
+
+      - run: pip3 list
+        shell: bash -l {0}
+      - run: mamba info
+      - run: mamba list
+
+       # Ensure the hack for the python version worked
+      - name: Ensure we have the right Python
+        shell: bash -l {0}
+        run: |
+          echo "Installed Python: $(python --version)"
+          echo "Expected: ${{ matrix.python-version }}"
+          python --version | grep "Python ${{ matrix.python-version }}"
+
+      - name: Run pre-commits
+        shell: bash -l {0}
+        run: |
+          pre-commit install
+          pre-commit run -v --all-files --show-diff-on-failure
+
+#      - name: Test with pytest
+#        shell: bash -l {0}
+#        run: |
+#          pytest -v
+#
+#