run notebooks on coast repo

British-Oceanographic-Data-Centre · Oct 31, 2023 · 30da16e · 30da16e
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diff --git a/.github/workflows/markdown-altimetry.yml b/.github/workflows/markdown-altimetry.yml
@@ -0,0 +1,51 @@
+name: notebook_to_md (altimetry)
+
+on:
+  # External webhook trigger
+  repository_dispatch:
+   types: [push-notebook]
+
+
+jobs:
+  commit-notebooks:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - name: Checkout site
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive # Fetch Hugo themes and all extra projects
+          fetch-depth: 0 # Fetch all history for .GitInfo and .Lastmod
+          path: site
+
+      - name: Checkout coast
+        uses: actions/checkout@v3
+        with:
+          repository: British-Oceanographic-Data-Centre/COAsT
+          ref: develop
+          path: external
+
+      - name: Prepare environement
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: coast
+          environment-file: external/environment.yml
+          python-version: 3.9.13
+      - name: prep exec notebooks
+        run: |
+          conda info
+          conda list
+          conda config --show
+          cd $GITHUB_WORKSPACE/external
+          sudo apt install wget unzip -y
+          wget -q https://linkedsystems.uk/erddap/files/COAsT_example_files/COAsT_example_files.zip
+          unzip COAsT_example_files.zip && mv COAsT_example_files ./example_scripts/notebook_tutorials/runnable_notebooks/altimetry/example_files
+          ls /home/runner/work/COAsT-site/COAsT-site/external/example_scripts/notebook_tutorials/runnable_notebooks/altimetry/example_files
+          mkdir -p ./example_scripts/notebook_tutorials/markdown/altimetry
+          ls ./example_scripts/notebooks
+          pip install .
+          mv config ./example_scripts/notebook_tutorials/runnable_notebooks/altimetry/config
+          bash notebook_to_md.sh altimetry
+          
diff --git a/.github/workflows/markdown-general.yml b/.github/workflows/markdown-general.yml
@@ -0,0 +1,49 @@
+name: notebook_to_md (general)
+
+on:
+  # External webhook trigger
+  repository_dispatch:
+   types: [push-notebook]
+
+jobs:
+  commit-notebooks:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - name: Checkout site
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive # Fetch Hugo themes and all extra projects
+          fetch-depth: 0 # Fetch all history for .GitInfo and .Lastmod
+          path: site
+
+      - name: Checkout coast
+        uses: actions/checkout@v3
+        with:
+          repository: British-Oceanographic-Data-Centre/COAsT
+          ref: develop
+          path: external
+
+      - name: Prepare environement
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: coast
+          environment-file: external/environment.yml
+          python-version: 3.9.13
+      - name: prep exec notebooks
+        run: |
+          conda info
+          conda list
+          conda config --show
+          cd $GITHUB_WORKSPACE/external
+          sudo apt install wget unzip -y
+          wget -q https://linkedsystems.uk/erddap/files/COAsT_example_files/COAsT_example_files.zip
+          unzip COAsT_example_files.zip && mv COAsT_example_files ./example_scripts/notebook_tutorials/runnable_notebooks/general/example_files
+          ls /home/runner/work/COAsT-site/COAsT-site/external/example_scripts/notebook_tutorials/runnable_notebooks/general/example_files
+          mkdir -p ./example_scripts/notebook_tutorials/markdown/general
+          ls ./example_scripts/notebooks
+          pip install .
+          mv config ./example_scripts/notebook_tutorials/runnable_notebooks/general/config
+          bash notebook_to_md.sh general
diff --git a/.github/workflows/markdown-gridded.yml b/.github/workflows/markdown-gridded.yml
@@ -0,0 +1,49 @@
+name: notebook_to_md (gridded)
+
+on:
+  # External webhook trigger
+  repository_dispatch:
+   types: [push-notebook]
+
+jobs:
+  commit-notebooks:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - name: Checkout site
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive # Fetch Hugo themes and all extra projects
+          fetch-depth: 0 # Fetch all history for .GitInfo and .Lastmod
+          path: site
+
+      - name: Checkout coast
+        uses: actions/checkout@v3
+        with:
+          repository: British-Oceanographic-Data-Centre/COAsT
+          ref: develop
+          path: external
+
+      - name: Prepare environement
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: coast
+          environment-file: external/environment.yml
+          python-version: 3.9.13
+      - name: prep exec notebooks
+        run: |
+          conda info
+          conda list
+          conda config --show
+          cd $GITHUB_WORKSPACE/external
+          sudo apt install wget unzip -y
+          wget -q https://linkedsystems.uk/erddap/files/COAsT_example_files/COAsT_example_files.zip
+          unzip COAsT_example_files.zip && mv COAsT_example_files ./example_scripts/notebook_tutorials/runnable_notebooks/gridded/example_files
+          ls /home/runner/work/COAsT-site/COAsT-site/external/example_scripts/notebook_tutorials/runnable_notebooks/gridded/example_files
+          mkdir -p ./example_scripts/notebook_tutorials/markdown/gridded
+          ls ./example_scripts/notebooks
+          pip install .
+          mv config ./example_scripts/notebook_tutorials/runnable_notebooks/gridded/config
+          bash notebook_to_md.sh gridded
diff --git a/.github/workflows/markdown-profile.yml b/.github/workflows/markdown-profile.yml
@@ -0,0 +1,49 @@
+name: notebook_to_md (profile)
+
+on:
+  # External webhook trigger
+  repository_dispatch:
+   types: [push-notebook]
+
+jobs:
+  commit-notebooks:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - name: Checkout site
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive # Fetch Hugo themes and all extra projects
+          fetch-depth: 0 # Fetch all history for .GitInfo and .Lastmod
+          path: site
+
+      - name: Checkout coast
+        uses: actions/checkout@v3
+        with:
+          repository: British-Oceanographic-Data-Centre/COAsT
+          ref: develop
+          path: external
+
+      - name: Prepare environement
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: coast
+          environment-file: external/environment.yml
+          python-version: 3.9.13
+      - name: prep exec notebooks
+        run: |
+          conda info
+          conda list
+          conda config --show
+          cd $GITHUB_WORKSPACE/external
+          sudo apt install wget unzip rsync -y
+          wget -q https://linkedsystems.uk/erddap/files/COAsT_example_files/COAsT_example_files.zip
+          unzip COAsT_example_files.zip && mv COAsT_example_files ./example_scripts/notebook_tutorials/runnable_notebooks/profile/example_files
+          ls /home/runner/work/COAsT-site/COAsT-site/external/example_scripts/notebook_tutorials/runnable_notebooks/profile/example_files
+          mkdir -p ./example_scripts/notebook_tutorials/markdown
+          ls ./example_scripts/notebooks
+          pip install .
+          mv config ./example_scripts/notebook_tutorials/runnable_notebooks/profile/config
+          bash notebook_to_md.sh profile
diff --git a/.github/workflows/markdown-tidegauge.yml b/.github/workflows/markdown-tidegauge.yml
@@ -0,0 +1,49 @@
+name: notebook_to_md (tidegauge)
+
+on:
+  # External webhook trigger
+  repository_dispatch:
+   types: [push-notebook]
+
+jobs:
+  commit-notebooks:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        shell: bash -l {0}
+    steps:
+      - name: Checkout site
+        uses: actions/checkout@v3
+        with:
+          submodules: recursive # Fetch Hugo themes and all extra projects
+          fetch-depth: 0 # Fetch all history for .GitInfo and .Lastmod
+          path: site
+
+      - name: Checkout coast
+        uses: actions/checkout@v3
+        with:
+          repository: British-Oceanographic-Data-Centre/COAsT
+          ref: develop
+          path: external
+
+      - name: Prepare environement
+        uses: conda-incubator/setup-miniconda@v2
+        with:
+          activate-environment: coast
+          environment-file: external/environment.yml
+          python-version: 3.9.13
+      - name: prep exec notebooks
+        run: |
+          conda info
+          conda list
+          conda config --show
+          cd $GITHUB_WORKSPACE/external
+          sudo apt install wget unzip -y
+          wget -q https://linkedsystems.uk/erddap/files/COAsT_example_files/COAsT_example_files.zip
+          unzip COAsT_example_files.zip && mv COAsT_example_files ./example_scripts/notebook_tutorials/runnable_notebooks/tidegauge/example_files
+          ls /home/runner/work/COAsT-site/COAsT-site/external/example_scripts/notebook_tutorials/runnable_notebooks/tidegauge/example_files
+          mkdir -p ./example_scripts/notebook_tutorials/markdown/tidegauge
+          ls ./example_scripts/notebooks
+          pip install .
+          mv config ./example_scripts/notebook_tutorials/runnable_notebooks/tidegauge/config
+          bash notebook_to_md.sh tidegauge
diff --git a/README.md b/README.md
@@ -24,6 +24,9 @@ It's aim is to deliver a flexible, community-ready framework for assessing kilom
 
 Documentation can be found [here](https://british-oceanographic-data-centre.github.io/COAsT/docs/).
 
+![PyPI version](https://badge.fury.io/py/COAsT.svg)
+![Anaconda version](https://anaconda.org/bodc/coast/badges/version.svg)
+
 ## Notes on Object Structure and Loading (for contributors):
 
 COAsT is an object-orientated package, meaning that data is stored within Python object