update path

.github/workflows/publish.yaml

@@ -13,8 +13,6 @@ jobs:
     steps:
       - name: Checkout Quarto Book
         uses: actions/checkout@v4
-        with:
-          path: main
 
       - name: Checkout Pythia Book
         uses: actions/checkout@v4
@@ -25,20 +23,29 @@ jobs:
       - name: Set up Quarto
         uses: quarto-dev/quarto-actions/setup@v2
 
+      - name: Restore Cache Jupyter Kernels
+        id: cache-jupyter-kernels-restore
+        uses: actions/cache/restore@v4
+        with:
+          path: ~/.local/share/jupyter/kernels
+          key: ${{ runner.os }}-jupyter-${{ hashFiles('chapters/*.yml') }}
+
       - name: Render and Publish
         id: setup-python
         uses: quarto-dev/quarto-actions/publish@v2
         with:
-          path: main
           target: gh-pages
         env:
           GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+
+      - run: echo $(ls  ~/.local/share/jupyter/kernels)
 
       - name: Cache Jupyter Kernels
-        uses: actions/cache@v3
+        id: cache-jupyter-kernels-save
+        uses: actions/cache/save@v4
         with:
           path: ~/.local/share/jupyter/kernels
-          key: ${{ runner.os }}-python-${{ steps.setup-python.outputs.python-version }}-jupyter-${{ hashFiles('chapters/*.yml') }}
+          key: ${{ steps.cache-jupyter-kernels-restore.outputs.cache-primary-key }}
 
       # - name: Cache Binder Build on mybinder.org
       #   uses: jupyterhub/repo2docker-action@master
@@ -47,15 +54,15 @@ jobs:
       #     MYBINDERORG_TAG: ${{ github.event.ref }} 
       #     REPO2DOCKER_EXTRA_ARGS: --subdir notebooks
 
+      - run: echo $(ls  $(pwd)/notebooks)
+
       - name: Commit Files
         if: github.ref == 'refs/heads/main'
         run: |
-          cp main/notebooks/*.ipynb eo-datascience-cookbook/notebooks/*.ipynb
-          cd eo-datascience-cookbook
+          NB_PATH=($(git diff --name-only ${{ github.event.before }} ${{ github.sha }} | grep '[.]ipynb$'))
           git config --local user.email "[email protected]"
           git config --local user.name "GitHub Action"
-          git add notebooks/*.ipynb
-          git commit -m "Quarto output"
+          git commit ${RMD_PATH[*]/.ipynb} -m "Quarto output"
 
       - name: Push Commit
         if: github.ref == 'refs/heads/main'

.gitignore

@@ -2,5 +2,4 @@
 .env
 /.quarto/
 /_book/
-/data/
-/**/*.ipynb
+/data/

Makefile

@@ -2,6 +2,7 @@
 SHELL = /bin/bash
 .PHONY: help clean environment kernel post-render data
 YML = $(wildcard chapters/*.yml)
+QMD = $(wildcard chapters/*.qmd)
 REQ = $(basename $(notdir $(YML)))
 CONDA_ENV_DIR := $(foreach i,$(REQ),$(shell conda info --base)/envs/$(i))
 KERNEL_DIR := $(foreach i,$(REQ),$(shell jupyter --data-dir)/kernels/$(i))
@@ -34,7 +35,9 @@ kernel: $(KERNEL_DIR)
 	@echo -e "conda jupyter kernel is ready."
 
 post-render:
+	for i in $(QMD); do quarto convert $$i; done
 	- mv chapters/*.ipynb notebooks/ >/dev/null 2>&1
+	- for f in chapters/*.quarto_ipynb ; do mv -- "$f" "${f%.quarto_ipynb}.ipynb"  >/dev/null 2>&1; done
 	cp Makefile notebooks/
 
 data:

chapters/01_classification.qmd

@@ -6,7 +6,6 @@ jupyter:
     name: "01_classification"
     language: "python"
     display_name: "01_classification"
-keep-ipynb: true
 ---
 
 ```{python}

chapters/02_floodmapping.qmd

@@ -6,8 +6,6 @@ jupyter:
     name: "02_floodmapping"
     language: "python"
     display_name: "02_floodmapping"
-keep-ipynb: true
-code-fold: true
 ---
 
 ![Image from [wikipedia](https://upload.wikimedia.org/wikipedia/commons/d/d4/Thomas_Bayes.gif)](https://upload.wikimedia.org/wikipedia/commons/d/d4/Thomas_Bayes.gif)