Merge pull request #31 from BerriJ/dev

Dev

.devcontainer/devcontainer.json

@@ -34,6 +34,7 @@
                 "ms-python.python",
                 "ms-python.black-formatter",
                 "visualstudioexptteam.vscodeintellicode",
+                "ms-toolsai.jupyter",
                 // R
                 "REditorSupport.r",
                 "rdebugger.r-debugger",

.github/workflows/build_deploy_dev.yml

@@ -14,15 +14,15 @@ jobs:
     steps:
       -
         name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       -
         name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
         with:
           install: true
       -
         name: Login to GitHub Container Registry
-        uses: docker/login-action@v2 
+        uses: docker/login-action@v3 
         with:
           registry: ghcr.io
           username: ${{ github.repository_owner }}
@@ -36,7 +36,7 @@ jobs:
           echo "IMAGE_ID=$(echo $IMAGE_ID | tr '[A-Z]' '[a-z]')" >> $GITHUB_ENV
       -
         name: Build and push
-        uses: docker/build-push-action@v4
+        uses: docker/build-push-action@v5
         with:
           context: .
           push: true

.github/workflows/build_deploy_master.yml

@@ -14,15 +14,15 @@ jobs:
     steps:
       -
         name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       -
         name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
         with:
           install: true
       -
         name: Login to GitHub Container Registry
-        uses: docker/login-action@v2 
+        uses: docker/login-action@v3 
         with:
           registry: ghcr.io
           username: ${{ github.repository_owner }}
@@ -36,7 +36,7 @@ jobs:
           echo "IMAGE_ID=$(echo $IMAGE_ID | tr '[A-Z]' '[a-z]')" >> $GITHUB_ENV
       -
         name: Build and push
-        uses: docker/build-push-action@v4
+        uses: docker/build-push-action@v5
         with:
           context: .
           push: true

.github/workflows/build_deploy_size.yml

@@ -14,15 +14,15 @@ jobs:
     steps:
       -
         name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       -
         name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
         with:
           install: true
       -
         name: Login to GitHub Container Registry
-        uses: docker/login-action@v2 
+        uses: docker/login-action@v3 
         with:
           registry: ghcr.io
           username: ${{ github.repository_owner }}
@@ -35,7 +35,7 @@ jobs:
           echo "IMAGE_ID=$(echo $IMAGE_ID | tr '[A-Z]' '[a-z]')" >> $GITHUB_ENV
       -
         name: Build and push
-        uses: docker/build-push-action@v4
+        uses: docker/build-push-action@v5
         with:
           context: .
           push: true

.github/workflows/build_on_pr.yml

@@ -13,15 +13,15 @@ jobs:
     steps:
       -
         name: Checkout
-        uses: actions/checkout@v3
+        uses: actions/checkout@v4
       -
         name: Set up Docker Buildx
-        uses: docker/setup-buildx-action@v2
+        uses: docker/setup-buildx-action@v3
         with:
           install: true
       -
         name: Login to GitHub Container Registry
-        uses: docker/login-action@v2 
+        uses: docker/login-action@v3 
         with:
           registry: ghcr.io
           username: ${{ github.repository_owner }}
@@ -34,7 +34,7 @@ jobs:
           echo "IMAGE_ID=$(echo $IMAGE_ID | tr '[A-Z]' '[a-z]')" >> $GITHUB_ENV
       -
         name: Build and push
-        uses: docker/build-push-action@v4
+        uses: docker/build-push-action@v5
         with:
           context: .
           push: true

Dockerfile

@@ -1,4 +1,4 @@
-FROM ubuntu:jammy@sha256:ec050c32e4a6085b423d36ecd025c0d3ff00c38ab93a3d71a460ff1c44fa6d77
+FROM ubuntu:jammy@sha256:aabed3296a3d45cede1dc866a24476c4d7e093aa806263c27ddaadbdce3c1054
 
 SHELL ["/bin/bash", "-c"]
 
@@ -39,6 +39,7 @@ RUN echo "ttf-mscorefonts-installer msttcorefonts/accepted-mscorefonts-eula sele
     zsh \
     gnupg2 \
     nano \
+    gdb \
     ssh-client \
     fontconfig \
     ttf-mscorefonts-installer \
@@ -116,8 +117,8 @@ ENV PATH="/usr/local/texlive/bin/x86_64-linux:${PATH}"
 ENV R_VERSION=4.3.1
 
 # Set RSPM snapshot see:
-# https://packagemanager.rstudio.com/client/#/repos/1/overview
-ENV R_REPOS=https://packagemanager.posit.co/cran/__linux__/jammy/2023-08-28
+# https://packagemanager.posit.co/client/#/repos/cran/setup?r_environment=other&snapshot=2023-10-04&distribution=ubuntu-22.04
+ENV R_REPOS=https://packagemanager.posit.co/cran/__linux__/jammy/2023-10-04
 
 COPY install_scripts/install_r.sh /install_scripts/install_r.sh
 COPY package_lists/r_packages.txt /package_lists/r_packages.txt

package_lists/latex_packages.txt

@@ -96,6 +96,7 @@ texdoc # Package Documentation
 textcase
 textpos
 threeparttable
+threeparttablex
 thumbpdf
 #! To find packages: tlmgr search --global --file "authblk.sty"
 tracklang

package_lists/python_packages.txt

@@ -14,6 +14,7 @@ Jinja2
 kaleido
 matplotlib
 meteostat
+nbformat
 numdifftools
 numpy
 pandas

package_lists/r_packages.txt

@@ -112,5 +112,6 @@ tsrobprep
 VineCopula
 wiqid
 xaringan
+xaringanExtra
 xtable
 zoo

package_lists/r_packages_github.txt

@@ -1,5 +1,4 @@
 BerriJ/strsplit.fix
-gadenbuie/xaringanExtra@*release
 GreenGrassBlueOcean/RefinitivR
 ManuelHentschel/vscDebugger@*release
 stenevang/sftp