Issues/3466 Move away from Gitpod

.devcontainer/devcontainer.json

@@ -1,7 +1,11 @@
 {
     "name": "nfcore",
-    "image": "nfcore/gitpod:latest",
-    "postCreateCommand": "python -m pip install --upgrade -r ../requirements-dev.txt -e ../ && pre-commit install --install-hooks",
+    // "image": "nfcore/devcontainer",
+    "build": {
+        "dockerfile": "../nf_core/devcontainer/devcontainer.Dockerfile",
+        "context": ".."
+    },
+    "postCreateCommand": "python -m pip install --upgrade -r requirements-dev.txt -e . && pre-commit install --install-hooks",
     "remoteUser": "gitpod",
     "runArgs": ["--privileged"],
 

.github/workflows/push_dockerhub_dev.yml

@@ -28,11 +28,11 @@ jobs:
       - name: Build nfcore/tools:dev docker image
         run: docker build --no-cache . -t nfcore/tools:dev
 
-      - name: Build nfcore/gitpod:dev docker image
-        run: docker build --no-cache . --file nf_core/gitpod/gitpod.Dockerfile -t nfcore/gitpod:dev
+      - name: Build nfcore/devcontainer:dev docker image
+        run: docker build --no-cache . --file nf_core/devcontainer/devcontainer.Dockerfile -t nfcore/devcontainer:dev
 
       - name: Push Docker images to DockerHub (dev)
         run: |
           echo "$DOCKERHUB_PASS" | docker login -u "$DOCKERHUB_USERNAME" --password-stdin
           docker push nfcore/tools:dev
-          docker push nfcore/gitpod:dev
+          docker push nfcore/devcontainer:dev

.github/workflows/push_dockerhub_release.yml

@@ -28,15 +28,15 @@ jobs:
       - name: Build nfcore/tools:latest docker image
         run: docker build --no-cache . -t nfcore/tools:latest
 
-      - name: Build nfcore/gitpod:latest docker image
-        run: docker build --no-cache . --file nf_core/gitpod/gitpod.Dockerfile -t nfcore/gitpod:latest
+      - name: Build nfcore/devcontainer:latest docker image
+        run: docker build --no-cache . --file nf_core/devcontainer/devcontainer.Dockerfile -t nfcore/devcontainer:latest
 
       - name: Push Docker images to DockerHub (release)
         run: |
           echo "$DOCKERHUB_PASS" | docker login -u "$DOCKERHUB_USERNAME" --password-stdin
           docker push nfcore/tools:latest
           docker tag nfcore/tools:latest nfcore/tools:${{ github.event.release.tag_name }}
           docker push nfcore/tools:${{ github.event.release.tag_name }}
-          docker push nfcore/gitpod:latest
-          docker tag nfcore/gitpod:latest nfcore/gitpod:${{ github.event.release.tag_name }}
-          docker push nfcore/gitpod:${{ github.event.release.tag_name }}
+          docker push nfcore/devcontainer:latest
+          docker tag nfcore/devcontainer:latest nfcore/devcontainer:${{ github.event.release.tag_name }}
+          docker push nfcore/devcontainer:${{ github.event.release.tag_name }}

CHANGELOG.md

@@ -77,6 +77,7 @@
 - chore(deps): update python:3.12-slim docker digest to bae1a06 ([#3558](https://github.com/nf-core/tools/pull/3558))
 - Update CI to test template pipelines with nf-test ([#3559](https://github.com/nf-core/tools/pull/3559))
 - chore(deps): update pre-commit hook astral-sh/ruff-pre-commit to v0.11.9 ([#3563](https://github.com/nf-core/tools/pull/3563))
+- Stop using Gitpod in favor of devcontainer for codespaces ([#3569](https://github.com/nf-core/tools/pull/3569))
 
 ## [v3.2.1 - Pewter Pangolin Patch](https://github.com/nf-core/tools/releases/tag/3.2.1) - [2025-04-29]
 

nf_core/gitpod/gitpod.Dockerfile → nf_core/devcontainer/devcontainer.Dockerfile

@@ -1,8 +1,8 @@
-# Test build locally before making a PR
-#   docker build -t gitpod:test -f nf_core/gitpod/gitpod.Dockerfile .
+# Test build locally before making a PR (from project root directory)
+#   docker build . -t devcontainer:local -f nf_core/devcontainer/devcontainer.Dockerfile
 
 # See https://docs.renovatebot.com/docker/#digest-pinning for why a digest is used.
-FROM gitpod/workspace-base@sha256:7f35e401405c38ebc1185dfc3d6c066f73a524e8b86641453ea4690cc5c24fb6
+FROM gitpod/workspace-base:2025-05-14-07-50-25
 
 USER root
 
@@ -36,11 +36,9 @@ ENV PATH="/opt/conda/bin:$PATH"
 COPY . /usr/src/nf_core
 WORKDIR /usr/src/nf_core
 
-# Change ownership for gitpod
 RUN chown -R gitpod:gitpod /opt/conda /usr/src/nf_core
-
-# Change user to gitpod
 USER gitpod
+
 # Install nextflow, nf-core, nf-test, and other useful tools
 RUN conda config --add channels bioconda && \
     conda config --add channels conda-forge && \