diff --git a/.gitpod.Dockerfile b/.gitpod.Dockerfile deleted file mode 100644 index aea795e..0000000 --- a/.gitpod.Dockerfile +++ /dev/null @@ -1,34 +0,0 @@ -# Image source code: https://github.com/axonasif/workspace-images/tree/tmp -# Also see https://github.com/gitpod-io/workspace-images/issues/1071 -FROM axonasif/workspace-base@sha256:8c057b1d13bdfe8c279c68aef8242d32110c8d5310f9a393f9c0417bc61367d9 - -# Set user -USER gitpod - -# Install Miniconda -RUN wget --quiet https://repo.anaconda.com/miniconda/Miniconda3-py311_24.1.2-0-Linux-x86_64.sh -O ~/miniconda.sh && \ - /bin/bash ~/miniconda.sh -b -p $HOME/miniconda && \ - rm ~/miniconda.sh - -# Add Miniconda to PATH -ENV PATH="$HOME/miniconda/bin:$PATH" - -# Initialize conda in bash config files: -RUN conda init bash - -# Set up Conda channels -RUN conda config --add channels conda-forge && \ - conda config --add channels bioconda && \ - conda config --set channel_priority strict - -# Set libmamba as solver -RUN conda config --set solver libmamba - -# Persist ~/ (HOME) and lib -RUN echo 'create-overlay $HOME /lib' > "$HOME/.runonce/1-home-lib_persist" - -# Referenced in `.vscode/settings.json` -ENV PYTHON_INTERPRETER="$HOME/miniconda/bin/python" - -# Pycharm recognizes this variables -ENV PYCHARM_PYTHON_PATH="${PYTHON_INTERPRETER}" \ No newline at end of file diff --git a/.gitpod.yml b/.gitpod.yml deleted file mode 100644 index 5f4f419..0000000 --- a/.gitpod.yml +++ /dev/null @@ -1,25 +0,0 @@ -image: - file: .gitpod.Dockerfile - -tasks: - - name: Init Gitpod Workspace - init: | - conda install --yes --solver=libmamba -c conda-forge -c bioconda "compilers" "maturin>=1,<2" "pytest" "rust" "scipy" "toml" - conda clean --all --yes - command: | - echo "Running: $GITPOD_WORKSPACE_URL" - -ports: - - name: Jupyter Notebook - port: 8888 - onOpen: open-browser - -vscode: - extensions: - - eamodio.gitlens - - github.vscode-pull-request-github - - janisdd.vscode-edit-csv - - mechatroner.rainbow-csv - - ms-python.debugpy - - ms-python.python -