diff --git a/.github/workflows/ci-q2-pathway.yml b/.github/workflows/ci-q2-pathway.yml new file mode 100644 index 0000000..d8a658d --- /dev/null +++ b/.github/workflows/ci-q2-pathway.yml @@ -0,0 +1,12 @@ +name: ci-q2-pathway +on: + pull_request: + branches: ["main"] + push: + branches: ["main"] +jobs: + ci: + uses: qiime2/distributions/.github/workflows/lib-community-ci.yaml@dev + with: + github-repo: q2-pathway + env-file-name: 2024.05-q2-pathway-environment.yml \ No newline at end of file diff --git a/environment-files/2024.05-q2-pathway-environment.yml b/environment-files/2024.05-q2-pathway-environment.yml new file mode 100644 index 0000000..a44a342 --- /dev/null +++ b/environment-files/2024.05-q2-pathway-environment.yml @@ -0,0 +1,18 @@ +channels: +- https://packages.qiime2.org/qiime2/2024.05/amplicon/released +- conda-forge +- bioconda +- noriakisato +dependencies: + - qiime2-2024.05 + - pip + - pip: + - q2-pathway@git+https://github.com/noriakis/q2-pathway.git@main + - python >=3.9,<3.10 + - q2templates + - q2-types + - bioconductor-fgsea + - r-piphir + - numpy + - scipy + - pandas \ No newline at end of file