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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,338 @@ | ||
| version: 2 | ||
| # trigger cache invalidation: 2018-09-16T22:39+00:00 | ||
|
|
||
| variables: | ||
| restore_cache: &restore_cache | ||
| restore_cache: | ||
| keys: | ||
| - miniconda-{{ checksum ".circleci/common.sh" }}-{{ checksum ".circleci/setup.sh" }}-{{ checksum ".circleci/config.yml" }}-{{ arch }} | ||
| save_cache: &save_cache | ||
| save_cache: | ||
| key: miniconda-{{ checksum ".circleci/common.sh" }}-{{ checksum ".circleci/setup.sh" }}-{{ checksum ".circleci/config.yml" }}-{{ arch }} | ||
| paths: | ||
| - miniconda | ||
| common: &common | ||
| run: | ||
| name: Download common definitions | ||
| command: | | ||
| curl -s https://raw.githubusercontent.com/bioconda/bioconda-common/master/common.sh > .circleci/common.sh | ||
| setup: &setup | ||
| run: | ||
| name: Setup bioconda-utils | ||
| command: .circleci/setup.sh | ||
| macos: &macos | ||
| macos: | ||
| xcode: "8.3.3" | ||
| environment: | ||
| LC_ALL: en_US.UTF-8 | ||
| LANG: en_US.UTF-8 | ||
| linux: &linux | ||
| machine: true | ||
| skip_fork: &skip_fork | ||
| run: | ||
| name: Check for fork | ||
| command: | | ||
| [[ $CIRCLE_PROJECT_USERNAME == bioconda ]] || ( | ||
| echo "Skipping build for fork '$CIRCLE_PROJECT_USERNAME'" | ||
| circleci step halt | ||
| ) | ||
| fail_fork: &fail_fork | ||
| run: | ||
| name: Check for fork | ||
| command: | | ||
| [[ $CIRCLE_PROJECT_USERNAME == bioconda ]] || ( | ||
| echo "Aborting build for fork '$CIRCLE_PROJECT_USERNAME'" | ||
| echo "Please use a branch other than 'master' or 'bulk' on your fork" | ||
| exit 1 | ||
| ) | ||
| store_built_packages: &store_built_packages | ||
| run: | ||
| name: Copying packages | ||
| when: always | ||
| no_output_timeout: 20m | ||
| command: | | ||
| set +e # Just to be safe. Don't want workflows to fail because of this. | ||
| mkdir -p /tmp/artifacts/packages | ||
| cd miniconda/conda-bld || exit 0 | ||
| find -name .cache | xargs rm -rf || true | ||
| for n in rss.xml index.html channeldata.json linux-64 osx-64 noarch broken; do | ||
| cp -rv $n /tmp/artifacts/packages || true | ||
| done | ||
| if command -V docker >/dev/null; then | ||
| mkdir -p /tmp/artifacts/images | ||
| cd /tmp/artifacts/images | ||
| docker image ls --format '{{.Repository}}:{{.Tag}}' | \ | ||
| (grep biocontainers || true) | \ | ||
| xargs -n1 -P4 bash -c 'docker save $1 | gzip -c > "${1##*/}.tar.gz"' -- | ||
| fi | ||
| true | ||
| store_artifacts: &store_artifacts | ||
| store_artifacts: | ||
| path: /tmp/artifacts | ||
|
|
||
|
|
||
| jobs: | ||
| # When running CircleCI locally, we put everything in one job. | ||
| build: | ||
| docker: | ||
| - image: bioconda/bioconda-utils-build-env | ||
| steps: | ||
| - checkout | ||
| - run: | ||
| name: Setup ssh | ||
| command: | | ||
| mkdir -p ~/.ssh | ||
| ssh-keyscan -H github.com >> ~/.ssh/known_hosts | ||
| - run: echo ". /opt/conda/etc/profile.d/conda.sh" >> $BASH_ENV | ||
| - run: echo "conda activate" >> $BASH_ENV | ||
| - *common | ||
| - *setup | ||
| - run: | ||
| name: Linting | ||
| command: | | ||
| bioconda-utils lint recipes config.yml \ | ||
| --loglevel debug --full-report \ | ||
| --git-range master HEAD | ||
| - run: | ||
| name: Testing | ||
| # Currently, using --docker below causes a permission error on Fedora 27, | ||
| # although it should be supported by the setup_remote_docker directive | ||
| # above. A workaround or an upstream fix would be welcome. | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --git-range master HEAD | ||
| lint: | ||
| <<: *linux | ||
| steps: | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Linting | ||
| command: | | ||
| bioconda-utils lint recipes config.yml \ | ||
| --loglevel debug --full-report \ | ||
| --git-range master HEAD | ||
| # build and test on linux | ||
| test-linux: | ||
| <<: *linux | ||
| steps: | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building and testing | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --docker --mulled-test \ | ||
| --git-range master HEAD | ||
| - *store_built_packages | ||
| - *store_artifacts | ||
|
|
||
| # build and test on macos | ||
| test-macos: | ||
| <<: *macos | ||
| steps: | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building and testing | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --git-range master HEAD | ||
| - *store_built_packages | ||
| - *store_artifacts | ||
|
|
||
| # build, test and upload on linux | ||
| upload-linux: | ||
| <<: *linux | ||
| steps: | ||
| - *fail_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| # build only current commit (since we use squashed merging, this is safe) | ||
| - run: | ||
| name: Building, testing, and uploading | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --docker --mulled-test --anaconda-upload --mulled-upload-target biocontainers \ | ||
| --git-range $CIRCLE_SHA1~1 $CIRCLE_SHA1 \ | ||
| --prelint | ||
| # build, test and upload on macos | ||
| upload-macos: | ||
| <<: *macos | ||
| steps: | ||
| - *fail_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| # build only current commit (since we use squashed merging, this is safe) | ||
| - run: | ||
| name: Building, testing and uploading | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --anaconda-upload \ | ||
| --git-range $CIRCLE_SHA1~1 $CIRCLE_SHA1 \ | ||
| --prelint | ||
| # build, test and upload for bulk branch on linux | ||
| bulk-linux: | ||
| <<: *linux | ||
| steps: | ||
| - *fail_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building, testing, and uploading of all unpublished recipes | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --docker --mulled-test --anaconda-upload --mulled-upload-target biocontainers | ||
| # build, test and upload for bulk branch on macos | ||
| bulk-macos: | ||
| <<: *macos | ||
| steps: | ||
| - *fail_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building, testing and uploading of all unpublished recipes | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --anaconda-upload | ||
| # nightly build, test and upload of unpublished recipes on linux | ||
| nightly-upload-linux: | ||
| <<: *linux | ||
| steps: | ||
| - *skip_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building, testing, and uploading of all unpublished recipes | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --docker --mulled-test --anaconda-upload --mulled-upload-target biocontainers \ | ||
| --prelint | ||
| # nightly build, test and upload of unpublished recipes on macos | ||
| nightly-upload-macos: | ||
| <<: *macos | ||
| steps: | ||
| - *skip_fork | ||
| - checkout | ||
| - *common | ||
| - *restore_cache | ||
| - *setup | ||
| - *save_cache | ||
| - run: | ||
| name: Building, testing and uploading of all unpublished recipes | ||
| command: | | ||
| bioconda-utils build recipes config.yml \ | ||
| --anaconda-upload \ | ||
| --prelint | ||
| workflows: | ||
| version: 2 | ||
| # workflow for testing pushes and PRs | ||
| bioconda-test: | ||
| jobs: | ||
| # Linting is now also performed just before a recipe is built with | ||
| # bioconda-utils build --prelint. | ||
| - lint: | ||
| filters: | ||
| branches: | ||
| ignore: | ||
| - master | ||
| - bulk | ||
| - test-linux: | ||
| requires: | ||
| - lint | ||
| filters: | ||
| branches: | ||
| ignore: | ||
| - master | ||
| - bulk | ||
| - test-macos: | ||
| requires: | ||
| - lint | ||
| - test-linux | ||
| filters: | ||
| branches: | ||
| ignore: | ||
| - master | ||
| - bulk | ||
| # workflow for uploading packages from master and bulk branch | ||
| bioconda-upload-master: | ||
| jobs: | ||
| - upload-linux: | ||
| filters: | ||
| branches: | ||
| only: | ||
| - master | ||
| - upload-macos: | ||
| filters: | ||
| branches: | ||
| only: | ||
| - master | ||
| # workflow for bulk-updates | ||
| bioconda-upload-bulk-linux: | ||
| jobs: | ||
| - bulk-linux: | ||
| filters: | ||
| branches: | ||
| only: | ||
| - bulk | ||
| bioconda-upload-bulk-macos: | ||
| jobs: | ||
| - bulk-macos: | ||
| filters: | ||
| branches: | ||
| only: | ||
| - bulk | ||
| # nightly workflow to capture missed recipes | ||
| bioconda-nightly-upload-linux: | ||
| triggers: | ||
| - schedule: | ||
| cron: "0 0 * * *" | ||
| filters: | ||
| branches: | ||
| only: | ||
| - master | ||
| jobs: | ||
| - nightly-upload-linux | ||
| bioconda-nightly-upload-macos: | ||
| triggers: | ||
| - schedule: | ||
| cron: "0 0 * * *" | ||
| filters: | ||
| branches: | ||
| only: | ||
| - master | ||
| jobs: | ||
| - nightly-upload-macos |
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