62 lines
2.6 KiB
Groovy
62 lines
2.6 KiB
Groovy
pipeline {
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agent {
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kubernetes {
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cloud 'rsys-devel'
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defaultContainer 'miniforge3'
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inheritFrom 'miniforge'
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}
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}
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stages {
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stage("install") {
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steps {
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sh 'conda config --add channels bioconda'
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sh 'conda config --add channels https://git.reslate.systems/api/packages/ydeng/conda'
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sh 'conda env update -n base -f environment.yml'
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}
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}
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stage("unit tests") {
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steps {
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sh returnStatus: true, script: "python -m pytest --junitxml=test_results.xml --cov=src --cov-report xml:coverage.xml"
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xunit checksName: '', tools: [JUnit(excludesPattern: '', pattern: 'test_results.xml', stopProcessingIfError: true)]
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recordCoverage(tools: [[parser: 'COBERTURA', pattern: 'coverage.xml']])
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}
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}
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stage("build") {
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steps {
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sh "python -m build"
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sh "grayskull pypi dist/*.tar.gz --maintainers 'Harrison Deng'"
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sh "python scripts/patch_recipe.py"
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sh 'conda build autobigs-cli -c bioconda --output-folder conda-bld --verify'
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}
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}
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stage("archive") {
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steps {
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archiveArtifacts artifacts: 'dist/*.tar.gz, dist/*.whl, conda-bld/**/*.conda', fingerprint: true, followSymlinks: false, onlyIfSuccessful: true
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}
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}
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stage("publish") {
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parallel {
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stage ("git.reslate.systems") {
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environment {
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CREDS = credentials('username-password-rs-git')
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}
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steps {
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sh script: 'python -m twine upload --repository-url https://git.reslate.systems/api/packages/ydeng/pypi -u ${CREDS_USR} -p ${CREDS_PSW} --non-interactive --disable-progress-bar --verbose dist/*'
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sh 'curl --user ${CREDS_USR}:${CREDS_PSW} --upload-file conda-bld/**/*.conda https://git.reslate.systems/api/packages/${CREDS_USR}/conda/$(basename conda-bld/**/*.conda)'
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}
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}
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stage ("pypi.org") {
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when {
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tag '*.*.*'
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}
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environment {
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TOKEN = credentials('pypi.org')
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}
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steps {
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sh script: 'python -m twine upload -u __token__ -p ${TOKEN} --non-interactive --disable-progress-bar --verbose dist/*'
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}
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}
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}
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}
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}
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} |