61 lines
2.4 KiB
Groovy
61 lines
2.4 KiB
Groovy
pipeline {
|
|
agent {
|
|
kubernetes {
|
|
cloud 'rsys-devel'
|
|
defaultContainer 'miniforge3'
|
|
inheritFrom 'miniforge'
|
|
}
|
|
}
|
|
stages {
|
|
stage("prepare") {
|
|
parallel {
|
|
stage("recipes repo") {
|
|
steps {
|
|
sh 'git clone https://github.com/RealYHD/bioconda-recipes.git'
|
|
dir('bioconda-recipes') {
|
|
sh 'git pull'
|
|
sh 'git pull origin update-autobigs-engine'
|
|
sh 'git pull origin update-autobigs-cli'
|
|
}
|
|
}
|
|
}
|
|
stage("conda") {
|
|
steps {
|
|
sh 'conda env update -n base --file environment.yml'
|
|
}
|
|
}
|
|
}
|
|
}
|
|
stage("update recipes") {
|
|
parallel {
|
|
stage("autoBIGS.cli") {
|
|
steps {
|
|
sh 'grayskull pypi autobigs.cli --maintainers "Harrison Deng"'
|
|
sh 'python scripts/adapt_names.py autobigs.cli'
|
|
}
|
|
}
|
|
stage("autoBIGS.engine") {
|
|
steps {
|
|
sh 'grayskull pypi autobigs.cli --maintainers "Harrison Deng"'
|
|
sh 'python scripts/adapt_names.py autobigs.engine'
|
|
}
|
|
}
|
|
}
|
|
stage("overwrite") {
|
|
steps {
|
|
dir('bioconda-recipes') {
|
|
sh 'git checkout -b update-autobigs-engine'
|
|
sh 'cp -r ../autobigs-engine/* recipes/autobigs-engine/.'
|
|
sh 'git commit -a -m "Automatically updated autobigs-engine bioconda recipe to $(python ../scripts/package_latest_version.py autoBIGS.engine)."'
|
|
sh 'git push origin update-autobigs-engine'
|
|
|
|
sh 'git checkout -b update-autobigs-cli'
|
|
sh 'cp -r ../autobigs-cli/* recipes/autobigs-cli/.'
|
|
sh 'git commit -a -m "Automatically updated autobigs-cli bioconda recipe to $(python ../scripts/package_latest_version.py autoBIGS.engine)."'
|
|
sh 'git push origin update-autobigs-cli'
|
|
}
|
|
}
|
|
}
|
|
}
|
|
}
|
|
} |