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Changed to whitespaces
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Harrison Deng 2025-02-25 15:16:37 +00:00
parent 3320b6fc43
commit ddb98514fb
2 changed files with 88 additions and 90 deletions
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Jenkinsfile vendored
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@ -2,29 +2,27 @@ pipeline {
agent { agent {
kubernetes { kubernetes {
cloud 'rsys-devel' cloud 'rsys-devel'
defaultContainer 'miniforge3' defaultContainer 'pip'
inheritFrom 'miniforge' inheritFrom 'pip'
} }
} }
stages { stages {
stage ("install") { stage ("install") {
steps { steps {
sh 'conda env update -n base --file environment.yml' sh 'pip install -r requirements.txt'
sh 'useradd galaxy -m' sh 'planemo ci_setup'
sh 'apt-get update'
sh 'apt-get install sudo -y'
} }
} }
stage ("lint") { stage ("lint") {
steps { steps {
sh "sudo -u galaxy planemo lint autobigs-cli.xml" sh "planemo lint autobigs-cli.xml"
} }
} }
stage ("test") { stage ("test") {
steps { steps {
sh 'sudo -u galaxy mkdir test_results' sh 'mkdir test_results'
sh "sudo -u galaxy planemo test autobigs-cli.xml --test_output_junit test_results/junit_results.xml --test_output_json test_results/results.json --test_output test_results/human.html" sh "planemo test autobigs-cli.xml --test_output_junit test_results/junit_results.xml --test_output_json test_results/results.json --test_output test_results/human.html"
xunit checksName: '', tools: [JUnit(excludesPattern: '', pattern: 'test_results/junit_report.xml', stopProcessingIfError: true)] xunit checksName: '', tools: [JUnit(excludesPattern: '', pattern: 'test_results/junit_report.xml', stopProcessingIfError: true)]
} }
} }