ydeng/autoBIGS.galaxy
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base: ydeng:aaeb02853e68b12858803f3fd38ba6b55fce3ccc
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ydeng:develop
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compare: ydeng:d2dfbb9464ca56c3b737e5bcc5cd9eeeedaa9bea
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ydeng:develop

2 Commits
aaeb02853e ... d2dfbb9464

Author SHA1 Message Date
Harrison Deng
d2dfbb9464 generate and run planemo testing on separate user
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autoBIGS.galaxy/pipeline/head Something is wrong with the build of this commit
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2025-02-22 16:45:33 +00:00
Harrison Deng
72f7af1879 Renamed schemes output label 2025-02-22 16:45:15 +00:00
2 changed files with 5 additions and 3 deletions
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6
Jenkinsfile vendored
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@ -10,9 +10,11 @@ pipeline {
stages {
stage ("install") {
steps {
sh 'useradd galaxy -m'
sh 'apt update'
sh 'apt install sudo -y'
sh 'pip install -r requirements.txt'
sh 'pip install standard-imghdr'
sh 'useradd galaxy -m'
}
}
stage ("lint") {
@ -23,7 +25,7 @@ pipeline {
stage ("test") {
steps {
sh 'mkdir test_results'
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"
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"
xunit checksName: '', tools: [JUnit(excludesPattern: '', pattern: 'test_results/junit_report.xml', stopProcessingIfError: true)]
}
}

2
autobigs-cli.xml
View File

@ -59,7 +59,7 @@
<data name="info_db_out" label="${tool.name} supported Databases" format="csv">
<filter>mode['operation'] == "info" and select_info['retrieved'] == 'databases'</filter>
</data>
<data name="info_schemes_out" label="${tool.name} supported Databases" format="csv">
<data name="info_schemes_out" label="${tool.name} supported Schemes" format="csv">
<filter>mode['operation'] == "info" and select_info['retrieved'] == 'schemes'</filter>
</data>
</outputs>