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Get output from modular ingests before merge in Jenkins job #593

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Get output from modular ingests before merge in Jenkins job #593

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ad6be35
Add steps to download output from modular ingests
glass-ships Jun 27, 2024
286a02e
Merge branch 'main' into get-modular-output
glass-ships Jun 27, 2024
7c4bc0a
mappings is NOT in fact, None
glass-ships Jun 27, 2024
9e99135
add files for alliance variant allele and ncbi-gene ingests
glass-ships Jun 27, 2024
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9 changes: 9 additions & 0 deletions Jenkinsfile
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Original file line number Diff line number Diff line change
Expand Up @@ -34,6 +34,7 @@ pipeline {
'''
}
}
// Download source data to be transformed
stage('download') {
steps {
sh '''
Expand All @@ -60,6 +61,14 @@ pipeline {
// '''
}
}
// Download output of modular ingests separately
stage('download-modular') {
steps {
sh '''
poetry run python scripts/download_modular.py
'''
}
}
stage('merge') {
steps {
sh 'poetry run ingest merge'
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