Commit 6a8fb71e authored by jcorvi's avatar jcorvi

Update run_gitlab-runner.sh

parent fffae123
Pipeline #12382 failed with stage
in 2 minutes and 58 seconds
......@@ -23,6 +23,18 @@ db_collection_prefix=dev
#The complete mongo uri
db_uri="mongodb://"$db_user":"$db_password"@"$db_server":"$db_port"/?authSource="$db_name"&authMechanism=SCRAM-SHA-1"
#echo $db_uri
echo $db_uri
db_server=xxxxx
db_port=xxxxx
#set user and password
db_user=xxxxx
db_password=xxxxx
#set the database name
db_name=xxxxxx
#set the collection prefix
db_collection_prefix=xxxxx
db_uri="mongodb://"$db_user":"$db_password"@"$db_server":"$db_port"/?authSource="$db_name"&authMechanism=SCRAM-SHA-1"
#command
$nextflow_path run $pipeline_path --inputDir $input_dir --baseDir $base_dir --db_uri $db_uri --db_name $db_name --db_collection_prefix $db_collection_prefix -with-report $base_dir/report.html -with-trace -with-timeline $base_dir/timeline.html -name $pipeline_name
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