diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml index 5667086524087f106afea8e8ef5b5db64b4a0fd0..364ea11cd46d83ff0daac9f8daabf018f7870f94 100644 --- a/.gitlab-ci.yml +++ b/.gitlab-ci.yml @@ -1102,10 +1102,12 @@ aws: id=$(echo ${id}| grep -oP "jobId\K.*" | tr -d '"' | tr -d ":" | tr -d " " | tr -d "}") - > status=$(aws batch describe-jobs --jobs ${id} | grep -oP "status\": \K.*" | tr -d '"' | tr -d ',' | tr -d " " ) && - until [[ "${status}" == "SUCCEEDED" || "${status}" == "FAILED" ]]; do + until [[ "${status}" == "SUCCEEDED" ] || [ "${status}" == "FAILED" ]]; do status=$(aws batch describe-jobs --jobs ${id} | grep -oP "status\": \K.*" | tr -d '"' | tr -d ',' | tr -d " " ) && echo ${status} && - sleep 5m + if [[ "${status}" != "SUCCEEDED" && "${status}" != "FAILED" ]]; then + sleep 1m + fi done - > if [ "${status}" == "SUCCEEDED" ]; then diff --git a/nextflow.config b/nextflow.config index 53ead0e08ce15d753ba44b9ebb2899446c2c45cf..5406cc25d44d971657e58d78a45b33534bd69a6e 100644 --- a/nextflow.config +++ b/nextflow.config @@ -106,22 +106,6 @@ process { } } -trace { - enabled = false - file = 'trace.txt' - fields = 'task_id,native_id,process,name,status,exit,submit,start,complete,duration,realtime,%cpu,%mem,rss' -} - -timeline { - enabled = false - file = 'timeline.html' -} - -report { - enabled = false - file = 'report.html' -} - tower { accessToken = '3ade8f325d4855434b49aa387421a44c63e3360f' enabled = true