diff --git a/rna-seq.nf b/rna-seq.nf index 9f4be25cb0d8df7623574e397198c46621719718..c04fa39fb6cddf5183980934691a6d0e4e04b4bc 100644 --- a/rna-seq.nf +++ b/rna-seq.nf @@ -113,47 +113,6 @@ script_deleteEntry_uploadQC = Channel.fromPath("${baseDir}/workflow/scripts/dele script_deleteEntry_uploadQC_fail = Channel.fromPath("${baseDir}/workflow/scripts/delete_entry.py") script_deleteEntry_uploadProcessedFile = Channel.fromPath("${baseDir}/workflow/scripts/delete_entry.py") -/* - * trackStart: track start of pipeline - */ -process trackStart { - script: - """ - hostname - ulimit -a - - curl -H 'Content-Type: application/json' -X PUT -d \ - '{ \ - "sessionId": "${workflow.sessionId}", \ - "pipeline": "gudmap.rbk_rnaseq", \ - "start": "${workflow.start}", \ - "repRID": "${repRID}", \ - "astrocyte": false, \ - "status": "started", \ - "nextflowVersion": "${workflow.nextflow.version}", \ - "pipelineVersion": "${workflow.manifest.version}", \ - "ci": ${params.ci}, \ - "dev": ${params.dev} \ - }' \ - "https://xku43pcwnf.execute-api.us-east-1.amazonaws.com/ProdDeploy/pipeline-tracking" - - if [ ${params.track} == true ] - then - curl -H 'Content-Type: application/json' -X PUT -d \ - '{ \ - "ID": "${workflow.sessionId}", \ - "repRID": "${repRID}", \ - "PipelineVersion": "${workflow.manifest.version}", \ - "Server": "${params.source}", \ - "Queued": "NA", \ - "CheckedOut": "NA", \ - "Started": "${workflow.start}" \ - }' \ - "https://9ouc12dkwb.execute-api.us-east-2.amazonaws.com/prod/db/track" - fi - """ -} - log.info """\ ==================================== BICF RNA-seq Pipeline for GUDMAP/RBK