apiVersion: batch/v1
kind: Job
metadata:
  name: nf-caaed976a1aca0f00dbb8504cd5f65d2-2e082
  namespace: nextflow
  labels: &id001 {nextflow.io/processName: SOMATIC_CNV_REF_BUILDER_SOMA_CNV_PROBE_COUNTS,
    nextflow.io/runName: soma-cnv-ref-b23kgcjlt4-6a249096, nextflow.io/sessionId: uuid-fe53fb43-8560-4fcf-a118-b409a34c5b1c,
    pltf/run-name: soma-cnv-ref-b23kgcjlt4-6a249096, pltf/run-component: task, nextflow.io/app: nextflow,
    nextflow.io/taskName: SOMATIC_CNV_REF_BUILDER_SOMA_CNV_PROBE_COUNTS_659_Lx-N1-BDNA-1,
    pltf/run-id: ef316d5d, pltf/run-engine: nextflow, pltf/run-creator: rsrivas}
  annotations: &id002 {ad.datadoghq.com/nextflow.logs: '[{"source":"nextflow","service":"nextflow-task","log_processing_rules":[{"type":"multi_line","name":"nextflow_task_multiline","pattern":"^\\x00NEVER_MATCH"}]}]',
    ad.datadoghq.com/tags: '{"run_name":"soma-cnv-ref-b23kgcjlt4-6a249096","run_id":"ef316d5d","run_creator":"rsrivas","run_component":"task","task_process":"SOMATIC_CNV_REF_BUILDER:SOMA_CNV_PROBE_COUNTS","task_name":"SOMATIC_CNV_REF_BUILDER:SOMA_CNV_PROBE_COUNTS
      (659_Lx-N1-BDNA-1_B23KGCJLT4_1)"}', karpenter.sh/do-not-disrupt: 'true'}
  ownerReferences:
  - {apiVersion: v1, kind: Pod, name: soma-cnv-ref-b23kgcjlt4-6a249096-ef316d5d-9zv8m,
    uid: bb470494-ff36-4ffd-8bb3-a74c803f2fd0, controller: true, blockOwnerDeletion: true}
spec:
  backoffLimit: 0
  template:
    metadata:
      name: nf-caaed976a1aca0f00dbb8504cd5f65d2-2e082
      namespace: nextflow
      labels: *id001
      annotations: *id002
    spec:
      restartPolicy: Never
      containers:
      - name: nextflow
        image: 292967571998.dkr.ecr.us-west-2.amazonaws.com/soma-cnv:20260604-3cb5ec5
        args: [/bin/bash, -o, pipefail, -c, 'trap "{ ret=$?; /opt/s5cmd/bin/s5cmd
            --log error cp .command.log s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/aed976a1aca0f00dbb8504cd5f65d2/.command.log||true;
            exit $ret; }" EXIT; /opt/s5cmd/bin/s5cmd --log error cat s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/aed976a1aca0f00dbb8504cd5f65d2/.command.run
            | bash 2>&1 | tee .command.log']
        workingDir: /tmp
        imagePullPolicy: Always
        env:
        - {name: SSL_CERT_DIR, value: /opt/s5cmd/ssl/certs}
        - {name: SSL_CERT_FILE, value: /opt/s5cmd/ssl/ca-certificates.crt}
        resources:
          requests: {cpu: 4, memory: 16384Mi, ephemeral-storage: 102400Mi}
          limits: {memory: 16384Mi, ephemeral-storage: 102400Mi}
        volumeMounts:
        - {name: vol-585, mountPath: /tmp}
        - {name: vol-586, mountPath: /app}
        - {name: vol-587, mountPath: /mnt/secrets}
        - {name: vol-588, mountPath: /opt/s5cmd}
      nodeSelector: {workload: nextflow-task, karpenter.sh/capacity-type: spot}
      affinity:
        nodeAffinity:
          requiredDuringSchedulingIgnoredDuringExecution:
            nodeSelectorTerms:
            - matchExpressions:
              - {key: eks.amazonaws.com/instance-gpu-count, operator: DoesNotExist}
      serviceAccountName: sa-nextflow
      securityContext: {runAsUser: 1000}
      tolerations:
      - {key: workload, operator: Equal, value: nextflow-task, effect: NoSchedule}
      volumes:
      - name: vol-585
        emptyDir: []
      - name: vol-586
        emptyDir: []
      - name: vol-587
        secret: {secretName: aws-secrets-manager}
      - name: vol-588
        hostPath: {path: /opt/s5cmd}
  ttlSecondsAfterFinished: 28800