❌ sarek/test_full_germline_aws failed 😿 Run Name sarek_test_full_germline_aws_4 Duration 24m 24s Status ❌ Failed Error Message

9:00AM INF [seqera-fusion] setting up AWS Batch spot instance monitoring provider=aws-batch
9:00AM INF [seqera-fusion] instance metadata ami-id=ami-0acc5dd6b31082def instance-id=i-00f4babb988db1641 instance-type=c6i.12xlarge
9:00AM INF [seqera-fusion] starting incremental snapshot timer interval=300000
2026-06-12 09:01:00.387795: I tensorflow/core/util/port.cc:110] oneDNN custom operations are on. You may see slightly different numerical results due to floating-point round-off errors from different computation orders. To turn them off, set the environment variable `TF_ENABLE_ONEDNN_OPTS=0`.
2026-06-12 09:01:00.389489: I tensorflow/tsl/cuda/cudart_stub.cc:28] Could not find cuda drivers on your machine, GPU will not be used.
2026-06-12 09:01:00.422714: I tensorflow/tsl/cuda/cudart_stub.cc:28] Could not find cuda drivers on your machine, GPU will not be used.
2026-06-12 09:01:00.423096: I tensorflow/core/platform/cpu_feature_guard.cc:182] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations.
To enable the following instructions: AVX2 AVX512F AVX512_VNNI FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags.
2026-06-12 09:01:01.115635: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT
I0612 09:01:02.213526 140106618466752 run_deepvariant.py:635] Creating a directory for intermediate results in tmp
***** Intermediate results will be written to tmp in docker. ****
I0612 09:01:02.214494 140106618466752 run_deepvariant.py:838] env = {'R_PROFILE_USER': '/.Rprofile', 'FUSION_LICENSE_TOKEN': 'eyJ4NWMiOlsiTUlJQ2R6Q0NBZGlnQXdJQkFnSUdBWjY1cFFXSE1Bb0dDQ3FHU000OUJBTUNNSE14Q3pBSkJnTlZCQVlUQWtWVE1SSXdFQVlEVlFRSURBbENZWEpqWld4dmJtRXhFakFRQmdOVkJBY01DVUpoY21ObGJHOXVZVEVVTUJJR0ExVUVDZ3dMVTJWeFpYSmhJRWx1WXk0eEVqQVFCZ05WQkFzTUNWTmxjV1Z5WVNCRFFURVNNQkFHQTFVRUF3d0pVMlZ4WlhKaElFTkJNQjRYRFRJMk1EWXhNakF4TWpReU1Gb1hEVEkyTURZeU1EQXhNalF5TUZvd2F6RU9NQXdHQTFVRUF3d0ZkRzkzWlh...

Command Line

nextflow run '<https://github.com/nf-core/sarek>' -name sarek_test_full_germline_aws_4 -params-file '<https://api.cloud.seqera.io/ephemeral/6BZsD1vVM8BlanZsGwsxHQ.json>' -with-tower -r 375c449933215d19e26f645fd61c5bc38580e2da -profile test_full_germline_aws -resume f26ab704-e630-4ff0-96b8-1d08771c7354

Jun 12, 2026 at 9:01 AM

ok this was on a non-fusion CE which also doesn't work. I tried Deepvariant now on: • Fusion • Fusion + scratch = false • Non-fusion CE none of them work, so I think that excludes fusion as the issue and something else is up.