:x: sarek/test_full_germline_ncbench_agilent faile...
# sarek_devf
Full test notifications
10/23/2026, 9:20 AM❌ sarek/test_full_germline_ncbench_agilent failed 😿 Run Name
sarek_test_full_germline_ncbench_agilent_3 Duration
6m 23s Status
❌ Failed Error Message
Copy code
(more omitted..)
2026-10-23 09:19:21.348041: I tensorflow/core/platform/cpu_feature_guard.cc:210] 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.
/usr/local/lib/python3.10/dist-packages/google/api_core/_python_version_support.py:246: FutureWarning: You are using a non-supported Python version (3.10.12). Google will not post any further updates to google.api_core supporting this Python version. Please upgrade to the latest Python version, or at least Python 3.11, and then update google.api_core.
warnings.warn(message, FutureWarning)
2026-10-23 09:19:22.277638: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT
I1023 09:19:23.286805 139920643404224 run_deepvariant.py:623] Creating a directory for intermediate results in tmp
***** Intermediate results will be written to tmp in docker. ****
***** Running the command:*****
time seq 0 11 | parallel -q --halt 2 --line-buffer /opt/deepvariant/bin/make_examples --mode calling --ref "Homo_sapiens_assembly38.fasta" --reads "NA12878_200M.recal.cram" --examples "tmp/make_examples.tfrecord@12.gz" --checkpoint "/opt/models/wes" --checkpoint_json "/opt/models/wes/model.example_info.json" --nocall_small_model_examples --gvcf "tmp/gvcf.tfrecord@12.gz" --regions "chr1_12146-12310.bed" --sample_name "NA12878_200M" --task {}
I1023 09:19:23.287660 139920643404224 run_deepvariant.py:894] env = {'R_PROFILE_USER': '/.Rprofile', 'FUSION_LICENSE_TOKEN': 'eyJ4NWMiOlsiTUlJQ2RqQ0NBZGlnQXdJQkFnSUdBYUZqbURvMk1Bb0dDQ3FHU000OUJBTUNNSE14Q3pBSkJnTlZCQVlUQWtWVE1SSXdFQVlEVlFRSURBbENZWEpqWld4dmJtRXhFakFRQmdOVkJBY01DVUpoY21ObGJHOXVZVEVVTUJJR0ExVUVDZ3dMVTJWeFpYSmhJRWx1WXk0eEVqQVFCZ05WQkFzTUNWTmxjV1Z5WVNCRFFURVNNQkFHQTFVRUF3d0pVMlZ4WlhKaElFTkJNQjRYRFRJMk1UQXlNakV4TXpFeU0xb1hEVEkyTVRBek1ERXhNekV5TTFvd2F6RU9NQXdHQ... Copy code
nextflow run '<https://github.com/nf-core/sarek>' -name sarek_test_full_germline_ncbench_agilent_3 -params-file '<https://api.cloud.seqera.io/ephemeral/5XjcZcQqFT2MfxhDD6w7ww.json>' -with-tower -r d0974c995c6b4786561086c4d3cf0e2d7e6ceeff -profile test_full_germline_ncbench_agilent -resume 59f491fc-819e-438f-94a5-72edafb95fca🚫 1