A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

:x: *sarek/test_full_aws* failed :crying_cat_face: *Run Name*
sarek_test_full_aws *Duration*
2h 56m 48s *Status*
:x: Failed *Error Message*
```3:11PM INF [seqera-fusion] OpenTelemetry collector initialized component=metrics format=json
3:11PM INF [seqera-fusion] setting up AWS Batch spot instance monitoring provider=aws-batch
3:11PM INF [seqera-fusion] instance metadata ami-id=ami-0acc5dd6b31082def instance-id=i-0e426fb8c127973a9 instance-type=m6id.8xlarge
3:11PM INF [seqera-fusion] starting incremental snapshot timer interval=300000
gzip: stdout: Broken pipe
2026-11-11 15:11:56 - INFO: Disabling --hgvs; using --offline and no FASTA file found
3:16PM INF [seqera-fusion] sending incremental snapshot signal (SIGUSR1)
3:16PM ERR [seqera-fusion] Failed to fetch entry size. This may indicate storage access issues. Check `error` field for details and report this issue if it persists. error="operation error S3: HeadObject, https response error StatusCode: 0, RequestID: , HostID: , canceled, context canceled" goid=2555 operation=Readlink path=/s3/annotation-cache/vep_cache/116_GRCh38/homo_sapiens/116_GRCh38/22/45000001-46000000.gz
-------------------- EXCEPTION --------------------
MSG: ERROR: 
STACK Bio::EnsEMBL::VEP::AnnotationSource::Cache::BaseSerialized::deserialize_from_file_storable /opt/wave/.pixi/envs/default/share/ensembl-vep-116.3-0/modules/Bio/EnsEMBL/VEP/AnnotationSource/Cache/BaseSerialized.pm:134
STACK Bio::EnsEMBL::VEP::AnnotationSource::Cache::BaseSerialized::deserialize_from_file /opt/wave/.pixi/envs/default/share/ensembl-vep-116.3-0/modules/Bio/EnsEMBL/VEP/AnnotationSource/Cache/BaseSerialized.pm:103
STACK Bio::EnsEMBL::VEP::AnnotationSource::Cache::BaseSerialized::get_features_by_regions_uncached /opt/wave/.pixi/envs/default/share/ensembl-vep-116.3-0/modules/Bio/EnsEMBL/VEP/AnnotationSource/Cache/BaseSerialized.pm:261
STACK Bio::EnsEMBL::VEP::AnnotationSource::get_all_features_by_InputBuffer /opt/wave/.pixi/envs/default/share/ensembl-vep-116.3-0/modules/Bio/EnsEMBL/VEP/AnnotationSource.pm:134
STACK Bio::EnsEMBL::VEP::AnnotationType::Transcript::annotate_InputBuffer /opt/wave/.pixi/envs/default/...``` *Command Line*
```nextflow run '<https://github.com/nf-core/sarek>' -name sarek_test_full_aws -params-file '<https://api.cloud.seqera.io/ephemeral/wZcEAP-C8fHauC7HjD40Eg.json>' -with-tower -r 786a11bb4f989751d1c4bb87908ffc6096635ff3 -profile test_full_aws``` Nov 11, 2026 at 3:17 PM

fear not, spot rescue was too slow. Resumed