File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/acf4d4f41c7ed809ca2bd5e41060b9/.command.log
Size
2.5 KB
Task
NFCORE_SAREK:SAREK:CRAM_SAMPLE_INTEGRITY:CRAM_QC_RECAL:MOSDEPTH (HCC1395_tumor)
Attempt

Content

View in new tab 
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/acf4d4f41c7ed809ca2bd5e41060b9/.command.sh
  Downloading: s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam
ERROR "ls s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam": no object found
ERROR "ls s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam.bai": no object found
ERROR "cp s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam HCC1395_tumor.recalibrated.bam": NoSuchKey: The specified key does not exist. status code: 404, request id: S0JRFRVHZ35145XK, host id: PtpXyjXAhO2n3LdOQzOUujPXQpSysDTU97fBk+fwU5ZRd9JoR3KPRnA1i2yY8aj+k5uo652+ghqCOIup0zJnxQ==
ERROR "cp s3://natera-platform-sandbox/pipeline-inputs/test_sarek/end_to_end_regression/01_preprocess_regression_fastqs/regression_preprocess__60492e9--20260310-034416/alignments/recalibrated/HCC1395_tumor/HCC1395_tumor.recalibrated.bam.bai HCC1395_tumor.recalibrated.bam.bai": NoSuchKey: The specified key does not exist. status code: 404, request id: S0JSKTH4SP7Q9TX1, host id: jKTh2jNzFNIWBynVfgbapT463gjBDLwn9gjtdqgZhxVQpPAvdJGdEexhVXwqInO/ERUgbVMlm7w/ZGQznCS4C63Eii5NBdl3
ERROR "cp s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta Homo_sapiens_assembly38.fasta": rename ./Homo_sapiens_assembly38.fasta2579723963 Homo_sapiens_assembly38.fasta: no such file or directory