File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/49d75703251a47e5bd38358486694c/.command.log
Size
1.1 KB
Task
SOMATIC_CNV_CALLING:SOMA_CNV_NORMALIZE (1029_01S-N1-BDNA-1_B23KGCJLT4_1)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/49d75703251a47e5bd38358486694c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/4bec8ec203d6779fc9992ae2ccbdad/norm_reference/sex_calls.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/64/49d75703251a47e5bd38358486694c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/dc/0dfe586df710c79859629ae52a11da/1029_01S-N1-BDNA-1_B23KGCJLT4_1_probes.tsv.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a3/4bec8ec203d6779fc9992ae2ccbdad/norm_reference/batch_reference.parquet
==> STAGING COMPLETE (5 inputs)

Loaded 472,386 probes for 1029_01S-N1-BDNA-1_B23KGCJLT4_1
  Sex homology mask: 1494 probes set to mask=2
  5-feature GAM: R²=0.9648
Traceback (most recent call last):
  File "/usr/local/bin/normalize_sample.py", line 187, in <module>
    normalize_one_sample(
  File "/usr/local/bin/normalize_sample.py", line 121, in normalize_one_sample
    os.makedirs(os.path.dirname(output_path), exist_ok=True)
  File "<frozen os>", line 225, in makedirs
FileNotFoundError: [Errno 2] No such file or directory: ''