File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3e/deef05e4b0648d116aa02c09abcede/.command.log
Size
641.2 KB
Task
DAQ:GERMLINE_CNV:AggregateBatchPerSampleData (Sig_18_Blood)
Attempt

Content

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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a1/e1f3ab62c12731ff3d9acbed25a858/cluster_1387_samples.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9d/7f8c6cff8ecdf89a9b7ef2931b2f74/cluster_1150_samples.csv
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  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/d50a37077c3b3b7038f480a5f0e5b8/cluster_1661_params.csv
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==> STAGING COMPLETE (5325 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-0z3iu9qd because there was an issue with the default path (/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.
2026-06-04 17:42:32,664 - cnv_pipe.cnv_pipe.batch.agg - INFO - Aggregating data for sample Sig_18_Blood
2026-06-04 17:42:32,672 - cnv_pipe.cnv_pipe.batch.agg - INFO - Found 2659 clusters in clusters/
2026-06-04 17:42:39,017 - cnv_pipe.cnv_pipe.batch.agg - INFO - Read model data: 462994 probe-sample rows from 2659 clusters
2026-06-04 17:42:39,467 - cnv_pipe.cnv_pipe.batch.agg - INFO - Read counts: 462994 rows for sample Sig_18_Blood
2026-06-04 17:42:39,793 - cnv_pipe.cnv_pipe.batch.agg - INFO - Ploidy (sex=ProcessBatch, auto=posteriors): {'chrX': 1, 'chrY': 0, 'chr1': 0, 'chr12': 0, 'chr14': 0, 'chr19': 0, 'chr21': 2, 'chr5': 0, 'chr6': 0, 'chr7': 4, 'chr9': 0}
2026-06-04 17:42:40,338 - cnv_pipe.cnv_pipe.batch.agg - INFO - Wrote 462994 rows to Sig_18_Blood_probe_sample.parquet