Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/88572080cac8faab76fdfbecb1c1e0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a9/e4eaf6adc3dea6bc0509f8c0cab4d8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a9/e4eaf6adc3dea6bc0509f8c0cab4d8/.command.run
==> STAGING COMPLETE (6 inputs)

mkdir -p failed for path /.config/matplotlib: [Errno 13] Permission denied: '/.config'
Matplotlib created a temporary cache directory at /tmp/matplotlib-4lo53732 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.
2026-06-05 20:55:46,546 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:55:47,412 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:55:47,582 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:55:48,567 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:55:48,720 - cnv_pipe.batch.run_model - INFO - Processing cluster 536 with 164 probes
2026-06-05 20:55:49,095 - cnv_pipe.batch.run_model.cluster536 - INFO - Child process started for cluster 536 with 164 probes
2026-06-05 20:56:41,690 - cnv_pipe.batch.run_model.cluster536 - INFO - Child process finished cluster 536. Wrote cluster_536_samples.csv and cluster_536_params.csv
2026-06-05 20:56:41,691 - cnv_pipe.batch.run_model - INFO - Cluster 536 finished in 52.97 seconds. Status: SUCCESS