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/53/c8362423d22b37357b11e78f87954e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/53/c8362423d22b37357b11e78f87954e/.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-18ya_1sv 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 20:56:03,531 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:56:04,845 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:56:05,125 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:56:06,872 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:56:07,126 - cnv_pipe.batch.run_model - INFO - Processing cluster 712 with 199 probes
2026-06-05 20:56:07,744 - cnv_pipe.batch.run_model.cluster712 - INFO - Child process started for cluster 712 with 199 probes
2026-06-05 20:57:45,320 - cnv_pipe.batch.run_model.cluster712 - INFO - Child process finished cluster 712. Wrote cluster_712_samples.csv and cluster_712_params.csv
2026-06-05 20:57:45,322 - cnv_pipe.batch.run_model - INFO - Cluster 712 finished in 98.20 seconds. Status: SUCCESS