Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/5fb299e6a3b97de43f9ff0fa8ad703/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c0/5fb299e6a3b97de43f9ff0fa8ad703/.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-a3hvt7gc 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.
2026-06-03 05:43:24,629 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:43:25,768 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:43:25,971 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:44:11,843 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:44:11,939 - cnv_pipe.batch.run_model - INFO - Processing cluster 665 with 200 probes
2026-06-03 05:44:12,325 - cnv_pipe.batch.run_model.cluster665 - INFO - Child process started for cluster 665 with 200 probes
2026-06-03 05:49:58,089 - cnv_pipe.batch.run_model.cluster665 - INFO - Child process finished cluster 665. Wrote cluster_665_samples.csv and cluster_665_params.csv
2026-06-03 05:49:58,092 - cnv_pipe.batch.run_model - INFO - Cluster 665 finished in 346.15 seconds. Status: SUCCESS