Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/c90fee7de7c6b3a7d2d454c8179cf2/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/c90fee7de7c6b3a7d2d454c8179cf2/.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-etftl9go 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.
2026-06-08 22:23:41,308 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:42,108 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:42,288 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:43,363 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:43,580 - cnv_pipe.batch.run_model - INFO - Processing cluster 659 with 183 probes
2026-06-08 22:23:43,957 - cnv_pipe.batch.run_model.cluster659 - INFO - Child process started for cluster 659 with 183 probes
2026-06-08 22:24:40,454 - cnv_pipe.batch.run_model.cluster659 - INFO - Child process finished cluster 659. Wrote cluster_659_samples.csv and cluster_659_params.csv
2026-06-08 22:24:40,455 - cnv_pipe.batch.run_model - INFO - Cluster 659 finished in 56.87 seconds. Status: SUCCESS