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/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_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/44/88cf8f4be4ccb6f2db1dcf9493035d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/44/88cf8f4be4ccb6f2db1dcf9493035d/.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-__gwc17k 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 22:23:51,766 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:23:52,628 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:23:52,808 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:23:53,848 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:23:53,926 - cnv_pipe.batch.run_model - INFO - Processing cluster 578 with 178 probes
2026-06-08 22:23:54,317 - cnv_pipe.batch.run_model.cluster578 - INFO - Child process started for cluster 578 with 178 probes
2026-06-08 22:24:48,068 - cnv_pipe.batch.run_model.cluster578 - INFO - Child process finished cluster 578. Wrote cluster_578_samples.csv and cluster_578_params.csv
2026-06-08 22:24:48,069 - cnv_pipe.batch.run_model - INFO - Cluster 578 finished in 54.14 seconds. Status: SUCCESS