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/8b/599d8a85c732b0ce65ac9fe5fc7129/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8b/599d8a85c732b0ce65ac9fe5fc7129/.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-_9ehlpwm 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 22:24:08,700 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:24:09,495 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:24:09,667 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:24:10,581 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:24:10,748 - cnv_pipe.batch.run_model - INFO - Processing cluster 1003 with 198 probes
2026-06-08 22:24:11,118 - cnv_pipe.batch.run_model.cluster1003 - INFO - Child process started for cluster 1003 with 198 probes
2026-06-08 22:25:08,082 - cnv_pipe.batch.run_model.cluster1003 - INFO - Child process finished cluster 1003. Wrote cluster_1003_samples.csv and cluster_1003_params.csv
2026-06-08 22:25:08,083 - cnv_pipe.batch.run_model - INFO - Cluster 1003 finished in 57.33 seconds. Status: SUCCESS