Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/655a5e8e00442492d221f5536ab6cf/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/655a5e8e00442492d221f5536ab6cf/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/c3d8bfb7b4fd5305aa317b2ea43fa9/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b2/655a5e8e00442492d221f5536ab6cf/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/4ed8cf494f291214faa00e06b4e36e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/4ed8cf494f291214faa00e06b4e36e/.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-tvcbtr94 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 04:41:57,939 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:41:58,730 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:41:58,896 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:42:13,588 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:42:13,663 - cnv_pipe.batch.run_model - INFO - Processing cluster 833 with 183 probes
2026-06-03 04:42:14,039 - cnv_pipe.batch.run_model.cluster833 - INFO - Child process started for cluster 833 with 183 probes
2026-06-03 04:45:36,247 - cnv_pipe.batch.run_model.cluster833 - INFO - Child process finished cluster 833. Wrote cluster_833_samples.csv and cluster_833_params.csv
2026-06-03 04:45:36,250 - cnv_pipe.batch.run_model - INFO - Cluster 833 finished in 202.59 seconds. Status: SUCCESS