Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/7b21e6b3d5296dfad38952efcc4e3e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/7bbbe2cd91a896f884e9b3bd52f784/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/56/7bbbe2cd91a896f884e9b3bd52f784/.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-8w7j5m6l 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.
2026-06-05 14:01:38,988 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 14:01:39,831 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 14:01:39,999 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 14:01:40,927 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 14:01:41,005 - cnv_pipe.batch.run_model - INFO - Processing cluster 12 with 199 probes
2026-06-05 14:01:41,456 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process started for cluster 12 with 199 probes
2026-06-05 14:02:41,480 - cnv_pipe.batch.run_model.cluster12 - INFO - Child process finished cluster 12. Wrote cluster_12_samples.csv and cluster_12_params.csv
2026-06-05 14:02:41,481 - cnv_pipe.batch.run_model - INFO - Cluster 12 finished in 60.48 seconds. Status: SUCCESS