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/2a/8793b9a148d5946c4a2bb29ef2d026/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/8793b9a148d5946c4a2bb29ef2d026/.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-pmrxihm7 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 14:01:53,757 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 14:01:54,639 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 14:01:54,809 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 14:01:55,777 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 14:01:55,957 - cnv_pipe.batch.run_model - INFO - Processing cluster 98 with 186 probes
2026-06-05 14:01:56,336 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process started for cluster 98 with 186 probes
2026-06-05 14:02:52,993 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process finished cluster 98. Wrote cluster_98_samples.csv and cluster_98_params.csv
2026-06-05 14:02:52,994 - cnv_pipe.batch.run_model - INFO - Cluster 98 finished in 57.04 seconds. Status: SUCCESS