Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/2bc6a550b9b7a6a7c04a8c46d11f24/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/6a9c53fbd7f13109e6705f57646e14/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/6a9c53fbd7f13109e6705f57646e14/.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-y2sg8jom 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.
2026-06-04 17:13:43,061 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:13:43,868 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:13:44,039 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:13:44,942 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:13:45,017 - cnv_pipe.batch.run_model - INFO - Processing cluster 928 with 184 probes
2026-06-04 17:13:45,483 - cnv_pipe.batch.run_model.cluster928 - INFO - Child process started for cluster 928 with 184 probes
2026-06-04 17:14:38,884 - cnv_pipe.batch.run_model.cluster928 - INFO - Child process finished cluster 928. Wrote cluster_928_samples.csv and cluster_928_params.csv
2026-06-04 17:14:38,885 - cnv_pipe.batch.run_model - INFO - Cluster 928 finished in 53.87 seconds. Status: SUCCESS