Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/8ee81d6b6b4fcd312c228fa48d406e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/54/7cbb3a2229435604b24a76b46ac3af/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/a817b4292df8b0c6b13eb3d45c8e58/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7d/a817b4292df8b0c6b13eb3d45c8e58/.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-dz6fgvyz 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 16:58:39,975 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 16:58:40,842 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 16:58:41,015 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 16:58:42,052 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 16:58:42,218 - cnv_pipe.batch.run_model - INFO - Processing cluster 475 with 20 probes
2026-06-04 16:58:42,609 - cnv_pipe.batch.run_model.cluster475 - INFO - Child process started for cluster 475 with 20 probes
2026-06-04 16:58:55,613 - cnv_pipe.batch.run_model.cluster475 - INFO - Child process finished cluster 475. Wrote cluster_475_samples.csv and cluster_475_params.csv
2026-06-04 16:58:55,614 - cnv_pipe.batch.run_model - INFO - Cluster 475 finished in 13.40 seconds. Status: SUCCESS