Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e3c652803a428ecc31e1033b306413/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/e3c652803a428ecc31e1033b306413/.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-mgaqdb6e 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.
2026-06-08 22:22:35,504 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:22:36,393 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:22:36,567 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:22:37,562 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:22:37,635 - cnv_pipe.batch.run_model - INFO - Processing cluster 99 with 200 probes
2026-06-08 22:22:38,105 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process started for cluster 99 with 200 probes
2026-06-08 22:23:40,735 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process finished cluster 99. Wrote cluster_99_samples.csv and cluster_99_params.csv
2026-06-08 22:23:40,737 - cnv_pipe.batch.run_model - INFO - Cluster 99 finished in 63.10 seconds. Status: SUCCESS