Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/bff97a725822f58539da83397845a4/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/201e02d515ce74918c8bbb8d6a7fc4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/e857addab47de7801931d634f18866/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/1b/e857addab47de7801931d634f18866/.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-qku1zeg9 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.
2026-06-03 05:13:11,448 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:13:12,253 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:13:12,424 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:13:28,091 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:13:28,303 - cnv_pipe.batch.run_model - INFO - Processing cluster 577 with 162 probes
2026-06-03 05:13:28,690 - cnv_pipe.batch.run_model.cluster577 - INFO - Child process started for cluster 577 with 162 probes
2026-06-03 05:16:14,404 - cnv_pipe.batch.run_model.cluster577 - INFO - Child process finished cluster 577. Wrote cluster_577_samples.csv and cluster_577_params.csv
2026-06-03 05:16:14,407 - cnv_pipe.batch.run_model - INFO - Cluster 577 finished in 166.10 seconds. Status: SUCCESS