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/80/138c0f58574c928cba90a8516eaa9f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/138c0f58574c928cba90a8516eaa9f/.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-mv_27et7 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 05:13:57,576 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:13:58,375 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:13:58,543 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:14:13,432 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:14:13,519 - cnv_pipe.batch.run_model - INFO - Processing cluster 881 with 190 probes
2026-06-03 05:14:14,022 - cnv_pipe.batch.run_model.cluster881 - INFO - Child process started for cluster 881 with 190 probes
2026-06-03 05:17:21,135 - cnv_pipe.batch.run_model.cluster881 - INFO - Child process finished cluster 881. Wrote cluster_881_samples.csv and cluster_881_params.csv
2026-06-03 05:17:21,137 - cnv_pipe.batch.run_model - INFO - Cluster 881 finished in 187.62 seconds. Status: SUCCESS