Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/0beda2781c070bcd33e32f334984f5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/c0529a3711dfaf90cde48baafe8f6c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d8/c0529a3711dfaf90cde48baafe8f6c/.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-j41v9kq5 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 05:21:35,745 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:21:36,517 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:21:36,682 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:22:25,998 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:22:26,253 - cnv_pipe.batch.run_model - INFO - Processing cluster 11 with 189 probes
2026-06-03 05:22:26,620 - cnv_pipe.batch.run_model.cluster11 - INFO - Child process started for cluster 11 with 189 probes
2026-06-03 05:27:13,847 - cnv_pipe.batch.run_model.cluster11 - INFO - Child process finished cluster 11. Wrote cluster_11_samples.csv and cluster_11_params.csv
2026-06-03 05:27:13,849 - cnv_pipe.batch.run_model - INFO - Cluster 11 finished in 287.60 seconds. Status: SUCCESS