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/4f/da1360e1d533b3c711d4b906ac3918/ploidy_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/07/92d35b6fcb2b5fa896e2c3e8129e62/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/92d35b6fcb2b5fa896e2c3e8129e62/.command.sh
==> 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-ypl27x_8 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 05:27:35,282 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:27:36,144 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:27:36,324 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:28:29,790 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:28:30,076 - cnv_pipe.batch.run_model - INFO - Processing cluster 973 with 199 probes
2026-06-03 05:28:30,473 - cnv_pipe.batch.run_model.cluster973 - INFO - Child process started for cluster 973 with 199 probes
2026-06-03 05:34:59,237 - cnv_pipe.batch.run_model.cluster973 - INFO - Child process finished cluster 973. Wrote cluster_973_samples.csv and cluster_973_params.csv
2026-06-03 05:34:59,241 - cnv_pipe.batch.run_model - INFO - Cluster 973 finished in 389.16 seconds. Status: SUCCESS