Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ea/d03b578e25999b1cf8c227a4071696/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/41/1a570e80bede87829316c5e6d07b9e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/7f23bb368c58b46749e3162b01ac2d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/7f23bb368c58b46749e3162b01ac2d/.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-gbyn70c2 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 04:49:44,609 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:49:45,395 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:49:45,564 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:50:06,700 - cnv_pipe.batch.run_model - INFO - Loaded data with 87 samples
2026-06-03 04:50:06,895 - cnv_pipe.batch.run_model - INFO - Processing cluster 600 with 191 probes
2026-06-03 04:50:07,259 - cnv_pipe.batch.run_model.cluster600 - INFO - Child process started for cluster 600 with 191 probes
2026-06-03 04:53:32,471 - cnv_pipe.batch.run_model.cluster600 - INFO - Child process finished cluster 600. Wrote cluster_600_samples.csv and cluster_600_params.csv
2026-06-03 04:53:32,474 - cnv_pipe.batch.run_model - INFO - Cluster 600 finished in 205.58 seconds. Status: SUCCESS