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/a4/5c41da8d30f682287924b40349f4c7/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/a4/5c41da8d30f682287924b40349f4c7/.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-jjp6gog6 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 04:48:10,648 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:48:11,473 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:48:11,648 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:48:35,013 - cnv_pipe.batch.run_model - INFO - Loaded data with 87 samples
2026-06-03 04:48:35,289 - cnv_pipe.batch.run_model - INFO - Processing cluster 55 with 200 probes
2026-06-03 04:48:35,759 - cnv_pipe.batch.run_model.cluster55 - INFO - Child process started for cluster 55 with 200 probes
2026-06-03 04:52:22,358 - cnv_pipe.batch.run_model.cluster55 - INFO - Child process finished cluster 55. Wrote cluster_55_samples.csv and cluster_55_params.csv
2026-06-03 04:52:22,361 - cnv_pipe.batch.run_model - INFO - Cluster 55 finished in 227.07 seconds. Status: SUCCESS