Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/5144ad9e68402ab9f76dba7152c49a/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/e6b1b5eb8f155ed3e2ab27a40ecf35/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/87/e6b1b5eb8f155ed3e2ab27a40ecf35/.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-axem6xaq 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 04:44:24,890 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:44:25,683 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:44:25,850 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:44:40,780 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:44:41,018 - cnv_pipe.batch.run_model - INFO - Processing cluster 935 with 200 probes
2026-06-03 04:44:41,401 - cnv_pipe.batch.run_model.cluster935 - INFO - Child process started for cluster 935 with 200 probes
2026-06-03 04:48:14,975 - cnv_pipe.batch.run_model.cluster935 - INFO - Child process finished cluster 935. Wrote cluster_935_samples.csv and cluster_935_params.csv
2026-06-03 04:48:14,978 - cnv_pipe.batch.run_model - INFO - Cluster 935 finished in 213.96 seconds. Status: SUCCESS