Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/512041e8befa4619d47012000cb980/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/ac8d9e7e218a106fcec29097aeea67/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/02/ac8d9e7e218a106fcec29097aeea67/.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-7jpill84 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.
2026-05-27 15:36:13,535 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 15:36:14,347 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 15:36:14,516 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 15:36:15,424 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 15:36:15,583 - cnv_pipe.batch.run_model - INFO - Processing cluster 997 with 191 probes
2026-05-27 15:36:15,957 - cnv_pipe.batch.run_model.cluster997 - INFO - Child process started for cluster 997 with 191 probes
2026-05-27 15:37:12,516 - cnv_pipe.batch.run_model.cluster997 - INFO - Child process finished cluster 997. Wrote cluster_997_samples.csv and cluster_997_params.csv
2026-05-27 15:37:12,517 - cnv_pipe.batch.run_model - INFO - Cluster 997 finished in 56.93 seconds. Status: SUCCESS