Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/07/77a3c816928cf056a2a709ea29f531/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/7902d7fe908852159e7d136f96ba6e/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/9bfadefdd92b34f411bd609331f92c/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f2/9bfadefdd92b34f411bd609331f92c/.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-4khplyhw 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.
2026-06-05 03:30:47,623 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 03:30:48,537 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 03:30:48,716 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 03:30:49,726 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 03:30:49,891 - cnv_pipe.batch.run_model - INFO - Processing cluster 98 with 186 probes
2026-06-05 03:30:50,281 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process started for cluster 98 with 186 probes
2026-06-05 03:31:47,818 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process finished cluster 98. Wrote cluster_98_samples.csv and cluster_98_params.csv
2026-06-05 03:31:47,819 - cnv_pipe.batch.run_model - INFO - Cluster 98 finished in 57.93 seconds. Status: SUCCESS