Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/fac372430477ba1f6c897ba5fc7630/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/f7ce3b1f69a62c845b540532576663/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/80f9d969f4780cdb698c391eda118b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/80f9d969f4780cdb698c391eda118b/.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-foeyx561 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 05:39:54,847 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:39:55,836 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:39:56,030 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:40:47,599 - cnv_pipe.batch.run_model - INFO - Loaded data with 187 samples
2026-06-03 05:40:47,712 - cnv_pipe.batch.run_model - INFO - Processing cluster 8 with 199 probes
2026-06-03 05:40:48,381 - cnv_pipe.batch.run_model.cluster8 - INFO - Child process started for cluster 8 with 199 probes
2026-06-03 05:46:58,270 - cnv_pipe.batch.run_model.cluster8 - INFO - Child process finished cluster 8. Wrote cluster_8_samples.csv and cluster_8_params.csv
2026-06-03 05:46:58,272 - cnv_pipe.batch.run_model - INFO - Cluster 8 finished in 370.56 seconds. Status: SUCCESS