Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/20/41e5c371c3a62eb95974375831623f/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0d/17f7216d35ef4817d7a38ca9bc10c4/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/068c657a57da7dec205d630e7ef749/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/068c657a57da7dec205d630e7ef749/.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-32f7ssk8 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 04:50:28,846 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:50:29,682 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:50:29,848 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:50:44,099 - cnv_pipe.batch.run_model - INFO - Loaded data with 65 samples
2026-06-03 04:50:44,293 - cnv_pipe.batch.run_model - INFO - Processing cluster 98 with 186 probes
2026-06-03 04:50:44,685 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process started for cluster 98 with 186 probes
2026-06-03 04:53:52,050 - cnv_pipe.batch.run_model.cluster98 - INFO - Child process finished cluster 98. Wrote cluster_98_samples.csv and cluster_98_params.csv
2026-06-03 04:53:52,053 - cnv_pipe.batch.run_model - INFO - Cluster 98 finished in 187.76 seconds. Status: SUCCESS