Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2a/88572080cac8faab76fdfbecb1c1e0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/67/966eb439bad0ff0fba17c0eb35496a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/8e6623424922700396bd57eb2ab332/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7f/8e6623424922700396bd57eb2ab332/.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-22w9e58y 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 20:56:34,041 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 20:56:34,871 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 20:56:35,056 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 20:56:36,192 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 20:56:36,262 - cnv_pipe.batch.run_model - INFO - Processing cluster 996 with 176 probes
2026-06-05 20:56:36,637 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process started for cluster 996 with 176 probes
2026-06-05 20:57:30,161 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process finished cluster 996. Wrote cluster_996_samples.csv and cluster_996_params.csv
2026-06-05 20:57:30,163 - cnv_pipe.batch.run_model - INFO - Cluster 996 finished in 53.90 seconds. Status: SUCCESS