Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/58/1f8d437761990ed890e1456d2296f8/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ac/fae45ed026bca261181ed622cc13b0/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/170fcd4254367c0285467d48aafc84/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e3/170fcd4254367c0285467d48aafc84/.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-r3s3zjn5 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.
2026-06-08 17:41:32,938 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 17:41:33,768 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 17:41:33,938 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 17:41:34,809 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 17:41:34,957 - cnv_pipe.batch.run_model - INFO - Processing cluster 1208 with 178 probes
2026-06-08 17:41:35,335 - cnv_pipe.batch.run_model.cluster1208 - INFO - Child process started for cluster 1208 with 178 probes
2026-06-08 17:42:27,528 - cnv_pipe.batch.run_model.cluster1208 - INFO - Child process finished cluster 1208. Wrote cluster_1208_samples.csv and cluster_1208_params.csv
2026-06-08 17:42:27,529 - cnv_pipe.batch.run_model - INFO - Cluster 1208 finished in 52.57 seconds. Status: SUCCESS