Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/2bc6a550b9b7a6a7c04a8c46d11f24/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/cc3d88b152d2de71f1040788b2b57e/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/cb/cc3d88b152d2de71f1040788b2b57e/.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-oa8vrb2_ 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.
2026-06-04 17:14:15,009 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:14:15,791 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:14:15,953 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:14:16,880 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:14:17,038 - cnv_pipe.batch.run_model - INFO - Processing cluster 1059 with 199 probes
2026-06-04 17:14:17,413 - cnv_pipe.batch.run_model.cluster1059 - INFO - Child process started for cluster 1059 with 199 probes
2026-06-04 17:15:14,529 - cnv_pipe.batch.run_model.cluster1059 - INFO - Child process finished cluster 1059. Wrote cluster_1059_samples.csv and cluster_1059_params.csv
2026-06-04 17:15:14,530 - cnv_pipe.batch.run_model - INFO - Cluster 1059 finished in 57.49 seconds. Status: SUCCESS