Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/b66aba058a3c62f6e70309bde2f9ef/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/cb6c7d96bf6a05804a75c3227d191b/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/cb6c7d96bf6a05804a75c3227d191b/.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-kiz8zx00 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.
2026-05-27 11:37:52,327 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 11:37:53,142 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 11:37:53,314 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 11:37:54,262 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 11:37:54,445 - cnv_pipe.batch.run_model - INFO - Processing cluster 929 with 193 probes
2026-05-27 11:37:54,829 - cnv_pipe.batch.run_model.cluster929 - INFO - Child process started for cluster 929 with 193 probes
2026-05-27 11:38:51,625 - cnv_pipe.batch.run_model.cluster929 - INFO - Child process finished cluster 929. Wrote cluster_929_samples.csv and cluster_929_params.csv
2026-05-27 11:38:51,626 - cnv_pipe.batch.run_model - INFO - Cluster 929 finished in 57.18 seconds. Status: SUCCESS