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/bb/48dd67478d9d4eaa58796783803f82/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/48dd67478d9d4eaa58796783803f82/.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-r__chi9n 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 11:38:05,956 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 11:38:06,745 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 11:38:06,914 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 11:38:07,999 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 11:38:08,071 - cnv_pipe.batch.run_model - INFO - Processing cluster 883 with 193 probes
2026-05-27 11:38:08,443 - cnv_pipe.batch.run_model.cluster883 - INFO - Child process started for cluster 883 with 193 probes
2026-05-27 11:39:05,646 - cnv_pipe.batch.run_model.cluster883 - INFO - Child process finished cluster 883. Wrote cluster_883_samples.csv and cluster_883_params.csv
2026-05-27 11:39:05,647 - cnv_pipe.batch.run_model - INFO - Cluster 883 finished in 57.58 seconds. Status: SUCCESS