Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/df/4054179d8c2faede8275f03a3b1080/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7c/ed3093e513c1d37d1ee29fa062c24a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/c656017a0b6588aa0d9f2145e6a4b2/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bb/c656017a0b6588aa0d9f2145e6a4b2/.command.sh
==> 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-nb2nb1rq 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.
2026-06-03 21:48:08,902 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:48:09,875 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:48:10,075 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:48:11,290 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:48:11,488 - cnv_pipe.batch.run_model - INFO - Processing cluster 416 with 187 probes
2026-06-03 21:48:11,955 - cnv_pipe.batch.run_model.cluster416 - INFO - Child process started for cluster 416 with 187 probes
2026-06-03 21:49:22,543 - cnv_pipe.batch.run_model.cluster416 - INFO - Child process finished cluster 416. Wrote cluster_416_samples.csv and cluster_416_params.csv
2026-06-03 21:49:22,545 - cnv_pipe.batch.run_model - INFO - Cluster 416 finished in 71.06 seconds. Status: SUCCESS