Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/7b21e6b3d5296dfad38952efcc4e3e/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fb/2a76610d309579f5160531f647088a/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/6b41b759e5ae397d8f1f56baa81bcb/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/6b41b759e5ae397d8f1f56baa81bcb/.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-3p0bwdly 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.
2026-06-05 14:04:05,889 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-05 14:04:06,782 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-05 14:04:06,959 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-05 14:04:08,016 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-05 14:04:08,195 - cnv_pipe.batch.run_model - INFO - Processing cluster 876 with 191 probes
2026-06-05 14:04:08,580 - cnv_pipe.batch.run_model.cluster876 - INFO - Child process started for cluster 876 with 191 probes
2026-06-05 14:05:08,844 - cnv_pipe.batch.run_model.cluster876 - INFO - Child process finished cluster 876. Wrote cluster_876_samples.csv and cluster_876_params.csv
2026-06-05 14:05:08,846 - cnv_pipe.batch.run_model - INFO - Cluster 876 finished in 60.65 seconds. Status: SUCCESS