Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0c/83a6eb5a9efd76c3cc3115568a186b/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/80/25b5869070f582cfcdda2a1b3e7df8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/59ee2baad4a32be8b19c709c62cbd5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/59ee2baad4a32be8b19c709c62cbd5/.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-ltban0za 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 06:05:32,645 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:05:33,675 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:05:33,877 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:06:21,235 - cnv_pipe.batch.run_model - INFO - Loaded data with 188 samples
2026-06-03 06:06:21,454 - cnv_pipe.batch.run_model - INFO - Processing cluster 50 with 190 probes
2026-06-03 06:06:21,957 - cnv_pipe.batch.run_model.cluster50 - INFO - Child process started for cluster 50 with 190 probes
2026-06-03 06:11:17,555 - cnv_pipe.batch.run_model.cluster50 - INFO - Child process finished cluster 50. Wrote cluster_50_samples.csv and cluster_50_params.csv
2026-06-03 06:11:17,557 - cnv_pipe.batch.run_model - INFO - Cluster 50 finished in 296.10 seconds. Status: SUCCESS