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/b0/8eb8ca4f7288a2a15ac8327f994ce6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b0/8eb8ca4f7288a2a15ac8327f994ce6/.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-zzzbuqtn 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 06:11:48,211 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:11:49,112 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:11:49,292 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:12:39,638 - cnv_pipe.batch.run_model - INFO - Loaded data with 188 samples
2026-06-03 06:12:39,870 - cnv_pipe.batch.run_model - INFO - Processing cluster 1073 with 200 probes
2026-06-03 06:12:40,334 - cnv_pipe.batch.run_model.cluster1073 - INFO - Child process started for cluster 1073 with 200 probes
2026-06-03 06:17:55,013 - cnv_pipe.batch.run_model.cluster1073 - INFO - Child process finished cluster 1073. Wrote cluster_1073_samples.csv and cluster_1073_params.csv
2026-06-03 06:17:55,016 - cnv_pipe.batch.run_model - INFO - Cluster 1073 finished in 315.15 seconds. Status: SUCCESS