Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a494e8e980c0e7d8e3b4d352c11387/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/c2ccfaff5d44dd572ee60aacfa92ae/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e4/c2ccfaff5d44dd572ee60aacfa92ae/.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-xruzere7 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.
2026-06-02 18:37:25,924 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:26,713 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:26,884 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:41,810 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:41,891 - cnv_pipe.batch.run_model - INFO - Processing cluster 687 with 193 probes
2026-06-02 18:37:42,404 - cnv_pipe.batch.run_model.cluster687 - INFO - Child process started for cluster 687 with 193 probes
2026-06-02 18:41:12,362 - cnv_pipe.batch.run_model.cluster687 - INFO - Child process finished cluster 687. Wrote cluster_687_samples.csv and cluster_687_params.csv
2026-06-02 18:41:12,366 - cnv_pipe.batch.run_model - INFO - Cluster 687 finished in 210.47 seconds. Status: SUCCESS