Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/2b/327f035bf8fc6fbcf2fa0d952a6c14/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b6/9133afffd640c1c36c35f2745858a5/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e1/947c2cf6f2b01397515e3a07d91403/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e1/947c2cf6f2b01397515e3a07d91403/.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-3dvcrr8h 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 05:39:30,626 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:39:31,930 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:39:32,215 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:40:38,081 - cnv_pipe.batch.run_model - INFO - Loaded data with 182 samples
2026-06-03 05:40:38,418 - cnv_pipe.batch.run_model - INFO - Processing cluster 1013 with 175 probes
2026-06-03 05:40:39,068 - cnv_pipe.batch.run_model.cluster1013 - INFO - Child process started for cluster 1013 with 175 probes
2026-06-03 05:49:17,462 - cnv_pipe.batch.run_model.cluster1013 - INFO - Child process finished cluster 1013. Wrote cluster_1013_samples.csv and cluster_1013_params.csv
2026-06-03 05:49:17,466 - cnv_pipe.batch.run_model - INFO - Cluster 1013 finished in 519.05 seconds. Status: SUCCESS