Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/35/0beda2781c070bcd33e32f334984f5/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4f/da1360e1d533b3c711d4b906ac3918/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f1/d768e4971b4a7033c65f7d52be1881/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f1/d768e4971b4a7033c65f7d52be1881/.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-tv3lxst2 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 05:21:51,608 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:21:52,378 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:21:52,543 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:22:43,936 - cnv_pipe.batch.run_model - INFO - Loaded data with 236 samples
2026-06-03 05:22:44,182 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-03 05:22:44,548 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-03 05:25:13,109 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-03 05:25:13,111 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 148.93 seconds. Status: SUCCESS