Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/14/3613d56a7b5d45cd3a77e902cf7b59/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/91/2b42d195b4fa19ad7dcc524e0de76f/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/c426a4a58e9fa4bd612c78d4bdbfaf/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/c9/c426a4a58e9fa4bd612c78d4bdbfaf/.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-y3bv9hdi 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 06:02:34,033 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 06:02:34,912 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 06:02:35,094 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 06:03:18,415 - cnv_pipe.batch.run_model - INFO - Loaded data with 178 samples
2026-06-03 06:03:18,504 - cnv_pipe.batch.run_model - INFO - Processing cluster 980 with 195 probes
2026-06-03 06:03:19,005 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process started for cluster 980 with 195 probes
2026-06-03 06:08:20,136 - cnv_pipe.batch.run_model.cluster980 - INFO - Child process finished cluster 980. Wrote cluster_980_samples.csv and cluster_980_params.csv
2026-06-03 06:08:20,139 - cnv_pipe.batch.run_model - INFO - Cluster 980 finished in 301.64 seconds. Status: SUCCESS