Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/9f196e9fa7009d1c77da248079a78c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/151e4e5c0d4ca71888fba468821cf9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/151e4e5c0d4ca71888fba468821cf9/.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-iy6f8jnm 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 05:30:28,144 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:30:29,200 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:30:29,405 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:31:17,796 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-03 05:31:18,059 - cnv_pipe.batch.run_model - INFO - Processing cluster 1236 with 138 probes
2026-06-03 05:31:18,518 - cnv_pipe.batch.run_model.cluster1236 - INFO - Child process started for cluster 1236 with 138 probes
2026-06-03 05:35:33,166 - cnv_pipe.batch.run_model.cluster1236 - INFO - Child process finished cluster 1236. Wrote cluster_1236_samples.csv and cluster_1236_params.csv
2026-06-03 05:35:33,169 - cnv_pipe.batch.run_model - INFO - Cluster 1236 finished in 255.11 seconds. Status: SUCCESS