Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/742e4026b159526cef95c7bc486eee/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/97/742e4026b159526cef95c7bc486eee/.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-vrjf91x2 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 05:01:32,088 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:01:32,904 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:01:33,090 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:01:50,370 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:01:50,609 - cnv_pipe.batch.run_model - INFO - Processing cluster 66 with 83 probes
2026-06-03 05:01:51,033 - cnv_pipe.batch.run_model.cluster66 - INFO - Child process started for cluster 66 with 83 probes
2026-06-03 05:03:31,519 - cnv_pipe.batch.run_model.cluster66 - INFO - Child process finished cluster 66. Wrote cluster_66_samples.csv and cluster_66_params.csv
2026-06-03 05:03:31,520 - cnv_pipe.batch.run_model - INFO - Cluster 66 finished in 100.91 seconds. Status: SUCCESS