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/85/6fee6043af3a1bd5910f6fbcf46742/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/85/6fee6043af3a1bd5910f6fbcf46742/.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-d16hzmm2 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 05:02:49,077 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:02:50,015 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:02:50,199 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:03:07,929 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:03:08,038 - cnv_pipe.batch.run_model - INFO - Processing cluster 476 with 193 probes
2026-06-03 05:03:08,494 - cnv_pipe.batch.run_model.cluster476 - INFO - Child process started for cluster 476 with 193 probes
2026-06-03 05:06:47,175 - cnv_pipe.batch.run_model.cluster476 - INFO - Child process finished cluster 476. Wrote cluster_476_samples.csv and cluster_476_params.csv
2026-06-03 05:06:47,177 - cnv_pipe.batch.run_model - INFO - Cluster 476 finished in 219.14 seconds. Status: SUCCESS