Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/5144ad9e68402ab9f76dba7152c49a/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/db/a29eebd4a40aa7c28dccf84364dc42/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/11f2c52ebe9c09b148dfc4187c478f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4e/11f2c52ebe9c09b148dfc4187c478f/.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-kxi1wjjg 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 04:42:57,562 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 04:42:58,652 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 04:42:58,852 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 04:43:17,657 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-03 04:43:18,028 - cnv_pipe.batch.run_model - INFO - Processing cluster 912 with 170 probes
2026-06-03 04:43:18,594 - cnv_pipe.batch.run_model.cluster912 - INFO - Child process started for cluster 912 with 170 probes
2026-06-03 04:46:26,509 - cnv_pipe.batch.run_model.cluster912 - INFO - Child process finished cluster 912. Wrote cluster_912_samples.csv and cluster_912_params.csv
2026-06-03 04:46:26,511 - cnv_pipe.batch.run_model - INFO - Cluster 912 finished in 188.48 seconds. Status: SUCCESS