Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4b/b66aba058a3c62f6e70309bde2f9ef/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ad/d87753f97c3f3eb1df8c1b837d7772/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/2b4fa835d826799b08565ecf0f5e9d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/0a/2b4fa835d826799b08565ecf0f5e9d/.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-0msr2rfw 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.
2026-05-27 11:38:06,045 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 11:38:06,833 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 11:38:07,003 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 11:38:07,975 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 11:38:08,063 - cnv_pipe.batch.run_model - INFO - Processing cluster 964 with 142 probes
2026-05-27 11:38:08,550 - cnv_pipe.batch.run_model.cluster964 - INFO - Child process started for cluster 964 with 142 probes
2026-05-27 11:38:52,673 - cnv_pipe.batch.run_model.cluster964 - INFO - Child process finished cluster 964. Wrote cluster_964_samples.csv and cluster_964_params.csv
2026-05-27 11:38:52,674 - cnv_pipe.batch.run_model - INFO - Cluster 964 finished in 44.61 seconds. Status: SUCCESS