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/ca/9d4f21da8086f98d51563964e39bfd/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/9d4f21da8086f98d51563964e39bfd/.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-woi4r9zj 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 11:38:32,587 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 11:38:33,392 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 11:38:33,563 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 11:38:34,679 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 11:38:34,748 - cnv_pipe.batch.run_model - INFO - Processing cluster 983 with 148 probes
2026-05-27 11:38:35,120 - cnv_pipe.batch.run_model.cluster983 - INFO - Child process started for cluster 983 with 148 probes
2026-05-27 11:39:20,417 - cnv_pipe.batch.run_model.cluster983 - INFO - Child process finished cluster 983. Wrote cluster_983_samples.csv and cluster_983_params.csv
2026-05-27 11:39:20,418 - cnv_pipe.batch.run_model - INFO - Cluster 983 finished in 45.67 seconds. Status: SUCCESS