Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/42/27cf1d74523f71584ad73c138845b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/42/27cf1d74523f71584ad73c138845b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/57/2de0ab5e9ebec4b9f490a2c498cdfc/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/42/27cf1d74523f71584ad73c138845b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/c8e06dab892e16a13cd6d9a7f8ad94/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e5/c8e06dab892e16a13cd6d9a7f8ad94/.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-sldmf0z7 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.
2026-05-26 20:43:00,782 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-26 20:43:02,525 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-26 20:43:02,852 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-26 20:43:04,500 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-26 20:43:04,810 - cnv_pipe.batch.run_model - INFO - Processing cluster 99 with 200 probes
2026-05-26 20:43:05,501 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process started for cluster 99 with 200 probes
2026-05-26 20:45:13,487 - cnv_pipe.batch.run_model.cluster99 - INFO - Child process finished cluster 99. Wrote cluster_99_samples.csv and cluster_99_params.csv
2026-05-26 20:45:13,491 - cnv_pipe.batch.run_model - INFO - Cluster 99 finished in 128.68 seconds. Status: SUCCESS