Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/d418a9ee96101ea3196d311c3a7ba0/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/90/fe176e5f6bbf411e4664165acb8efc/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/94a5d14785f4a2aa2be517dcac7789/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b1/94a5d14785f4a2aa2be517dcac7789/.command.sh
==> 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-cid04rha 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.
2026-06-08 22:24:26,688 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-08 22:24:27,488 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-08 22:24:27,655 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-08 22:24:28,569 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-08 22:24:28,719 - cnv_pipe.batch.run_model - INFO - Processing cluster 1139 with 190 probes
2026-06-08 22:24:29,089 - cnv_pipe.batch.run_model.cluster1139 - INFO - Child process started for cluster 1139 with 190 probes
2026-06-08 22:25:23,860 - cnv_pipe.batch.run_model.cluster1139 - INFO - Child process finished cluster 1139. Wrote cluster_1139_samples.csv and cluster_1139_params.csv
2026-06-08 22:25:23,861 - cnv_pipe.batch.run_model - INFO - Cluster 1139 finished in 55.14 seconds. Status: SUCCESS