Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/cd25ceab0480418b3bcf50cf1021e1/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/b5b6af3c50ce67313d67867ed49de8/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/be/b5b6af3c50ce67313d67867ed49de8/.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-cl4s7m05 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.
2026-06-04 19:48:53,784 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:48:54,636 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:48:54,820 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:48:56,011 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:48:56,224 - cnv_pipe.batch.run_model - INFO - Processing cluster 1238 with 133 probes
2026-06-04 19:48:56,615 - cnv_pipe.batch.run_model.cluster1238 - INFO - Child process started for cluster 1238 with 133 probes
2026-06-04 19:49:42,111 - cnv_pipe.batch.run_model.cluster1238 - INFO - Child process finished cluster 1238. Wrote cluster_1238_samples.csv and cluster_1238_params.csv
2026-06-04 19:49:42,111 - cnv_pipe.batch.run_model - INFO - Cluster 1238 finished in 45.89 seconds. Status: SUCCESS