Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f7/3300bc457771f74b01342f0d89c948/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/d2/20980a8b72434b119805e31e18f186/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/c938f5035a94ec744bfc4986cb0559/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/c938f5035a94ec744bfc4986cb0559/.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-6ejj9t16 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 18:54:45,659 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 18:54:46,967 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 18:54:47,237 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 18:54:48,709 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 18:54:49,053 - cnv_pipe.batch.run_model - INFO - Processing cluster 993 with 163 probes
2026-05-27 18:54:49,679 - cnv_pipe.batch.run_model.cluster993 - INFO - Child process started for cluster 993 with 163 probes
2026-05-27 18:55:56,899 - cnv_pipe.batch.run_model.cluster993 - INFO - Child process finished cluster 993. Wrote cluster_993_samples.csv and cluster_993_params.csv
2026-05-27 18:55:56,901 - cnv_pipe.batch.run_model - INFO - Cluster 993 finished in 67.85 seconds. Status: SUCCESS