Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/2bc6a550b9b7a6a7c04a8c46d11f24/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8e/4ca861025b2f4db6b0601212fbe8b8/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/57c9d8637020bb96030d1c3f492529/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bd/57c9d8637020bb96030d1c3f492529/.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-s2wdke55 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 17:13:36,878 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 17:13:37,683 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 17:13:37,847 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 17:13:38,833 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 17:13:38,905 - cnv_pipe.batch.run_model - INFO - Processing cluster 893 with 200 probes
2026-06-04 17:13:39,273 - cnv_pipe.batch.run_model.cluster893 - INFO - Child process started for cluster 893 with 200 probes
2026-06-04 17:14:36,138 - cnv_pipe.batch.run_model.cluster893 - INFO - Child process finished cluster 893. Wrote cluster_893_samples.csv and cluster_893_params.csv
2026-06-04 17:14:36,139 - cnv_pipe.batch.run_model - INFO - Cluster 893 finished in 57.23 seconds. Status: SUCCESS