Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b8/512041e8befa4619d47012000cb980/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/5f/faeff8e6d86a94a2ad3524906ef612/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/dc7a014da6a68a0e65c740ad534e90/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/94/dc7a014da6a68a0e65c740ad534e90/.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-eh9k8kqq 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 15:36:14,633 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-05-27 15:36:15,413 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-05-27 15:36:15,580 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-05-27 15:36:16,489 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-05-27 15:36:16,566 - cnv_pipe.batch.run_model - INFO - Processing cluster 1004 with 142 probes
2026-05-27 15:36:17,032 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process started for cluster 1004 with 142 probes
2026-05-27 15:36:58,476 - cnv_pipe.batch.run_model.cluster1004 - INFO - Child process finished cluster 1004. Wrote cluster_1004_samples.csv and cluster_1004_params.csv
2026-05-27 15:36:58,477 - cnv_pipe.batch.run_model - INFO - Cluster 1004 finished in 41.91 seconds. Status: SUCCESS