Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/c6f1a4c7809881b67eefc20778f6dd/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/c7611cfc97f6ded658168c06a3dc2c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/4db6d379f3a1fe73cda99b5d7d70ef/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/4db6d379f3a1fe73cda99b5d7d70ef/.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-wqcgfiy5 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.
2026-06-03 21:00:17,961 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 21:00:18,738 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 21:00:18,903 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 21:00:19,812 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-03 21:00:19,977 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-03 21:00:20,342 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-03 21:00:46,492 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-03 21:00:46,493 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 26.52 seconds. Status: SUCCESS