Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/98/9f196e9fa7009d1c77da248079a78c/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/bc/282bf591217f40232c399b8e57c2e1/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/cda3ead083193f06a3dc705b020b12/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/72/cda3ead083193f06a3dc705b020b12/.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-hskqz0lq 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 05:29:46,486 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:29:47,336 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:29:47,515 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:30:33,490 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-03 05:30:33,723 - cnv_pipe.batch.run_model - INFO - Processing cluster 1054 with 124 probes
2026-06-03 05:30:34,154 - cnv_pipe.batch.run_model.cluster1054 - INFO - Child process started for cluster 1054 with 124 probes
2026-06-03 05:34:27,472 - cnv_pipe.batch.run_model.cluster1054 - INFO - Child process finished cluster 1054. Wrote cluster_1054_samples.csv and cluster_1054_params.csv
2026-06-03 05:34:27,474 - cnv_pipe.batch.run_model - INFO - Cluster 1054 finished in 233.75 seconds. Status: SUCCESS