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/69/815ce35597ca0c6681187f292de23a/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/69/815ce35597ca0c6681187f292de23a/.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-6cfgk270 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 05:28:58,596 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:28:59,410 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:28:59,584 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:29:43,248 - cnv_pipe.batch.run_model - INFO - Loaded data with 185 samples
2026-06-03 05:29:43,480 - cnv_pipe.batch.run_model - INFO - Processing cluster 839 with 200 probes
2026-06-03 05:29:43,936 - cnv_pipe.batch.run_model.cluster839 - INFO - Child process started for cluster 839 with 200 probes
2026-06-03 05:35:38,633 - cnv_pipe.batch.run_model.cluster839 - INFO - Child process finished cluster 839. Wrote cluster_839_samples.csv and cluster_839_params.csv
2026-06-03 05:35:38,637 - cnv_pipe.batch.run_model - INFO - Cluster 839 finished in 355.16 seconds. Status: SUCCESS