Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/7e/a494e8e980c0e7d8e3b4d352c11387/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fa/c3ea7d1398eb3e19fc73c876e222bd/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/32/1da96325974136d3f15058cbc95cd6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/32/1da96325974136d3f15058cbc95cd6/.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-mckr2fxa 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.
2026-06-02 18:38:15,946 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:38:16,749 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:38:16,921 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:38:31,849 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:38:32,045 - cnv_pipe.batch.run_model - INFO - Processing cluster 977 with 181 probes
2026-06-02 18:38:32,420 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process started for cluster 977 with 181 probes
2026-06-02 18:41:51,871 - cnv_pipe.batch.run_model.cluster977 - INFO - Child process finished cluster 977. Wrote cluster_977_samples.csv and cluster_977_params.csv
2026-06-02 18:41:51,873 - cnv_pipe.batch.run_model - INFO - Cluster 977 finished in 199.83 seconds. Status: SUCCESS