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/e8/491e4b84d467d7e22ebd74602fc3b9/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/e8/491e4b84d467d7e22ebd74602fc3b9/.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-eldowq_a 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 18:36:30,209 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:36:31,067 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:36:31,240 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:36:45,868 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:36:45,948 - cnv_pipe.batch.run_model - INFO - Processing cluster 86 with 190 probes
2026-06-02 18:36:46,375 - cnv_pipe.batch.run_model.cluster86 - INFO - Child process started for cluster 86 with 190 probes
2026-06-02 18:40:13,247 - cnv_pipe.batch.run_model.cluster86 - INFO - Child process finished cluster 86. Wrote cluster_86_samples.csv and cluster_86_params.csv
2026-06-02 18:40:13,249 - cnv_pipe.batch.run_model - INFO - Cluster 86 finished in 207.30 seconds. Status: SUCCESS