Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/49/0736553abd3f1ae6189c25cf0a2077/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/43/8940e298004d5cefac289b95ebb498/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/3cbbfcb8ef439378dbcf4dd22729f6/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/b4/3cbbfcb8ef439378dbcf4dd22729f6/.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-ln5qzafj 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 05:04:12,175 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:04:13,387 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:04:13,650 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:04:31,535 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:04:31,794 - cnv_pipe.batch.run_model - INFO - Processing cluster 722 with 189 probes
2026-06-03 05:04:32,254 - cnv_pipe.batch.run_model.cluster722 - INFO - Child process started for cluster 722 with 189 probes
2026-06-03 05:08:04,593 - cnv_pipe.batch.run_model.cluster722 - INFO - Child process finished cluster 722. Wrote cluster_722_samples.csv and cluster_722_params.csv
2026-06-03 05:08:04,595 - cnv_pipe.batch.run_model - INFO - Cluster 722 finished in 212.80 seconds. Status: SUCCESS