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/26/e4a95bd9fbe1030c7162343cb4e5d5/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/26/e4a95bd9fbe1030c7162343cb4e5d5/.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-p1d9oo67 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 05:06:55,557 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:06:56,884 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:06:57,170 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:07:21,769 - cnv_pipe.batch.run_model - INFO - Loaded data with 71 samples
2026-06-03 05:07:22,054 - cnv_pipe.batch.run_model - INFO - Processing cluster 1199 with 173 probes
2026-06-03 05:07:22,682 - cnv_pipe.batch.run_model.cluster1199 - INFO - Child process started for cluster 1199 with 173 probes
2026-06-03 05:12:15,839 - cnv_pipe.batch.run_model.cluster1199 - INFO - Child process finished cluster 1199. Wrote cluster_1199_samples.csv and cluster_1199_params.csv
2026-06-03 05:12:15,842 - cnv_pipe.batch.run_model - INFO - Cluster 1199 finished in 293.79 seconds. Status: SUCCESS