Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/52/53d08abbe7f3c300c6e5e14d79dc78/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/3f/b84e098cdd503ac274dd4fbe4f1c44/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/e90e85c8dac17f7f7c25262f7d449f/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/e90e85c8dac17f7f7c25262f7d449f/.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-7cga8gq4 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 05:57:27,477 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-03 05:57:28,248 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-03 05:57:28,412 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-03 05:58:08,552 - cnv_pipe.batch.run_model - INFO - Loaded data with 180 samples
2026-06-03 05:58:08,748 - cnv_pipe.batch.run_model - INFO - Processing cluster 996 with 176 probes
2026-06-03 05:58:09,115 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process started for cluster 996 with 176 probes
2026-06-03 06:02:13,109 - cnv_pipe.batch.run_model.cluster996 - INFO - Child process finished cluster 996. Wrote cluster_996_samples.csv and cluster_996_params.csv
2026-06-03 06:02:13,111 - cnv_pipe.batch.run_model - INFO - Cluster 996 finished in 244.36 seconds. Status: SUCCESS