Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/fe/85b140281e9b2950cd842c897b7042/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/71/16ca93b053ab3628b5d418852df010/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/bc7f4c8431df6a1333192f4445758c/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/33/bc7f4c8431df6a1333192f4445758c/.command.sh
==> 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-gxk4g_j7 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 18:37:25,862 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:37:26,643 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:37:26,811 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:37:41,818 - cnv_pipe.batch.run_model - INFO - Loaded data with 72 samples
2026-06-02 18:37:41,902 - cnv_pipe.batch.run_model - INFO - Processing cluster 995 with 89 probes
2026-06-02 18:37:42,272 - cnv_pipe.batch.run_model.cluster995 - INFO - Child process started for cluster 995 with 89 probes
2026-06-02 18:39:19,178 - cnv_pipe.batch.run_model.cluster995 - INFO - Child process finished cluster 995. Wrote cluster_995_samples.csv and cluster_995_params.csv
2026-06-02 18:39:19,179 - cnv_pipe.batch.run_model - INFO - Cluster 995 finished in 97.28 seconds. Status: SUCCESS