Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/27/75aeaf41b6380bc4dbc477aee55d52/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f6/c4911bc2dd2d7bd48f19479b10f175/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/587994e63e1725e238c75c308f7daa/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/19/587994e63e1725e238c75c308f7daa/.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-ksj48d7d 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 19:05:20,586 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 19:05:21,362 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 19:05:21,527 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 19:05:43,400 - cnv_pipe.batch.run_model - INFO - Loaded data with 93 samples
2026-06-02 19:05:43,586 - cnv_pipe.batch.run_model - INFO - Processing cluster 1 with 185 probes
2026-06-02 19:05:43,952 - cnv_pipe.batch.run_model.cluster1 - INFO - Child process started for cluster 1 with 185 probes
2026-06-02 19:08:47,934 - cnv_pipe.batch.run_model.cluster1 - INFO - Child process finished cluster 1. Wrote cluster_1_samples.csv and cluster_1_params.csv
2026-06-02 19:08:47,937 - cnv_pipe.batch.run_model - INFO - Cluster 1 finished in 184.35 seconds. Status: SUCCESS