Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/37/713da545586dd355eb0d9e2e579513/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8a/843b442b3f4056063ad6882f8d6b2c/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/541fe49e551c140a8bbfcc6acbc479/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ed/541fe49e551c140a8bbfcc6acbc479/.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-iocahg3q 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 18:44:30,826 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-02 18:44:31,650 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-02 18:44:31,818 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-02 18:44:53,151 - cnv_pipe.batch.run_model - INFO - Loaded data with 96 samples
2026-06-02 18:44:53,350 - cnv_pipe.batch.run_model - INFO - Processing cluster 89 with 82 probes
2026-06-02 18:44:53,731 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process started for cluster 89 with 82 probes
2026-06-02 18:46:29,036 - cnv_pipe.batch.run_model.cluster89 - INFO - Child process finished cluster 89. Wrote cluster_89_samples.csv and cluster_89_params.csv
2026-06-02 18:46:29,037 - cnv_pipe.batch.run_model - INFO - Cluster 89 finished in 95.69 seconds. Status: SUCCESS