Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/counts_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/ploidy_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/cd25ceab0480418b3bcf50cf1021e1/clustered_panel.csv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/9e/10f591fad64b7bf6fc8f6bd42f2a73/sample_metrics_1.parquet
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/8b793481d04e9c04fb3f24ad343baf/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/ca/8b793481d04e9c04fb3f24ad343baf/.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-ynq0u6n8 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.
2026-06-04 19:48:07,964 - cnv_pipe.batch.jax_config - INFO - Setting JAX backend to 'cpu'
2026-06-04 19:48:08,889 - cnv_pipe.batch.run_model - INFO - JAX devices = [CpuDevice(id=0)]
2026-06-04 19:48:09,075 - cnv_pipe.batch.run_model - INFO - Loading counts from counts_1.parquet
2026-06-04 19:48:10,439 - cnv_pipe.batch.run_model - INFO - Loaded data with 4 samples
2026-06-04 19:48:10,514 - cnv_pipe.batch.run_model - INFO - Processing cluster 986 with 196 probes
2026-06-04 19:48:11,068 - cnv_pipe.batch.run_model.cluster986 - INFO - Child process started for cluster 986 with 196 probes
2026-06-04 19:49:25,970 - cnv_pipe.batch.run_model.cluster986 - INFO - Child process finished cluster 986. Wrote cluster_986_samples.csv and cluster_986_params.csv
2026-06-04 19:49:25,973 - cnv_pipe.batch.run_model - INFO - Cluster 986 finished in 75.46 seconds. Status: SUCCESS