v0.7.0

Changed

• Updated Dorado to v0.3.0
• BAM may be output instead of CRAM by providing --output_bam
• --help message will list basecalling and modbasecalling models available for use with the workflow

Added

• v4.2.0 models, which must be used for sequencing runs performed at new 5 kHz sampling rate
• v4.1.0 models replace v4.0.0 models and must be used for sequencing runs performed at 4 kHz sampling rate

Removed

• v4.0.0 models

Fixed

• Custom models were previously rejected by the workflow as basecaller_cfg and remora_cfg are validated against a list of basecalling models installed in the Dorado container.
  • Users should now provide --basecaller_cfg custom and/or --remora_cfg custom to override models with --basecaller_model_path and/or --remora_model_path respectively.
  • Providing --basecaller_cfg custom or --remora_cfg custom without the corresponding --basecaller_model_path or --remora_model_path will result in an error.