kractor-3.0.0

[3.0.0] - 2025-09-26

Added

• Able to specifiy taxon ids that are not present, without kractor stopping. These are instead logged to stderr with a warning. This may be useful when running kractor in a wrapper script for several fastq files and just want to extract a set of taxonids from them all - without caring if they are present or not #31.
• Include a new field missing_taxon_ids in the summary output.

Changed

• Under the hood refactoring, introducing structs for the processed kraken outputs and processed kraken trees to simplify the returned data.

Fixed

• Unclassified reads being skipped in the tree building stage, meaning they were unable to be extracted #30