v1.1.1

New features

• tree module now supports RAxML-NG and FastTree
• tree module now generates a RAxML-style partition file containing the positions of the core genes from the resulting MSA
• tree --no-inference mode will stop the process right before the phylogenetic inference; useful if you only need an alignment or a partition file
• createdb --custom-lookup option accepts a Foldseek database with pre-computed 3Di sequences to lookup
• profile module now gives a warning if a species contains less than 50% of the defined core genes

Bug fixes

• Fixed behavior of the --afdb-lookup option

Misc

• --afdb-local option is now deprecated and merged into the --afdb-lookup option