Miriam Shiffman

loading GTDB(-tk) trees (quoted_node_names ?)

2

As others have noticed ([here](https://forum.gtdb.ecogenomic.org/t/what-format-are-newick-trees-and-how-to-extract-specific-node/106), [here](https://github.com/etetoolkit/ete/issues/415)) it can be tricky to load trees from GTDB / GTDB-tk. The incantation [here](https://github.com/etetoolkit/ete/issues/415#issuecomment-511699320) worked great for me in ete3, but the `quoted_node_names` argument...

"latest" database is misleading

1

The [docs](https://etetoolkit.github.io/ete/tutorial/tutorial_taxonomy.html#setting-up-local-copies-of-the-ncbi-and-gtdb-taxonomy-databases) state that the default behavior when loading GTDB is to "download the latest from the internet." This would seem to imply the latest available from GTDB, i.e. the...