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traitecoevo / taxonlookup

A versioned and dynamically updating taxonomic lookup table for land plants
http://onlinelibrary.wiley.com/doi/10.1111/2041-210X.12517/abstract
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Data Issue: Tetracarpaea tasmannica #24

Closed rossmounce closed 7 years ago

rossmounce commented 8 years ago

It seems like Tetracarpaea tasmannica gets left out because it's unresolved at TPL. APweb is fine with it though - it's not a poorly described, seldom-seen taxon: http://www.mobot.org/MOBOT/research/APweb/orders/saxifragalesweb.htm#Tetracarpaeaceae 

> plant_lookup_version_current()
[1] "1.1.1"
> lookup_table(c("Pinus ponderosa","Tetracarpaea tasmannica"),by_species=TRUE,missing_action="NA")
                               genus   family   order       group
Pinus ponderosa                Pinus Pinaceae Pinales Gymnosperms
Tetracarpaea tasmannica Tetracarpaea     <NA>    <NA>        <NA>

expected / desired output:

> lookup_table(c("Pinus ponderosa","Tetracarpaea tasmannica"),by_species=TRUE,missing_action="NA")
                               genus   family   order       group
Pinus ponderosa                Pinus Pinaceae Pinales Gymnosperms
Tetracarpaea tasmannica Tetracarpaea Tetracarpaeaceae Saxifragales Angiosperms
wcornwell commented 8 years ago

This is because TPL doesn't include Tetracarpaeaceae as a recognized family, and we're getting the species list family by family, so it's never ending up in the list. Probably this is an error as Tetracarpaeaceae was in APG III https://en.wikipedia.org/wiki/APG_III_system

This is a new type of TPL error, though, so it's not an easy fix. Will try to figure out how to add new families...

wcornwell commented 7 years ago

closed in favor of #37