An Error in PhylotaR about phylotar HOT 3 CLOSED

Hi

This is likely due to an error in a taxonomic record downloaded from NCBI. It should be fixable by running the download step again. I've made some updates to phylotaR to better capture these kinds of errors.

Try:

# install newer version of phylotaR
devtools::install_github('ropensci/phylotaR')

# restart your pipeline
library(phylotaR)
wd <- 'e:/Institute_Of_Bontany/WorldTree/TracheophytaTest'
restart(wd = wd)

If you get a warning, try halting the pipeline (use Esc or ctrl+c) and restarting again.

If you get an error, ping me here again.

These issues are due to the occasional malformed record that is retrieved from NCBI. Re-downloading again often fixes the issue. I am working on a more elegant solution.

Thanks for using phylotaR!

Dom

P.S. @Cactusolo the above should work for you too.

from phylotar.

@DomBennett Thank you so much! It works now!

Miao

from phylotar.

Thanks for your kindly help, it works again. @DomBennett

from phylotar.