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ropensci / rotl

Interface to Open Tree of Life API
https://docs.ropensci.org/rotl
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Linux install #133

Closed jmjech closed 3 years ago

jmjech commented 3 years ago

I'm unable to install rotl on my Linux computer. I'm running Linux Mint, v19.3. For R I'm running v3.6.3. The error messages I get when I attempt to load via the command line (sudo apt-get install r-cran-rotl) are: The following packages have unmet dependencies: r-cran-rotl : Depends: r-api-3.4 Depends: r-cran-httr but it is not going to be installed Depends: r-cran-jsonlite but it is not going to be installed Depends: r-cran-assertthat (>= 0.1) but it is not going to be installed Depends: r-cran-rncl (>= 0.6.0) but it is not going to be installed Depends: r-cran-ape but it is not going to be installed Depends: r-cran-rentrez but it is not going to be installed E: Unable to correct problems, you have held broken packages. When I try to install any of dependencies, they seem to depend on r-api-3.4.

I get a similar set of errors when I attempt to install via Rstudio.

I am able to install in Windows 10 on my PC.

fmichonneau commented 3 years ago

For Linux, I encourage you to directly install it from R instead of your system terminal:

install.packages("rotl")
jmjech commented 3 years ago

Initially I tried that, but "ape" wouldn't install, because it turns out that I hadn't installed gfortran. So, I just installed gfortran (from the linux command line), then ape (in Rstudio), then rotl (in Rstudio, but I suspect it would have worked via the linux command line), and voila! I now have rotl on my linux box. Many thanks!