Hello all,
there have been a few reports of problems with installing phytools or
phangorn and you may see something like this:
devtools::install_github("liamrevell/phytools")
Downloading GitHub repo liamrevell/phytools@master
Installing phytools
Skipping 1 packages not available: Biostrings
...
...
Error: Command failed (1)
Recently I updated phangorn (now version 2.0.1), but there were also
updates of R (3.2.3) and also Bioconductor. All this seem to have
contributed to this problem. install.packages() and install.github() do not
always get bioconductor dependencies right (e.g.
https://github.com/hadley/devtools/issues/700).
To solve the problem simply install the Biostrings package first
source("http://bioconductor.org/biocLite.R";)
biocLite("Biostrings")
and in a fresh session of R try again to install phytools or phangorn.
If you have installed any bioconductor packages, chances are that you also
installed Biostrings package are pretty high.
Regards,
Klaus
--
Klaus Schliep
Postdoctoral Fellow
Revell Lab, University of Massachusetts Boston
[[alternative HTML version deleted]]
_______________________________________________
R-sig-phylo mailing list - R-sig-phylo@r-project.org
https://stat.ethz.ch/mailman/listinfo/r-sig-phylo
Searchable archive at http://www.mail-archive.com/r-sig-phylo@r-project.org/
