On Mon, Jan 30, 2017 at 11:14 PM, Martin Morgan < martin.mor...@roswellpark.org> wrote:
> On 01/30/2017 09:52 AM, Levi Waldron wrote: > >> On Mon, Jan 30, 2017 at 12:23 AM, Martin Morgan >> <martin.mor...@roswellpark.org> wrote: >> >>> It seems like this is a local cache of the rstudio file that describes >>> the >>> mac repository. Maybe your vanilla execution of install.packages() does >>> not >>> use the repository that BiocInstaller does. So maybe >>> >>> install.packages("lazyeval", repos=biocinstallRepos()) >>> >>> fails (maybe if repeated a second time)? >>> >> >> Yes, you're right, it fails. >> >> > so it seems like you can make this fail with pure R commands, repos=" > https://cran.r-project.org" or maybe a vector of two repositories? > > artin > > This would sound like an RStudio >>> problem. Is a work-around possible with >>> >>> options(repos=c(CRAN="https://cran.r-project.org")) >>> biocinstallRepos() # should pick up new repository >>> biocLite("lazyeval") >>> >> >> This works for one install, then subsequently produces the same error: >> >> Browse[1]> file >> >> [1] "/var/folders/6n/cj15_ryn3ls0jtvfhtxztq080000gn/T//RtmpYdXlS >> Z/repos_https%3A%2F%2Fcran.r-project.org%2Fbin%2Fmacosx% >> 2Fmavericks%2Fcontrib%2F3.4.rds" >> > we triggered the problem on a new Rstudio under Sierra ... the offending RDS file from cran.rstudio.org is still present. we wanted to install ldblock in the devel branch, and succeeded with install.packages("ldblock", repos="https://bioconductor.org/3.5/bioc") and this succeeded repetitively there is something wrong with the process in biocLite that creates the file /var/folders/6n/cj15_ryn3ls0jtvfhtxztq080000gn/T//Rtmpvc0v9g /repos_https%3A%2F%2Fcran.rstudio.com <http://2fcran.rstudio.com/> %2Fbin%2Fmacosx%2Fmavericks%2Fcontrib%2F3.4.rds can't track any further at this time > > > This email message may contain legally privileged and/or...{{dropped:2}} > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel