perfect! thanks a lot 2018-05-16 10:32 GMT-04:00 Martin Morgan <martin.mor...@roswellpark.org>:
> > > On 05/16/2018 10:23 AM, Nicolas Descostes wrote: > >> Dear Martin, >> >> I am starting using BiocInstaller. Regarding the BiocManager::valid(), >> would it be possible to retrieve a list with one element being a vector of >> the packages to update? or to run BiocManager() as we do with biocLite()? >> > > Running install() without any arguments will prompt to update old > packages; install(ask=FALSE) will update packages without prompting. > > I'm not sure if that was what you were asking... > > I would find it easier then copying/pasting the suggested command. >> >> As an opinion, I find it very useful to see the installed vs latest >> version >> in a table, can it be also printed by valid() as biocValid() does? >> > > valid() returns an object that prints in a compact way, but the elements > are visible with > > > v = valid() > > names(v) > [1] "out_of_date" "too_new" > > head(v$out_of_date) > Package LibPath > bit "bit" "/home/mtmorgan/R/x86_64-pc-linux-gnu-library/3.5-Bioc-3.8" > ff "ff" "/home/mtmorgan/R/x86_64-pc-linux-gnu-library/3.5-Bioc-3.8" > Installed Built ReposVer Repository > bit "1.1-12" "3.5.0" "1.1-13" "https://cran.rstudio.com/src/contrib"; > ff "2.2-13" "3.5.0" "2.2-14" "https://cran.rstudio.com/src/contrib"; > > > >> Thanks, >> >> Nicolas >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel >> >> > > This email message may contain legally privileged and/or confidential > information. If you are not the intended recipient(s), or the employee or > agent responsible for the delivery of this message to the intended > recipient(s), you are hereby notified that any disclosure, copying, > distribution, or use of this email message is prohibited. If you have > received this message in error, please notify the sender immediately by > e-mail and delete this email message from your computer. Thank you. > [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
