Hi Diego,
On Mon, 14-11-2016, at 12:25, Diego Diez <diego10r...@gmail.com> wrote: > Hi Ramon, > > My experience with this issue is that it requires reinstalling the > depending packages from source (but not ggplot2 itself). Makes sense (in my machines, I just reinstalled both, for the sake of expediency :-) so I should have said that was sufficient but wasn't sure what was necessary). > Alternatively, this should be fixed (I think) once all dependent > packages are rebuilt with the newest ggplot2 installed. See this > related post in the ggtree package issue tracker: > > https://github.com/GuangchuangYu/ggtree/issues/91 Thanks for the link. Best, R. > > Best, > Diego > > On Mon, Nov 14, 2016 at 7:50 PM, Ramon Diaz-Uriarte <rdia...@gmail.com> wrote: >> Dear All, >> >> At least some packages (partial list in links below) are failing checks in >> both release and devel; the error logs for Linux, Windows, and Mac all show >> >> >> "Error: processing vignette 'OncoSimulR.Rmd' failed with diagnostics: >> [GeomTextRepel/PositionQuasirandom/etc] was built with an incompatible >> version of ggproto. Please reinstall the package that provides this >> extension." >> >> >> A partial list for devel: >> http://bioconductor.org/checkResults/devel/bioc-LATEST/OncoSimulR/malbec2-buildsrc.html >> http://bioconductor.org/checkResults/devel/bioc-LATEST/cytofkit/malbec2-buildsrc.html >> http://bioconductor.org/checkResults/devel/bioc-LATEST/maftools/malbec2-buildsrc.html >> http://bioconductor.org/checkResults/devel/bioc-LATEST/MoonlightR/malbec2-buildsrc.html >> http://bioconductor.org/checkResults/devel/bioc-LATEST/pcaExplorer/malbec2-buildsrc.html >> http://bioconductor.org/checkResults/devel/bioc-LATEST/scater/malbec2-buildsrc.html >> >> >> >> For release: >> http://bioconductor.org/checkResults/release/bioc-LATEST/OncoSimulR/malbec1-buildsrc.html >> http://bioconductor.org/checkResults/release/bioc-LATEST/cytofkit/malbec1-buildsrc.html >> etc >> >> >> This seems related to very recent changes in ggplot2 (and other people have >> reported similar problems in oter forums). It is fixed reinstalling ggplot2 >> and the other package that depends on it (e.g., ggrepel)[1]. >> >> Should we just wait for ggplot2 and ggrepel to be reinstalled in the build >> machines? How often do these happen? >> >> >> Best, >> >> >> R. >> >> >> [1] And, at least for the package I maintain, OncoSimulR, there are no >> issues with R-devel in my local machines or with Travis >> (https://travis-ci.org/rdiaz02/OncoSimul), or Appveyor >> (https://ci.appveyor.com/project/rdiaz02/OncoSimul). >> >> >> >> >> -- >> Ramon Diaz-Uriarte >> Department of Biochemistry, Lab B-25 >> Facultad de Medicina >> Universidad Autónoma de Madrid >> Arzobispo Morcillo, 4 >> 28029 Madrid >> Spain >> >> Phone: +34-91-497-2412 >> >> Email: rdia...@gmail.com >> ramon.d...@iib.uam.es >> >> http://ligarto.org/rdiaz >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://stat.ethz.ch/mailman/listinfo/bioc-devel -- Ramon Diaz-Uriarte Department of Biochemistry, Lab B-25 Facultad de Medicina Universidad Autónoma de Madrid Arzobispo Morcillo, 4 28029 Madrid Spain Phone: +34-91-497-2412 Email: rdia...@gmail.com ramon.d...@iib.uam.es http://ligarto.org/rdiaz _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
