----- Original Message ----- > From: "Tim Triche, Jr." <tim.tri...@gmail.com> > To: bioc-devel@r-project.org > Cc: "Dan Tenenbaum" <dtene...@fredhutch.org> > Sent: Friday, June 26, 2015 3:12:26 PM > Subject: SSL support in Docker images? > > > Hi all, > > > I was looking to see whether my proposed DMRcate changes would run > smoothly within the devel_microarray Docker image, and ran into this > blocker (below). So I can't use install_github to see whether the > addition of the changes I've proposed will integrate smoothly with > the devel docker images. This is a nice sanity check for me, and I'd > like to be able to use it... any idea of whether SSL, git2r, and > devtools will be possible soon? > > > > > > > install.packages(c("git2r")) > Installing package into ‘/usr/local/lib/R/site-library’ > (as ‘lib’ is unspecified) > trying URL ' http://cran.rstudio.com/src/contrib/git2r_0.10.1.tar.gz > ' > Content type 'application/x-gzip' length 1014817 bytes (991 KB) > ================================================== > downloaded 991 KB > > > Bioconductor version 3.1 (BiocInstaller 1.18.3), ?biocLite for help > * installing *source* package ‘git2r’ ... > ** package ‘git2r’ successfully unpacked and MD5 sums checked > checking build system type... x86_64-unknown-linux-gnu > checking host system type... x86_64-unknown-linux-gnu > checking for gcc... gcc > checking whether the C compiler works... yes > checking for C compiler default output file name... a.out > checking for suffix of executables... > checking whether we are cross compiling... no > checking for suffix of object files... o > checking whether we are using the GNU C compiler... yes > checking whether gcc accepts -g... yes > checking for gcc option to accept ISO C89... none needed > checking for library containing inflate... -lz > checking for library containing SSL_library_init... no > configure: error: in `/tmp/RtmpQMHf20/R.INSTALLa7236dd394b/git2r': > configure: error: OpenSSL library required > See `config.log' for more details > ERROR: configuration failed for package ‘git2r’ > * removing ‘/usr/local/lib/R/site-library/git2r’ > > > The downloaded source packages are in > ‘/tmp/RtmpLHhGwv/downloaded_packages’ > Warning message: > In install.packages(c("git2r")) : > installation of package ‘git2r’ had non-zero exit status > > >
I can't repro this problem; are you using the latest bioconductor/devel_microarray:latest? Try docker pull bioconductor/devel_microarray After doing that I was able to install git2r and devtools without issues. Dan > > > > I suppose I could add to the Dockerfile but I'm not 100% sure where > it is in SVN. > > > Thnaks, > > > --t > > > > > > > > > > > Statistics is the grammar of science. > Karl Pearson _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel