Hi, I can't seem to install devel packages via biocLite() and I wonder if something is broken or if I'm missing something. For example, take GenomeInfoDb which is at 1.3.6 and is passing all checks.
The usual code using a fresh R 3.1.2-patched install isn't working as it downloads the latest release version (1.2.2): > source("http://bioconductor.org/biocLite.R") Bioconductor version 3.0 (BiocInstaller 1.16.0), ?biocLite for help ## Was expecting 3.1 here > useDevel() Error: 'devel' version already in use > biocLite('GenomeInfoDb') BioC_mirror: http://bioconductor.org Using Bioconductor version 3.0 (BiocInstaller 1.16.0), R version 3.1.2. Installing package(s) 'GenomeInfoDb' trying URL 'http://bioconductor.org/packages/3.0/bioc/bin/macosx/contrib/3.1/GenomeInfoDb_1.2.2.tgz' Content type 'application/x-gzip' length 404120 bytes (394 KB) opened URL ================================================== downloaded 394 KB The downloaded binary packages are in /var/folders/cx/n9s558kx6fb7jf5z_pgszgb80000gn/T//Rtmpxp29xo/downloaded_packages > > sessionInfo() R version 3.1.2 Patched (2014-11-01 r66923) ## Note that it matches the current R version used by the Bioc-devel build machines Platform: x86_64-apple-darwin10.8.0 (64-bit) locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] BiocInstaller_1.16.0 colorout_1.0-2 loaded via a namespace (and not attached): [1] tools_3.1.2 For my computer it's not problem because I can download the pkg via svn and install locally. But it breaks my tests in TravisCI which relies on biocLite(). Cheers, Leo _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel