On 04/22/2014 05:55 AM, Julian Gehring wrote:
Related to this, running 'biocLite("BiocUpgrade")' with an bioc-3.0 triggers an
upgrade to bioc-3.1 which is non-existing.
This will be addressed, sorry for not responding sooner. Martin
Best wishes Julian On 22.04.2014 14:38, Julian Gehring wrote:Hi, Alejandro and I digged deeper into this: The bug I described before as caused by 'BiocInstaller:::.onLoad' which sets 'BiocInstaller:::IS_UPGRADEABLE' to TRUE for every bioc release with an even minor (e.g. 2.12, 2.14). Within the load function, (BIOC_VERSION$minor %% 2L) == 0L checks against the minor of the bioc number, which looks non-informative. Rather, checking if the minor of the 'BiocInstaller' package is even or odd could be more useful here (packageVersion("BiocInstaller")$minor %% 2L) == 0L which is TRUE for stable and FALSE for devel. Best wishes Julian On 17.04.2014 18:50, Steve Lianoglou wrote:HI, On Thu, Apr 17, 2014 at 7:09 AM, Julian Gehring <julian.gehr...@embl.de> wrote:Hi, When I run source("http://bioconductor.org/biocLite.R";) biocLite("BiocUpgrade") on a stable R-3.1.0 with bioc 2.14 already installed, bioc wants to upgrade to bioc 3.0 (devel): Bioconductor version 2.14 (BiocInstaller 1.14.1), ?biocLite for help Upgrade all packages to Bioconductor version 3.0? [y/n] Is this intentional? The documentation on the website and ?BiocUpgrade suggests that it upgrades to the latest bioc 'release'.Is this some potential weirdness with ?BiocInstaller::useDevel maybe? -steve_______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel_______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
-- Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold Building M1 B861 Phone: (206) 667-2793 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
