[Bioc-devel] Universal mac OS X packages for BioC 1.8 ready for testing
I am unable to access the repository using the Mac OS pull-down menu where I choose "Bioconductor (binaries)". I know this is not the way you specific below, but I gues it is the most natural way for most users. Perhaps one can do it using a "Other repository". Perhaps this needs changes in R.app - in that case it should be updated for R-2.3.1 Also: I tried installing affxparser which I know does not compile on Mac OS X with the GCC shipped with R-2.3.0 (we have a fix I will merge into Bioc 1.8 today). It looked like it installed, and the .tgz file contains .so libs both for i386 and ppc. Both I cannot load the package, dyn.load complains about unresolved Symbols (which makes sense, the lib does not fully compile). Anyway, it looks like the binary have been build even though the compilation fails. That is a bit strange. /Kasper
On May 19, 2006, at 10:23 AM, Herve Pages wrote:
Hi all, Thanks to Simon Urbanek, the universal Mac OS X packages for BioC 1.8 are finally ready for testing. As always, the easiest way to install is to use the biocLite() function:
source("http://bioconductor.org/biocLite.R")
biocLite("name_of_the_package")
You _must_ use the universal R 2.3.0 built from CRAN for this to work.
Also don't forget to pass 'type="mac.binary"' to the biocLite()
function
in case you have the default type set to "source" (you can check this
with 'getOption("pkgType")').
You can also install a default set of Bioconductor 1.8 packages by
simply doing:
biocLite()
If you are looking for a particular package but you are not sure about its name or even its existence, you can browse the Bioconductor 1.8 package repositories by going to: http://bioconductor.org/packages/1.8/BiocViews.html When available, a link to the Mac OS X universal package (.tgz file) will show up on the package homepages. You can use this link for individual package download. Please try and give us some feedback (these universal binaries are still experimental). If things are not too bad, we plan to announce on the BioC list next tuesday. Thanks, H. -- ------------------------ Herv? Pag?s E-mail: hpages at fhcrc.org Phone: (206) 667-5791 Fax: (206) 667-1319
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