install "multtest" and "preprocessCore" packages in Bioconductor library
My apologies: the posting guide doesn't actually suggest updating to the most recent stable version -- though perhaps it would be a good addition to the "before posting" section -- but I still think that's the necessary fix to your problem. Michael On Wed, Nov 30, 2011 at 1:08 PM, R. Michael Weylandt
<michael.weylandt at gmail.com> wrote:
As the posting guide strongly suggests, I think the first step is to update to R 2.14: there have been changes in package design and I'm not sure back-compatibility will run that far. Doing so should let you download fresh binaries straight from BioC. I'm not sure why you would get compilation errors if you are just installing a binary -- are you sure you're doing it right? What are your commands? I think follow-up should be directed to the dedicated BioConductor list, but I assume they will tell you the same thing: 1) Update R and try to install prepackaged libraries; 2) install local copies of the binaries; 3) only compile from source if needed (you probably don't have a fortran compiler which seems to be part of the problem) Michael On Wed, Nov 30, 2011 at 12:57 PM, UyenThao Nguyen <unguyen at tethysbio.com> wrote:
Hi All, I've tried to install these "multtest" and "preprocessCore" packages in Mac, but kept getting error messages. I tried to load the packages using 2 ways: 1. Installed from BioConductor (sources) 2. And installed from BioConductor (binaries) Both ways, I got these error messages: For preprocessCore: ld: warning: directory '/usr/local/lib' following -L not found ld: library not found for -lgfortran collect2: ld returned 1 exit status make: *** [preprocessCore.so] Error 1 ERROR: compilation failed for package ?preprocessCore? * removing ?/Library/Frameworks/R.framework/Versions/2.10/Resources/library/preprocessCore? * restoring previous ?/Library/Frameworks/R.framework/Versions/2.10/Resources/library/preprocessCore? For multtest: ld: warning: directory '/usr/local/lib' following -L not found ** arch - x86_64 Looks like the error got to do with L drive, which I don't know how to fix it. Please help. Any suggestions will be greatly appreciated. Thank you very much, Nguyen
______________________________________________ R-help at r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.