Phil, Thanks for the tip. I have tried rebuilding the RMySQL library, but it always fails. When I run: R CMD INSTALL --configure-args='--with-mysql-inc=/usr/local/mysql/ include --with-mysql-lib=/usr/local/mysql/lib' /Users/jason/Desktop/ RMySQL_0.5-7.tar.gz.tar I get ... gcc-3.3 -bundle -flat_namespace -undefined suppress -L/usr/local/lib - o RMySQL.so RS-DBI.o RS-MySQL.o -L/usr/local/mysql/lib -lmysqlclient - lz -lcc_dynamic -F/Library/Frameworks/R.framework/.. -framework R ld: can't locate file for: -lcc_dynamic make: *** [RMySQL.so] Error 1 ERROR: compilation failed for package 'RMySQL' The MySQL that I have is 5.0.18 that I downloaded as a binary directly from mysql.com. Is your mySQL installation from elsewhere? What do you mean "...that I installed through port." It sounds like you have everything working. What commands did you use to get mySQL 5 installed? To get RMySQL compiled? Any help here is appreciated. I am heavily dependent on R working with mySQL for my project. Thanks, - Jason
On Feb 19, 2006, at 11:21 PM, Phil Spector wrote:
Jason -
In order to get mysql5 to work with R.2.2 on Tiger, I had to
rebuild
the RMySQL library against the mysql libraries that I installed
through port.
(You didn't mention where you got your mysql from). The problem I saw
was that I kept seeing the warning message, and R wouldn't connect
to the database, but I'm pretty sure what you need to do is rebuild
the R library
against the system libraries that you've currently got installed.
- Phil Spector
Statistical Computing Facility
Department of Statistics
UC Berkeley
spector at stat.berkeley.edu
On Sun, 19 Feb 2006, Jason Horn wrote:
I am having trouble getting RMySQL working with R. It did at one point, work with an older 1.x version of R, but now with R2.2.1, I am getting the following messages on my OS X 10.4.5 system: RS-DBI driver warning: (MySQL mismatch between compiled version 4.0.24 and runtime version 4.1.14) if I then try to run any further db commands such as dbConnect, R crashes with a bus error. When I started getting this error, I was using MySQL 5. I have since removed that installation and instead installed the older 4.0.24. I still get the error message. I have also tried other versions of MySQL, but the error persists. I have also tried installing RMySQL from sources, but it makes no difference. Does anyone know what this error message means. Are there any OS X users that have with R 2.x working with RMySQL? Please help! - Jason Jason Horn Boston University Department of Biology 5 Cumington Street Boston, MA 02215 jhorn at bu.edu office: 617 353 6987 cell: 401 588 2766 [[alternative HTML version deleted]]
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