[R] RMySQL loading error
i was able to install DBI and RMySQL cleanly. I get the error below on
library('RMySQL').
The file it is complaining about is located in /usr/lib/mysql/, where is
R trying to load it from? Tried a symlink into /usr/local/lib/mysql to
no avail. thx. -P
Loading required package: DBI
Error in dyn.load(x, as.logical(local), as.logical(now)) :
unable to load shared library
'/usr/local/IT/R-2.1.0/library/RMySQL/libs/RMySQL.so':
libmysqlclient.so.10: cannot open shared object file: No such file or
directory
Error in library(RMySQL) : .First.lib failed for 'RMySQL'
q()
# find / -name libmysqlclient.so.10
/usr/lib/mysql/libmysqlclient.so.10
--
Patrice Seyed
Linux System Administrator - LinGA
RHCE, SCSA
Boston University Medical Campus
__
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Re: [R] RMySQL loading error
but of course; danke. -P
Prof Brian Ripley wrote:
On Wed, 17 May 2006, Patrice Seyed wrote:
i was able to install DBI and RMySQL cleanly. I get the error below on
library('RMySQL').
The file it is complaining about is located in /usr/lib/mysql/, where is
R trying to load it from? Tried a symlink into /usr/local/lib/mysql to
no avail. thx. -P
You need /usr/lib/mysql in the your ld.so load path: normally this is
done via ldconfig: for example my FC3 system has in /etc/ld.so.conf:
include ld.so.conf.d/*.conf
/usr/lib/mysql
/usr/lib64/mysql
/usr/i486-linux-libc5/lib
In short, mysql has not been installed completely.
Loading required package: DBI
Error in dyn.load(x, as.logical(local), as.logical(now)) :
unable to load shared library
'/usr/local/IT/R-2.1.0/library/RMySQL/libs/RMySQL.so':
libmysqlclient.so.10: cannot open shared object file: No such file or
directory
Error in library(RMySQL) : .First.lib failed for 'RMySQL'
q()
# find / -name libmysqlclient.so.10
/usr/lib/mysql/libmysqlclient.so.10
--
Patrice Seyed
Linux System Administrator - LinGA
RHCE, SCSA
Boston University Medical Campus
__
R-help@stat.math.ethz.ch mailing list
https://stat.ethz.ch/mailman/listinfo/r-help
PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] [Re: tcltk loading in R-2.2.1 from src]
Hi, I believe configure was not finding tk.h, because tk-devel rpm was not available on the given host. Thanks Erik and Peter for the suggestions on checking tk.h and stdout of ./configure. Just one further question for Peter Well, the package is there, as a stub to tell you that it doesn't work So then how can you confirm from the library() output (or elsewhere) if the package is actually installed vs. just a stub (to tell you it doesn't work)? Thank you, Patrice Erik Iverson wrote: Patrice - I had a very similar problem using TCL/TK 8.3. Below is the email I sent to my computing group at work about how I fixed it. Note that since my TCL/TK header (.h) files were in an odd location, the first step probably isn't relevant for you. But I bet the second step is. -- I believe I have found the solution to this problem. There were 2 steps I took to get a build of R in my home directory that properly uses Tcl/Tk 8.3 under Linux. The first was setting an environment variable to let R know where the tcl.h and tk.h files reside. This environment variable was TCLTK_CPPFLAGS and is set to -I/s/include . This can bet set in the config.site in R's build directory also. tcl.h resides in /usr/include, but tk.h does not exist in its relevant rpm (tk-8.3.5-92). (NOTE to R-help: The above is site specific to my location, /s is for software on the network.) Second, there is some problem with the way R interacts with the tkConfig.sh file in /s/lib (or wherever your .sh file is located). It comes from the following line in tkConfig.sh. TK_XINCLUDES='# no special path needed' The # character, indicating a comment, is somehow misinterpreted by the configure script which breaks the Tcl/Tk functionality. I was able to get around this by simply removing the comment and leaving it as TK_XINCLUDES='' That got me a working version of the newest R using Tcl/Tk. I'm not sure if Tcl/Tk version 8.4 would still put that comment in there, I believe it's changed though, so you'd only have to follow the first step to get R compiled with Tcl/Tk support. I found reference to this problem on the R mailing list, it appears to only affect certain installations of Tcl/Tk. - HTH, Erik Iverson Patrice Seyed wrote: Hi, Having trouble loading tcltk in R 2.2.1 built from source. ./configure, make, make check, and make install run ok. library(tcltk) Error in firstlib(which.lib.loc, package) : Tcl/Tk support is not available on this system Error in library(tcltk) : .First.lib failed for 'tcltk' even though it is listed in library() output. I have the same problem even if i compile with options: ./configure --with-tcltk --with-tcl-config=/usr/lib/tclConfig.sh --with-tk-config=/usr/lib/tkConfig.sh Is there a dep for R 2.2.1 on a specific version of tcl? Any hints on this issue appreciated. running on linux (2.4.21-4) version: rpm -qa | grep tcl tcl-devel-8.3.5-92 tcl-8.3.5-92 Specifically, the package pbatR loads this library during installation. Thanks, Patrice -- Patrice Seyed Linux System Administrator - LinGA RHCE, SCSA Boston University Medical Campus -- Patrice Seyed Linux System Administrator - LinGA RHCE, SCSA Boston University Medical Campus __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
[R] tcltk loading in R-2.2.1 from src
Hi, Having trouble loading tcltk in R 2.2.1 built from source. ./configure, make, make check, and make install run ok. library(tcltk) Error in firstlib(which.lib.loc, package) : Tcl/Tk support is not available on this system Error in library(tcltk) : .First.lib failed for 'tcltk' even though it is listed in library() output. I have the same problem even if i compile with options: ./configure --with-tcltk --with-tcl-config=/usr/lib/tclConfig.sh --with-tk-config=/usr/lib/tkConfig.sh Is there a dep for R 2.2.1 on a specific version of tcl? Any hints on this issue appreciated. running on linux (2.4.21-4) version: rpm -qa | grep tcl tcl-devel-8.3.5-92 tcl-8.3.5-92 Specifically, the package pbatR loads this library during installation. Thanks, Patrice -- Patrice Seyed Linux System Administrator - LinGA RHCE, SCSA Boston University Medical Campus __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
