[R] RSQLite and undefined symbol:sqlite3_bind_in

From: Maya Bercovich <mayab_at_tauex.tau.ac.il>
Date: Mon, 19 May 2008 09:28:58 +0300

Hi All,

I tried to install AnnotationDBI
like so:
http://bioconductor.org/biocLite.R") biocLite("AnnotationDbi")
and got this error:

Loading required package: RSQLite
Error in dyn.load(file, ...) :

   unable to load shared library '/RHEL3/local/lib64/R/library/ RSQLite/libs/RSQLite.so':

   /RHEL3/local/lib64/R/library/RSQLite/libs/RSQLite.so: undefined symbol: sqlite3_bind_int
Error: package 'RSQLite' could not be loaded Execution halted
ERROR: lazy loading failed for package 'AnnotationDbi' ** Removing '/RHEL3/local/lib64/R/library/AnnotationDbi'

The downloaded packages are in

         /RHEL3/tmp/Rtmp6ex1Pz/downloaded_packages Updating HTML index of packages in '.Library' Warning message:
In install.packages(pkgs = pkgs, repos = repos, dependencies = dependencies, :

   installation of package 'AnnotationDbi' had non-zero exit status

However, I did install RSQLite and the installation finished with no errors.


> require(RSQLite)

Loading required package: RSQLite
Error in dyn.load(file, ...) :

   unable to load shared library '/usr/local/lib64/R/library/RSQLite/ libs/RSQLite.so':

   /usr/local/lib64/R/library/RSQLite/libs/RSQLite.so: undefined symbol: sqlite3_bind_int

The library and file do exist with 755 permissions.

My session info:

> sessionInfo()

R version 2.6.2 (2008-02-08)

[1] stats graphics grDevices utils datasets methods base

other attached packages:
[1] DBI_0.2-4 loaded via a namespace (and not attached): [1] rcompgen_0.1-17 tools_2.6.2

Has anyone a clue?
I am not a R user, just the IT person who has to install it, so if you need additional info from inside R, please let me know how to get it.

Thanks a lot,

        [[alternative HTML version deleted]]

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. Received on Mon 19 May 2008 - 07:59:22 GMT

Archive maintained by Robert King, hosted by the discipline of statistics at the University of Newcastle, Australia.
Archive generated by hypermail 2.2.0, at Mon 19 May 2008 - 19:30:38 GMT.

Mailing list information is available at https://stat.ethz.ch/mailman/listinfo/r-help. Please read the posting guide before posting to the list.

list of date sections of archive