Hi Maya,
You might want to post emails about specialized bioconductor packages to
the bioconductor mailing list. You can sign up for it here:
http://www.bioconductor.org/docs/mailList.html
Please post your question over there and also tell us: how did you
install RSQLite? Did you use biocLite() for that as well or did you use
another method?
Marc
Maya Bercovich wrote:
Hi All,
I tried to install AnnotationDBI
like so:
source("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.
But:
> 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)
x86_64-unknown-linux-gnu
locale:
LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.U
TF-8;LC_MONETARY=en_US.UTF-8;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-
8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_ID
ENTIFICATION=C
attached base packages:
[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,
Maya
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