[BioC] Rsamtools installation error
Murli [guest]
guest at bioconductor.org
Wed Jul 11 21:01:09 CEST 2012
Hi,
I am trying to install Rsamtools (Redhat linux ) and I have been getting the following error
#######################################
** testing if installed package can be loaded
Error in dyn.load(file, DLLpath = DLLpath, ...) :
unable to load shared object '/usr/local/lib64/R/library/Rsamtools/libs/Rsamtools.so':
/usr/local/lib64/R/library/Rsamtools/libs/Rsamtools.so: undefined symbol: gzopen64
Error: loading failed
Execution halted
ERROR: loading failed
* removing â/usr/local/lib64/R/library/Rsamtoolsâ
#########################################
I have libz installed
/sbin/ldconfig -p|grep libz
libz.so.1 (libc6,x86-64) => /lib64/libz.so.1
libz.so.1 (libc6,x86-64) => /usr/lib64/libz.so.1
libz.so.1 (libc6) => /lib/libz.so.1
libz.so.1 (libc6) => /usr/lib/libz.so.1
libz.so (libc6,x86-64) => /lib64/libz.so
libz.so (libc6,x86-64) => /usr/lib64/libz.so
libz.so (libc6) => /lib/libz.so
libz.so (libc6) => /usr/lib/libz.so
I checked the LD_LIBRARY_PATH using the following
R CMD env | grep LD_LIBRARY_PATH
LD_LIBRARY_PATH=/usr/local/lib64/R/lib:/usr/local/lib64:/usr/lib/jvm/java-1.6.0-sun-1.6.0.31.x86_64/jre/lib/amd64/server:/usr/lib/jvm/java-1.6.0-sun-1.6.0.31.x86_64/jre/lib/amd64
Please let me know if there is anything else that I need to check.
Thanks for your help.
Cheers../Murli
-- output of sessionInfo():
sessionInfo()
R version 2.15.0 (2012-03-30)
Platform: x86_64-unknown-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
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