problems installing on 64bit linux

December 21, 2011, 06:17:17 AM

Dear all,

I'am trying to install XCMS on a 64 bit linux system, but failing to do so. Immediatly after using the biocLite function to download XCMS I get the following warning :
Warning in install.packages(pkgs = pkgs, repos = repos, ...) :
argument 'lib' is missing: using '/home/rico/R/x86_64-pc-linux-gnu-library/2.11'
Warning: dependency âsnowâ is not available
also installing the dependencies 'faahKO', 'ncdf', 'rgl'

After packages are downloaded I get the following error :
* installing *source* package âfaahKOâ ...
** R
** data
** inst
** preparing package for lazy loading
Error in loadNamespace(name) : there is no package called 'xcms'
ERROR: lazy loading failed for package 'faahKO'

All other packages with the following errors :
configure: error: netcdf header netcdf.h not found
ERROR: configuration failed for package âncdfâ
* removing '/home/rico/R/x86_64-pc-linux-gnu-library/2.11/ncdf'

Anyone any ideas? Thanks in advance.

Cheers, Rico

My system is :
> sessionInfo()
R version 2.11.1 (2010-05-31)
x86_64-pc-linux-gnu

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=C LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 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

Re: problems installing on 64bit linux

Reply #1 – December 21, 2011, 12:32:35 PM

Is the netcdf library (libnetcdf-dev) installed ?

Re: problems installing on 64bit linux

Reply #2 – December 22, 2011, 02:44:09 AM

Hi Ralf,

That did it! I thought it was already installed. Thanks.

Cheers, RICO

Re: problems installing on 64bit linux

Reply #3 – April 02, 2012, 04:19:32 PM

Quote from: "Ralf"

Is the netcdf library (libnetcdf-dev) installed ?

Thanks a bunch for this little tidbit. This did the trick for me too!
-Jim

Re: problems installing on 64bit linux

Reply #4 – January 15, 2013, 06:05:57 AM

Thanks Ralf for the help. I was getting the same error on my 64bit Linux. This is the exact error message: Error in loadNamespace(name) - there is no package called 'xcms', ERROR: lazy loading failed for package 'faahKO'. I even called a computer operator and he could not fix it. Then I searched in Google and reached here and now it is working.