R devel - Oct 2010 - How do I put ldpaths in a specific place?

Hi Everybody,

I made R (v. 2.11.1) from source with the following config option:
    ./configure --prefix=/mnt/ami-centos5.5-64bit-base \
                        --exec-prefix=/mnt/ami-centos5.5-64bit-base \
                        --with-tcltk

All seemed to go well, but when I tested it with:
    /usr/sbin/chroot /mnt/ami-centos5.5-64bit-base R
It told me:
  /bin/R: line 217: /mnt/ami-centos5.5-64bit-base/lib64/R/etc/ldpaths: No such
file or directory

Question:
How can I direct ldpaths file into this directory?

Thank you for your help.

Regards,

Tena Sakai
tsakai@gallo.ucsf.edu


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On Oct 6, 2010, at 12:38 AM, Tena Sakai wrote:
> Hi Everybody,
> 
> I made R (v. 2.11.1) from source with the following config option:
>    ./configure --prefix=/mnt/ami-centos5.5-64bit-base \
>                        --exec-prefix=/mnt/ami-centos5.5-64bit-base \
>                        --with-tcltk
> 
> All seemed to go well, but when I tested it with:
>    /usr/sbin/chroot /mnt/ami-centos5.5-64bit-base R
> It told me:
>  /bin/R: line 217: /mnt/ami-centos5.5-64bit-base/lib64/R/etc/ldpaths: No
such file or directory
> 
> Question:
> How can I direct ldpaths file into this directory?
> 
That's a quite irrelevant question if your underlying goal is to run R -
ldpaths is your least problem - even if you fixed that nothing would work as
your R.home is entirely wrong.

Note that by using chroot you're making the entire configuration under which
you compiled R invalid.

If your chroot jailed configuration is identical to that of your main system,
you should configure R against your full system and use DESTDIR on make install
to place the installation in the jail. (Note that --prefix is something entirely
different!)

If it's not then you are entirely on your own as you will have to use the
above approach but then also make sure any dependent tools and libraries used by
R are also present in the chroot jail.

Cheers,
Simon