On Mon, Nov 7, 2011 at 8:19 AM, Qinghua Liao <fantasticqhl.gmail.com> wrote:
> Dear amber users,
>
> I am trying to install amber11 and ambertools-1.5 on ubuntu 64 bit, but I
> failed. I can do the configure successfully without any errors except the
> X11, however I installed the xorg-dev package just as the instruction. The
> attached file is generated from ./configure gnu, and here are the output of
> the ./configure gnu:
>
Try replacing "/usr/X11R6" in your $AMBERHOME/AmberTools/src/configure
script with "/usr". I think that's where the X11 libraries are located for
these later Ubuntu releases.
> ../libsrc/.libs/libnetcdf.a(v1hpg.o): In function `nc_get_NC':
> v1hpg.c:(.text+0x1d81): undefined reference to `ncx_getn_schar_schar'
> v1hpg.c:(.text+0x1e14): undefined reference to `ncx_get_size_t'
> collect2: ld returned 1 exit status
> make[3]: *** [ncgen] Error 1
> make[3]: Leaving directory
> `/home/qinghua/amber11/AmberTools/src/netcdf/src/ncgen'
> make[2]: *** [install-recursive] Error 1
> make[2]: Leaving directory
> `/home/qinghua/amber11/AmberTools/src/netcdf/src'
> make[1]: *** [/home/qinghua/amber11/lib/libnetcdf.a] Error 2
> make[1]: Leaving directory `/home/qinghua/amber11/AmberTools/src/ptraj'
> make: *** [serial] Error 2
>
This looks like NetCDF failed during the build process for some reason.
What version of the GNU compilers are you using? (gcc --version -or-
gfortran --version).
One thing you could try is to go to $AMBERHOME/AmberTools/src/netcdf/src
and run the command
make distclean
and then try to rebuild (you'll have to reconfigure).
Also, could you attach your netcdf.log file? That may help us determine
what went wrong.
HTH,
Jason
P.S. You should also allow us more than 5 hours to respond to your request
before bumping it with another email. Many of us have ~12 hour time
difference relative to you, so we can't respond very soon after you email
us.
--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
352-392-4032
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Received on Mon Nov 07 2011 - 06:00:03 PST
