Re: [AMBER] Problem with Configuring NetCDF

From: Jason Swails <jason.swails.gmail.com>
Date: Sun, 10 May 2015 20:18:44 -0400

On Sun, May 10, 2015 at 7:05 PM, Alaa Mohye El-din Soliman <
alaa.mohye.aucegypt.edu> wrote:

> Thanks for your time and suggestions!
> I have fixed the past errors, and finally the configuration completed
> successfully. However, after I typed "make install" I get stuck on fixing
> the following error, which I got in the middle of the installation process.
>
>
> >
> > gcc -c -DSYSV -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ
> > -DHASGZ -DHASBZ2 -I/home/alaa/amber12/include -o clusterLib.o
> > clusterLib.c
>
> gcc -DSYSV -D_FILE_OFFSET_BITS=64 -D_LARGEFILE_SOURCE -DBINTRAJ -DHASGZ
> > -DHASBZ2 \
>
> -o rdparm main.o rdparm.o dispatch.o help.o utility.o second.o io.o
> > trajectory.o netcdf_ptraj.o parallel_ptraj.o evec.o torsion.o mask.o
> rms.o
> > display.o interface.o energy.o experimental.o ptraj.o actions.o analyze.o
> > thermo.o pubfft.o cluster.o clusterLib.o -L/home/alaa/amber12/lib -lpdb
> > -larpack -llapack -lblas -lgfortran -w
> /home/alaa/amber12/lib/libnetcdf.a
> > -lm
>
> gcc: error: /home/alaa/amber12/lib/libnetcdf.a: No such file or directory
>
> make[2]: *** [rdparm] Error 1
>
> make[2]: Leaving directory `/home/alaa/amber12/AmberTools/src/ptraj'
>
> make[1]: *** [serial] Error 2
>
> make[1]: Leaving directory `/home/alaa/amber12/AmberTools/src'
>
> make: *** [install] Error 2
>
> alaa.alaa-HP-Pavilion-dv5-Notebook-PC ~/amber12 $
>
>
> By the way, I checked the path *home/alaa/amber12/lib/* to see whether the
> file *libnetcdf.a* is exist, and I found it
> I don't know what does this error mean.
>

‚ÄčI can't say this is an error message I'm familiar with. Are you using
"sudo" for any of your installation commands, by any chance? You are
getting more permission-related errors than I've seen before...

All the best,
Jason

-- 
Jason M. Swails
BioMaPS,
Rutgers University
Postdoctoral Researcher
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Received on Sun May 10 2015 - 17:30:02 PDT
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