upwellingcase

[kekejiayu]

when I run the upwelling case ,I got this :


f951: Fatal Error: Reading module ‘netcdf’ at line 2 column 1: Unexpected EOF
compilation terminated.
ROMS/Utility/Module.mk:15: recipe for target '/home/kekejiayu/Projects/upwelling/Build/distribute.o' failed
make: *** [/home/kekejiayu/Projects/upwelling/Build/distribute.o] Error 1
make: *** Waiting for unfinished jobs....

[kate]

There's a problem with your netcdf.mod file. ROMS will copy this file from the NETCDF_INCDIR which you tell it directly or through "nc-config --incdir". This netcdf module file must have been created with the same compiler you are using - and must be complete.

[kekejiayu]

There's a problem with your netcdf.mod file. ROMS will copy this file from the NETCDF_INCDIR which you tell it directly or through "nc-config --incdir". This netcdf module file must have been created with the same compiler you are using - and must be complete.

Dear Kate,
Thank you for your reply.
In my linux,I install the netcdf3.6.3,So I try to change the 'export USE_NETCDF4=on' to 'export USE_NETCDF3=on ',then I got this:
cd /home/kekejiayu/Projects/upwelling/Build; /usr/bin/gfortran -c -frepack-arrays -O3 -ffast-math -ffree-form -ffree-line-length-none mod_parallel.f90
mod_parallel.f90:17: Error: Can't open included file 'mpif.h'
ROMS/Modules/Module.mk:15: recipe for target '/home/kekejiayu/Projects/upwelling/Build/mod_parallel.o' failed
make: *** [/home/kekejiayu/Projects/upwelling/Build/mod_parallel.o] Error 1

[kate]

Try turning on USE_MPIF90. This is often needed with USE_MPI.

[kekejiayu]

Try turning on USE_MPIF90. This is often needed with USE_MPI.

Thank you,kate.
I had solved my problem. There is another problem.When I run'./oceanS < ocean_upwelling.in',I got this:
Model Input Parameters: ROMS/TOMS version 3.7
Wednesday - August 17, 2016 - 9:25:34 PM
-----------------------------------------------------------------------------

MOD_NCPARAM - Unable to open variable information file:
ROMS/External/varinfo.dat
Default file is located in source directory.
And when I run' ./oceanS < ocean_upwelling.in > my_upwelling.log ',I got nothing.

[shchepet]

Most (most likely all) problems of this kind associated with linking to netCDF
library can be avoided if you compile netCDF (including dependencies hdf5, zlib,
etc) libraries yourself using matching compiler and compiler flags (the same as
you use for ROMS) rather than "install" it from your Linux distribution (especially
using netcdf-3.6.3 is kind of odd: it is a very very old version of netCDF lacking
many useful features of modern netCDF).

This may seem too be tedious and prone to various failures, but actually
can be done within a reasonable time (say a half-an-our or so) by almost
copy-paste-execute mouse clicking, while rarely touching keyboard.

Here is a verified step-by-step procedure

http://people.atmos.ucla.edu/alex/techn ... g_sequence

the sources for the newest (sufficiently new) versions of all associated
components can be found in the same web directory

http://people.atmos.ucla.edu/alex/technical/netcdf/

or obtained from the original sources.

[jivica]

It is exactly telling you what is missing!
In your .in file, at the top, you have line where you define location of varinfo.dat
So, you can put right link or even copy varinfo.dat into the folder where you run your model, but it has to be correct.
example:
my ocean.in file has line with:
! Application title.
TITLE = Adriatic Sea Application, 2km ROMS 3.0
! Input variable information file name. This file needs to be processed
! first so all information arrays can be initialized properly.
MyAppCPP = adria2km
VARNAME = varinfo.dat
And when I start the model it is looking for varinfo.dat in the current folder...

I.

Try turning on USE_MPIF90. This is often needed with USE_MPI.

Thank you,kate.
I had solved my problem. There is another problem.When I run'./oceanS < ocean_upwelling.in',I got this:
Model Input Parameters: ROMS/TOMS version 3.7
Wednesday - August 17, 2016 - 9:25:34 PM
-----------------------------------------------------------------------------

MOD_NCPARAM - Unable to open variable information file:
ROMS/External/varinfo.dat
Default file is located in source directory.
And when I run' ./oceanS < ocean_upwelling.in > my_upwelling.log ',I got nothing.

[kate]

And when I run' ./oceanS < ocean_upwelling.in > my_upwelling.log ',I got nothing.

Did you look in the my_upwelling.log file? That is where you told the shell to deposit the standard out from running oceanS.

I agree with Sasha - learn enough about your system so that you don't fear installing your own NetCDF and NetCDF-fortran.

[lqe2004]

It is exactly telling you what is missing!
In your .in file, at the top, you have line where you define location of varinfo.dat
So, you can put right link or even copy varinfo.dat into the folder where you run your model, but it has to be correct.
example:
my ocean.in file has line with:
! Application title.
TITLE = Adriatic Sea Application, 2km ROMS 3.0
! Input variable information file name. This file needs to be processed
! first so all information arrays can be initialized properly.
MyAppCPP = adria2km
VARNAME = varinfo.dat
And when I start the model it is looking for varinfo.dat in the current folder...

I.

Try turning on USE_MPIF90. This is often needed with USE_MPI.

Thank you,kate.
I had solved my problem. There is another problem.When I run'./oceanS < ocean_upwelling.in',I got this:
Model Input Parameters: ROMS/TOMS version 3.7
Wednesday - August 17, 2016 - 9:25:34 PM
-----------------------------------------------------------------------------

MOD_NCPARAM - Unable to open variable information file:
ROMS/External/varinfo.dat
Default file is located in source directory.
And when I run' ./oceanS < ocean_upwelling.in > my_upwelling.log ',I got nothing.

Thanks jivica! Your advice help me solve the problem. I changed the VARNAME = ~/ROMS/upwelling/varinfo.dat to VARNAME = varinfo.dat and then it works well.