Re: [netcdfgroup] netcdf

• To: netcdfgroup@xxxxxxxxxxxxxxxx
• Subject: Re: [netcdfgroup] netcdf
• From: Dave Allured <dave.allured@xxxxxxxx>
• Date: Wed, 12 Nov 2008 16:30:48 -0700

Mohamed,

--Dave

Mohamed Mohamed wrote:

Dave

I found the netcdf.mod file in the same location
("/usr/include/netcdf.mod ).

I noticed that its type is movie clip. Is it correct type?.

Also I noticed. I do not have any netcdf files with the .a extension .
For example I found the libnetcdf file with .so.4 extension in the
(usr/lib64/ libnetcdf.so.4) not the  libnetcdf.a as you mention in your
massage.

thanks

Mohamed Ali

-----Original Message-----
[mailto:netcdfgroup-bounces@xxxxxxxxxxxxxxxx] On Behalf Of Dave Allured
Sent: Tuesday, November 11, 2008 5:55 PM

Mohamed,

Regarding the error "/usr/include/netcdf.mod is not a valid module
information file", this is an important file for the Fortran 90
interface.  You need to debug this.  Please find the correct location of
netcdf.mod on your system, and change the path in the -I command
argument to match.

This file might be in the same directory as the library file
libnetcdf.a, or a different directory.  The standard install location

for this file is, I think, in a separate "include" directory. Good luck.

--Dave

Mohamed Mohamed wrote:

Dave

Thanks for your help. I made simple Fortran programs and it is going well.

I made you simple test program but I had this statement "Fatal Error: netcdftest.f90, line 2: /usr/include/netcdf.mod is not a valid module information file detected at NETCDF@<end-of-statement>"

Thanks

Mohamed Ali

-----Original Message-----

[mailto:netcdfgroup-bounces@xxxxxxxxxxxxxxxx] On Behalf Of Dave Allured

Sent: Monday, November 10, 2008 8:52 PM

Mohamed,

The statement "use netcdf" goes into your fortran 90 program below the

program or subroutine or function statement, and above "implicit

none".

You should study and understand Fortran 90 modules before working on this program.

See if you can get this simple test program to compile and run:

program netcdf_version
    use netcdf
    print *, trim(nf90_inq_libvers())
end

The compile command should look something like this:

f90 netcdf_version.f90 -I/usr/include -L/usr/lib64 -lnetcdf

where the include directory contains the file netcdf.mod.

Is there any chance that you have old Fortran 77 code that somehow got
renamed to ".f90" without complete conversion to Fortran 90?

--Dave

Mohamed Mohamed wrote:

Dave,

Thanks, I think it is may be the solution. However I am still a beginner in the Linux. So please could you tell me what to do.

You said " I suspect that you need to add this to the top of each program unit that has Netcdf calls:

    use netcdf "   My question is how ?

Find below a long part of the error. Please have a look.

f_ts.o vdif_uv.o vertvl_edge.o water_depth.o wreal.o ghostuv.o dens3.o init_sed.o advave_edge_gcy.o advection_edge_gcy.o adv_uv_edge_gcy.o bcond_gcy.o shape_coef_gcy.o depth_check.o vdif_ts_gom.o adjust_ts.o shutdown_check.o extelpf_edge.o fct_q2.o fct_q2l.o viscofh.o print_vals.o rho_mean.o viz.o -L/usr/lib64 -lnetcdf mod_ncdio.o: In function `__mod_ncdio__handle_ncerr': mod_ncdio.f90:(.text+0x125): undefined reference to `__netcdf__nf90_strerror'

mod_ncdio.o: In function `__mod_ncdio__putvar':

mod_ncdio.f90:(.text+0x11e4): undefined reference to `__netcdf__nf90_put_var_2d_fourbytereal'

<snip many error messages>

Thanks

Mohamed Ali

-----Original Message-----

[mailto:netcdfgroup-bounces@xxxxxxxxxxxxxxxx] On Behalf Of Dave Allured

Sent: Thursday, November 06, 2008 5:50 PM

Mohamed,

These are missing library symbol errors. I suspect that you need to add this to the top of each program unit that has Netcdf calls:

    use netcdf

This is because the Netcdf Fortran 90 interface uses modules. You can't properly link to the Netcdf F90 library without this

declaration.

For diagnosis, your program is trying to link to this:

    __netcdf__nf90_open

But with a correct "use" statement it should be seeking a symbol named

something like this (the name change may vary by compiler and
platform):

    ___netcdf_MOD_nf90_open

I might be wrong about all of this if you are on a platform or compiler that uses Fortran 90 linking conventions much different than

what I am familiar with. If "use" doesn't fix it, then please provide identification and version info for your platform, compiler, and netcdf version.

Dave Allured

CU/CIRES Climate Diagnostics Center (CDC) http://cires.colorado.edu/science/centers/cdc/

NOAA/ESRL/PSD, Climate Analysis Branch (CAB) http://www.cdc.noaa.gov/

Mohamed Mohamed wrote:

I worked with FVCOM software. When I started to get netcdf output type I received the following error:

mod_lag.f90:(.text+0x89f6): undefined reference to `__netcdf__nf90_put_att_text' mod_lag.f90:(.text+0x8a1e): undefined reference to `__netcdf__nf90_put_att_text'

<snip many error messages>

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