[MITgcm-support] Problem with gluemnc.m / mnc_assembly.m

[Ryan Abernathey]

Thanks so much for pointing me to Baylor's scripts. Since they have  
the same name, at first didn't make the connection that they were  
different from the MATLAB code. I much prefer to do the gluing outside  
of MATLAB. Just thought I would send an email to the list in case some  
other noob like me makes the same mistake.

On Jul 13, 2009, at 6:59 AM, Martin Losch wrote:

> You cannot use rdmnc with the build-in netcdf library, you still  
> need the (same) netcdf toolbox that you used for older matlabs.
>
> However for glueing netcdf files I recommend to use Baylor's  
> fantastic gluemnc/xplodemnc scripts (in utils/scripts). For them to  
> work you need to have nco (netcdf operators) installed.
>
> M.
>
> On Jul 9, 2009, at 8:57 PM, Ryan Abernathey wrote:
>
>> Apparently it does work in MATLAB R2007a but not in R2008a. I  
>> believe that R2008a includes a built-in netcdf library. I guess it  
>> is incompatible with the mnc_assembly.m code.
>>
>> On Jul 8, 2009, at 4:45 PM, Ryan Abernathey wrote:
>>
>>> Dear GCM People,
>>>
>>> I am trying to use gluemnc.m to glue together my output netcdf  
>>> files. The script runs with no errors, but the resulting output  
>>> file is an empty netcdf file. This is very frustrating because I  
>>> can't look at the output of my model in one piece. Does anyone  
>>> have any idea what could be wrong?
>>>
>>> I have confirmed that the problem is inside mnc_assembly.m by just  
>>> running the commands of gluemnc.m manually from the command line.  
>>> I am using MATLAB 7.6.0.324 (R2008a).
>>>
>>> Many thanks for the help,
>>> Ryan
>>>
>>> >> gluemnc('state','0000000000');
>>>
>>> theResult =
>>>
>>> Columns 1 through 9
>>>
>>>  'T'    'iter'    'Xp1'    'Y'    'Z'    'U'    'X'    'Yp1'    'V'
>>>
>>> Columns 10 through 14
>>>
>>>  'Temp'    'S'    'Eta'    'Zl'    'W'
>>>
>>> Found 4 files matching the pattern:  "state.0000000000.t%03d.nc"
>>> Looking for variable:   T
>>> Looking for variable:   iter
>>> Looking for variable:   Xp1
>>> Looking for variable:   Y
>>> Looking for variable:   Z
>>> Looking for variable:   U
>>> Looking for variable:   X
>>> Looking for variable:   Yp1
>>> Looking for variable:   V
>>> Looking for variable:   Temp
>>> Looking for variable:   S
>>> Looking for variable:   Eta
>>> Looking for variable:   Zl
>>> Looking for variable:   W
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Warning: FINITE is obsolete and will be removed in future versions.
>>> Use ISFINITE instead.
>>> > In ncdim.ncdim at 70
>>> In netcdf.subsasgn at 91
>>> In mnc_assembly at 337
>>> In gluemnc at 33
>>> Copying variable:   T
>>> Copying variable:   iter
>>> Copying variable:   Xp1
>>> Copying variable:   Y
>>> Copying variable:   Z
>>> Copying variable:   U
>>> Copying variable:   X
>>> Copying variable:   Yp1
>>> Copying variable:   V
>>> Copying variable:   Temp
>>> Copying variable:   S
>>> Copying variable:   Eta
>>> Copying variable:   Zl
>>> Copying variable:   W
>>> delete the original tiled files? [y/n] n
>>> >> ls -l
>>> total 1704
>>> -rw-------  1 rpa  rpa   14204 Jul  8 15:40 monitor. 
>>> 0000000000.t001.nc
>>> -rw-------  1 rpa  rpa  209024 Jul  8 15:23 state.0000000000.t001.nc
>>> -rw-------  1 rpa  rpa  209024 Jul  8 15:23 state.0000000000.t002.nc
>>> -rw-------  1 rpa  rpa  209024 Jul  8 15:23 state.0000000000.t003.nc
>>> -rw-------  1 rpa  rpa  209024 Jul  8 15:23 state.0000000000.t004.nc
>>> -rw-r--r--  1 rpa  rpa    4096 Jul  8 16:32 state_0000000000.nc
>>>
>>>
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