[MITgcm-support] problem running MITgcm/verification//tutorial_global_oce_latlon/

Wed Oct 9 13:00:11 EDT 2013

Thanks Jody

I am already using genmake2 through the following call...

~/MITgcm/tools/genmake2 -ieee -mods ../code -of
./linux_amd64_pgf90_mpi_hect3 -mpi

It seems that it's not the compilation which is the issue, rather the
running of the executable file once it's been created...

Thanks again

Jonny

On 9 October 2013 17:32, Jody Klymak <jklymak at uvic.ca> wrote:

>
> Hi Jonny,
>
> You need to run genmake2  See Sec 3.5 of the manual.  You also need to
> figure out where your mpi-compatible executables are kept.  The manual
> claims genmake2 will magically find these executables, but I am skeptical
> that works for most people...
>
> If you are having trouble finding these executables and libraries, your
> sys admin should be able to help make a genmake2 option file for you (if
> someone hasn't already)
>
> Cheers,   Jody
>
>
> On Oct 9, 2013, at  9:24 AM, Jonny Williams <Jonny.Williams at bristol.ac.uk>
> wrote:
>
> I would guess that the key error in this is...
>
> make[1]: mpif77: Command not found
> make[1]: *** [bulkf_ave.o] Error 127
> make[1]: Leaving directory
> `/nfs01/n02/n02/ggjhtw/MITgcm/verification/global_ocean.cs32x15/build'
> make: *** [fwd_exe_target] Error 2
> failed
>
> ?
>
>
>
>
>
> On 9 October 2013 15:38, Menemenlis, Dimitris (3248) <
> Dimitris.Menemenlis at jpl.nasa.gov> wrote:
>
>>  Looks like you are missing other parameter files too.
>>
>>  In verification try: ./testreport -mpi -t global_ovean.cs32x15
>>
>> Dimitris Menemenlis
>> 818-625-6498
>>
>> On Oct 9, 2013, at 7:32 AM, "Jonny Williams" <
>> Jonny.Williams at bristol.ac.uk> wrote:
>>
>>   I have now found a file which I think is along the lines of what I
>> need (eedata). Its contents is as follows...
>>
>>  START
>>
>>  # Example "eedata" file
>> # Lines beginning "#" are comments
>> # nTx - No. threads per process in X
>> # nTy - No. threads per process in Y
>>  &EEPARMS
>>  nTx=1,nTy=1
>>  /
>> # Note: Some systems use & as the
>> # namelist terminator. Other systems
>> # use a / character (as shown here).
>>
>>  END
>>
>>  I am now getting a different error, which is as follows...
>>
>>  START
>>
>>  Warning: ieee_inexact is signaling
>> Warning: ieee_inexact is signaling
>> ABNORMAL END: S/R OPEN_COPY_DATA_FILE
>> ABNORMAL END: S/R OPEN_COPY_DATA_FILE
>> [NID 02345] 2013-10-09 14:27:15 Apid 5947911: initiated application
>> termination
>>
>>  END
>>
>>  Thanks again
>>
>>  Jonny
>>
>>
>> On 9 October 2013 15:01, Menemenlis, Dimitris (3248) <
>> Dimitris.Menemenlis at jpl.nasa.gov> wrote:
>>
>>>  Do you have a file called "eedata" in your run directory?
>>>
>>> Dimitris Menemenlis
>>> 818-625-6498
>>>
>>> On Oct 9, 2013, at 6:57 AM, "Jonny Williams" <
>>> Jonny.Williams at bristol.ac.uk> wrote:
>>>
>>>   Hi there
>>>
>>>  I am trying to run
>>> the MITgcm/verification//tutorial_global_oce_latlon/ example which was
>>> pre-loaded when I downloaded the MITgcm code using CVS a couple of days
>>> ago.
>>>
>>>  I plan to run parallelised codes in the future and so I am using the
>>> SIZE.h file which was originally called SIZE.h_mpi in the default
>>> installation.
>>>
>>>  The code compiled successfully as far as I can tell.
>>>
>>>  When I attempt to run the script I get the following error message in
>>> a file called testing1.e1726317 (my job is called testing1)...
>>>
>>>  START
>>>
>>>  gPGFIO-F-209/formatted read/unit=13/'OLD' specified for file which
>>> does not exist.
>>>  In source file eeset_parms.f, at line number 1778
>>> [NID 02545] 2013-10-09 13:28:18 Apid 5947459: initiated application
>>> termination
>>>
>>>  END
>>>
>>>  The offending line (line 1778 of eeset_parms.f) reads as follows...
>>>
>>>  START
>>>
>>>  READ(eeDataUnit,FMT='(A)',END=1001) RECORD
>>>
>>>  END
>>>
>>>  Is anyone able to shed any light on this?
>>>
>>>  For your information I am running on the HECToR supercomputer cluster
>>> in the UK using scripts which were given to me by a collaborator who is
>>> already successfully using the MITgcm model on the same machine.
>>>
>>>  Many thanks!
>>>
>>>  Jonny Williams
>>>
>>>
>>>  --
>>>  Dr Jonny Williams
>>> School of Geographical Sciences
>>> University of Bristol
>>> University Road
>>> BS8 1SS
>>>
>>>  +44 (0)117 3318352
>>> jonny.williams at bristol.ac.uk<https://mail.google.com/mail/?view=cm&fs=1&tf=1&to=jonny.williams@bristol.ac.uk>
>>> bit.ly/jonnywilliams
>>>
>>>   _______________________________________________
>>> MITgcm-support mailing list
>>> MITgcm-support at mitgcm.org
>>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>>>
>>>
>>> _______________________________________________
>>> MITgcm-support mailing list
>>> MITgcm-support at mitgcm.org
>>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>>>
>>>
>>
>>
>>  --
>>  Dr Jonny Williams
>> School of Geographical Sciences
>> University of Bristol
>> University Road
>> BS8 1SS
>>
>>  +44 (0)117 3318352
>> jonny.williams at bristol.ac.uk
>> bit.ly/jonnywilliams
>>
>>  _______________________________________________
>> MITgcm-support mailing list
>> MITgcm-support at mitgcm.org
>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>>
>>
>> _______________________________________________
>> MITgcm-support mailing list
>> MITgcm-support at mitgcm.org
>> http://mitgcm.org/mailman/listinfo/mitgcm-support
>>
>>
>
>
> --
> Dr Jonny Williams
> School of Geographical Sciences
> University of Bristol
> University Road
> BS8 1SS
>
> +44 (0)117 3318352
> jonny.williams at bristol.ac.uk
> bit.ly/jonnywilliams
>  _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support
>
>
> --
> Jody Klymak
> http://web.uvic.ca/~jklymak/
>
>
>
>
>
> _______________________________________________
> MITgcm-support mailing list
> MITgcm-support at mitgcm.org
> http://mitgcm.org/mailman/listinfo/mitgcm-support
>
>

-- 
Dr Jonny Williams
School of Geographical Sciences
University of Bristol
University Road
BS8 1SS

+44 (0)117 3318352
jonny.williams at bristol.ac.uk
bit.ly/jonnywilliams
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