[MITgcm-support] problem running MITgcm/verification//tutorial_global_oce_latlon/
Jonny Williams
Jonny.Williams at bristol.ac.uk
Wed Oct 9 10:47:38 EDT 2013
Thanks, I've attached the command line output from running this command as
you suggested...
Jonny
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
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ggjhtw at hector-xe6-4:~/MITgcm/verification> ./testreport -mpi -t global_ocean.cs32x15/
parsing options... OK (COMMAND='mpirun -v -np TR_NPROC ./mitgcmuv')
creating the comparison code (using CC=cc)... OK
skipping mpack build
default 10 ----T----- ----S----- ----U----- ----V----- --PTR 01-- --PTR 02-- --PTR 03-- --PTR 04-- --PTR 05--
G D M c m s m s m s m s m s m s m s m s m s
e p a R g m m e . m m e . m m e . m m e . m m e . m m e . m m e . m m e . m m e .
n n k u 2 i a a d i a a d i a a d i a a d i a a d i a a d i a a d i a a d i a a d
2 d e n d n x n . n x n . n x n . n x n . n x n . n x n . n x n . n x n . n x n .
-------------------------------------------------------------------------------
Experiment: global_ocean.cs32x15/ ; extra_runs= icedyn seaice thsice viscA4
genmake ... successful
clean build-dir: make Clean ... successful
make depend ... successful
make ... Update AD_CONFIG.h and make ./mitgcmuv
ad_config.template AD_CONFIG.h differ: byte 153, line 4
make -f Makefile ./mitgcmuv
make[1]: Entering directory `/nfs01/n02/n02/ggjhtw/MITgcm/verification/global_ocean.cs32x15/build'
cat bulkf_ave.F | cpp -traditional -P -DWORDLENGTH=4 -DNML_EXTENDED_F77 -DALLOW_USE_MPI | /home/n02/n02/ggjhtw/MITgcm/tools/set64bitConst.sh > bulkf_ave.f
mpif77 -byteswapio -Ktrap=fp -pc=64 -O0 -Kieee -c bulkf_ave.f
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
clean run-dir ... successful
linkdata from dirs: input.icedyn input
ldir=input.icedyn: core_dwnLw_cs32.bin core_dwnSw_cs32.bin core_prec_1_cs32.bin core_q_air_cs32.bin core_rnof_1_cs32.bin core_snwP_1_cs32.bin core_t_Air_cs32.bin core_wndSpd_cs32.bin data data.cal data.diagnostics data.exf data.gmredi data.ice data.pkg data.seaice eedata.mth pickup.0000072000 pickup.0000072000.meta pickup_ic.0000072000 pickup_seaice.0000072000 pickup_seaice.0000072000.meta tr_checklist ;
ldir=input: bathy_cs32.bin bathy_Hmin50.bin data.mnc eedata lev_S_cs_15k.bin lev_surfS_cs_12m.bin lev_surfT_cs_12m.bin lev_T_cs_15k.bin mk_bathy4gcm.m prepare_run proj_cs32_2uEvN.bin rdwr_grid.m regMask_lat24.bin shiEmPR_cs32.bin shiQnet_cs32.bin trenberth_taux.bin trenberth_tauy.bin ; link files: grid_cs32.face001.bin grid_cs32.face002.bin grid_cs32.face003.bin grid_cs32.face004.bin grid_cs32.face005.bin grid_cs32.face006.bin from dir: ../../tutorial_held_suarez_cs/input
runmodel in global_ocean.cs32x15//tr_run.icedyn ... failed (run: 8 end: -1 )
=> output from running in global_ocean.cs32x15//tr_run.icedyn :
> no executable: mitgcmuv
clean run-dir ... successful
linkdata from dirs: input.seaice input
ldir=input.seaice: data data.cal data.diagnostics data.exf data.gmredi data.pkg data.seaice eedata eedata.mth prepare_run runoff_temperature.bin tr_checklist ; link files: core_dwnLw_cs32.bin core_dwnSw_cs32.bin core_prec_1_cs32.bin core_q_air_cs32.bin core_rnof_1_cs32.bin core_snwP_1_cs32.bin core_t_Air_cs32.bin core_wndSpd_cs32.bin pickup.0000072000 pickup.0000072000.meta pickup_ic.0000072000 pickup_seaice.0000072000 pickup_seaice.0000072000.meta from dir: ../input.icedyn
ldir=input: bathy_cs32.bin bathy_Hmin50.bin data.mnc lev_S_cs_15k.bin lev_surfS_cs_12m.bin lev_surfT_cs_12m.bin lev_T_cs_15k.bin mk_bathy4gcm.m proj_cs32_2uEvN.bin rdwr_grid.m regMask_lat24.bin shiEmPR_cs32.bin shiQnet_cs32.bin trenberth_taux.bin trenberth_tauy.bin ; link files: grid_cs32.face001.bin grid_cs32.face002.bin grid_cs32.face003.bin grid_cs32.face004.bin grid_cs32.face005.bin grid_cs32.face006.bin from dir: ../../tutorial_held_suarez_cs/input
runmodel in global_ocean.cs32x15//tr_run.seaice ... failed (run: 8 end: -1 )
=> output from running in global_ocean.cs32x15//tr_run.seaice :
> no executable: mitgcmuv
clean run-dir ... successful
linkdata from dirs: input.thsice input
ldir=input.thsice: check_OceConserve.m data data.blk data.diagnostics data.gmredi data.ice data.pkg eedata.mth ncep_downlw_cs.bin ncep_downsolar_cs.bin ncep_pr_scal_cs.bin ncep_qair_cs.bin ncep_tair_cs.bin ncep_windspeed_cs.bin pickup.0000036000 pickup.0000036000.meta pickup_ic.0000036000 tr_checklist ;
ldir=input: bathy_cs32.bin bathy_Hmin50.bin data.mnc eedata lev_S_cs_15k.bin lev_surfS_cs_12m.bin lev_surfT_cs_12m.bin lev_T_cs_15k.bin mk_bathy4gcm.m pickup.0000072000 pickup.0000072000.meta prepare_run proj_cs32_2uEvN.bin rdwr_grid.m regMask_lat24.bin shiEmPR_cs32.bin shiQnet_cs32.bin trenberth_taux.bin trenberth_tauy.bin ; link files: grid_cs32.face001.bin grid_cs32.face002.bin grid_cs32.face003.bin grid_cs32.face004.bin grid_cs32.face005.bin grid_cs32.face006.bin from dir: ../../tutorial_held_suarez_cs/input
runmodel in global_ocean.cs32x15//tr_run.thsice ... failed (run: 8 end: -1 )
=> output from running in global_ocean.cs32x15//tr_run.thsice :
> no executable: mitgcmuv
clean run-dir ... successful
linkdata from dirs: input.viscA4 input
ldir=input.viscA4: data data.gmredi data.pkg eedata.mth mk_nh_pick.m pickup.0000086400.meta pickup_nh.0000086400.gz prepare_run ; unzip files: pickup.0000086400
ldir=input: bathy_cs32.bin bathy_Hmin50.bin data.diagnostics data.mnc eedata lev_S_cs_15k.bin lev_surfS_cs_12m.bin lev_surfT_cs_12m.bin lev_T_cs_15k.bin mk_bathy4gcm.m pickup.0000072000 pickup.0000072000.meta proj_cs32_2uEvN.bin rdwr_grid.m regMask_lat24.bin shiEmPR_cs32.bin shiQnet_cs32.bin trenberth_taux.bin trenberth_tauy.bin ; link files: grid_cs32.face001.bin grid_cs32.face002.bin grid_cs32.face003.bin grid_cs32.face004.bin grid_cs32.face005.bin grid_cs32.face006.bin from dir: ../../tutorial_held_suarez_cs/input
runmodel in global_ocean.cs32x15//tr_run.viscA4 ... failed (run: 8 end: -1 )
=> output from running in global_ocean.cs32x15//tr_run.viscA4 :
> no executable: mitgcmuv
-------------------------------------------------------------------------------
No results email was sent.
Wed Oct 9 15:43:20 BST 2013
run: ./testreport -mpi -t global_ocean.cs32x15/
on : Linux hector-xe6-4 2.6.32.45-0.3.2_1.0400.6453-cray_gem_s #1 SMP Fri Aug 3 21:25:37 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux
No "OPTFILE" was specified ; genmake2 found and uses:
OPTFILE=/home/n02/n02/ggjhtw/MITgcm/tools/build_options/linux_amd64_pgf77
default 10 ----T----- ----S----- ----U----- ----V----- --PTR 01-- --PTR 02-- --PTR 03-- --PTR 04-- --PTR 05--
G D M c m s m s m s m s m s m s m s m s m s
e p a R g m m e . m m e . m m e . m m e . m m e . m m e . m m e . m m e . m m e .
n n k u 2 i a a d i a a d i a a d i a a d i a a d i a a d i a a d i a a d i a a d
2 d e n d n x n . n x n . n x n . n x n . n x n . n x n . n x n . n x n . n x n .
Y Y N N .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. . . . . . . . . N/O global_ocean.cs32x15/
Y Y N N .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. . . . . . . . . N/O global_ocean.cs32x15/.icedyn
Y Y N N .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. . . . . . . . . N/O global_ocean.cs32x15/.seaice
Y Y N N .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. . . . . . . . . N/O global_ocean.cs32x15/.thsice
Y Y N N .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. .. . . . . . . . . N/O global_ocean.cs32x15/.viscA4
Start time: Wed Oct 9 15:43:20 BST 2013
End time: Wed Oct 9 15:44:14 BST 2013
======== End of testreport execution ========
ggjhtw at hector-xe6-4:~/MITgcm/verification>
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