[MITgcm-support] error while writing pickup files with Cray compilers

[Jody Klymak]

Hi Laura,

Are you sure the mitgcm can write to the directory it is trying to write to?  Does it *start* to write the pickup file?  

These are just dumb questions.  Maybe it truly is a compiler issue, but it seems more likely it is a configuration issue.   Obviously, for testing I’d suggest writing a pickup file well before 100 y has passed.

Good luck, 

Jody








> On 11 Apr 2017, at  11:21 AM, Laura Cimoli <laura.cimoli at physics.ox.ac.uk> wrote:
> 
> Hello Jody,
> 
> sorry I forgot to mention that all my other outputs are in netcdf format, and they look fine.
> The data file is attached.
> 
> Thanks, 
> Laura
> 
> From: Jody Klymak [jklymak at uvic.ca]
> Sent: 11 April 2017 19:01
> To: mitgcm-support at mitgcm.org
> Subject: Re: [MITgcm-support] error while writing pickup files with Cray compilers
> 
> Are you able to write any mds files?  i.e. did the T.000000000000.data file write?  Can you supply your `data` file?
> 
> Cheers,   Jody
> 
> 
>> On 11 Apr 2017, at  10:54 AM, Laura Cimoli <laura.cimoli at physics.ox.ac.uk <mailto:laura.cimoli at physics.ox.ac.uk>> wrote:
>> 
>> Hello,
>> 
>> this question is relevant mainly for Archer user, but of course any help is appreciated!
>> 
>> I have recently tried to use Cray instead of gnu compilers, since the model should run much faster according to what stated here <http://www.archer.ac.uk/community/eCSE/eCSE03-09/eCSE03-09_White_Paper.pdf>. I have to admit I have not read that report in detail, but I hope that there are not particular constraints on the use of Cray compilers on Archer.
>> 
>> I used the linux_ia64_cray_archer optfile, as indicated in the report.
>> 
>> At a first glance, the model is compiled without any odd warning, and seems to run without any problem, but it crashes when writing the pickup file. This is the message I got (the whole error file is attached):
>> 
>> lib-5058 : UNRECOVERABLE library error
>> A read system call read less data than expected.
>> 
>> Encountered during a direct access unformatted WRITE to unit 9
>> Fortran unit 9 is connected to a direct unformatted unblocked file:
>> "pickup.0001752000.data"
>> 
>> _pmiu_daemon(SIGCHLD): [NID 02940] [c7-1c0s15n0] [Tue Apr 11 08:49:37 2017] PE RANK 69 exit signal Aborted
>> [NID 02940] 2017-04-11 08:49:37 Apid 26123498: initiated application termination
>> 
>> 
>> I am writing the permanent pickup file, and I don't have any temporary pickup file.
>> 
>> The only weird warning I have noticed in the genmake.log file (attached) is below, but I don't know whether it is related to the problem reported above:
>> 
>> running: check_HAVE_SIGREG() 
>> cc -c genmake_tc_1.c 
>> CC-513 craycc: WARNING File = genmake_tc_1.c, Line = 22
>> A value of type "void *" cannot be assigned to an entity of type
>> "void (*)(int, siginfo_t *, void *)".
>> s.sa_sigaction = (void *)killhandler;
>> ^
>> Total warnings detected in genmake_tc_1.c: 1
>> program hello
>> integer anint
>> common /iv/ anint
>> external sigreg
>> call sigreg(anint)
>> end
>> ftn -o genmake_tc genmake_tc_2.f genmake_tc_1.o
>> --> set HAVE_SIGREG='t'
>> 
>> 
>> Does anyone know why the Cray compilers return this error while writing the output binary file?
>> 
>> Many thanks,
>> Laura
>> <genmake.log><output_000.e4441213>_______________________________________________
>> MITgcm-support mailing list
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> --
> Jody Klymak    
> http://web.uvic.ca/~jklymak/ <http://web.uvic.ca/~jklymak/>
> 
> 
> 
> 
> 
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--
Jody Klymak    
http://web.uvic.ca/~jklymak/





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