[Nek5000-users] Error when running the vortex problem

Tue Oct 11 14:50:17 CDT 2011

Hi Dong,

which fortran compiler are you using ? (also, which C compiler?)

Paul

On Tue, 11 Oct 2011, nek5000-users at lists.mcs.anl.gov wrote:

>
> PS --
>
> It should look like
>
>
>
> gs_setup: 0 unique labels shared
> done :: setup h1 coarse grid   6.9365978240966797E-002 sec
>
> call usrdat3
> done :: usrdat3
>
> set initial conditions
> Checking restart options: r1492_n08.fld27 time=0.
> Reading checkpoint data
> byte swap: F   6.543210     -2.9312772E+35
> Read mode:    4.000000000000000 neltr,nxr,nyr,nzr:      140   8   8   8
>
>  Restarting from file r1492_n08.fld27
>  Columns for restart data U,V,W,P,T,S,N:    0   2   3   4   0   0   4
> Reading           1
>  Successfully read data from dump number  1.
>
>
>
>
> On Tue, 11 Oct 2011, nek5000-users at lists.mcs.anl.gov wrote:
>
>> Hi, Paul.
>> Thanks for the reply.
>> Yeah. I was compiling the code in the examples/vortex directory. The 
>> difference is that it is the file "r1854a.usr" included, not "r1854.usr". 
>> But, even in the file "r1854a.usr", the "param(66)=4" is already well set.
>> I am still trying to figure out why my run follows a different file format. 
>> Your further suggestion is very welcome.
>> 
>> BTW, my platform is Linux/gnu.
>> 
>> Thanks.
>> -Dong
>> 
>> 
>> 
>> -----Original Message-----
>> From: nek5000-users-bounces at lists.mcs.anl.gov 
>> [mailto:nek5000-users-bounces at lists.mcs.anl.gov] On Behalf Of 
>> nek5000-users at lists.mcs.anl.gov
>> Sent: Tuesday, October 11, 2011 3:03 PM
>> To: nek5000-users at lists.mcs.anl.gov
>> Subject: Re: [Nek5000-users] Error when running the vortex problem
>> 
>> 
>> 
>> Hi Dong,
>> 
>> For some reason, your run is traversing the .f00000 file format
>> branch, rather than the .fld input branch.
>> 
>> This traversal is generally controlled by setting
>> param(66)=4 (for .fld) in usrdat2 (or usrdat) in the .usr file.
>> 
>> I'm wondering if you are compiling with r1854.usr provided in
>> the examples/vortex directory?
>> 
>> Paul
>> 
>> On Tue, 11 Oct 2011, nek5000-users at lists.mcs.anl.gov wrote:
>> 
>>> 
>>> Hi Dong,
>>> 
>>> What kind of platform are you running on?
>>> 
>>> Can you do an svn update in the example directory, just in case
>>> the file was contaminated on transfer?
>>> 
>>> Paul
>>> 
>>> On Tue, 11 Oct 2011, nek5000-users at lists.mcs.anl.gov wrote:
>>> 
>>>> Hi, Stefan.
>>>> Sure. Attached is the log file.
>>>> 
>>>> -Dong
>>>> 
>>>> -----Original Message-----
>>>> From: nek5000-users-bounces at lists.mcs.anl.gov
>>>> [mailto:nek5000-users-bounces at lists.mcs.anl.gov] On Behalf Of
>>>> nek5000-users at lists.mcs.anl.gov
>>>> Sent: Tuesday, October 11, 2011 2:15 PM
>>>> To: nek5000-users at lists.mcs.anl.gov
>>>> Subject: Re: [Nek5000-users] Error when running the vortex problem
>>>> 
>>>> Please post a full log file. Note the file size is limited to 100KB.
>>>> -Stefan
>>>> 
>>>> On 10/11/11, S K <stgeke at googlemail.com> wrote:
>>>>> Hi Dong,
>>>>> 
>>>>> It works for me. Did you change anything?
>>>>> 
>>>>> -Stefan
>>>>> 
>>>>> On 10/11/11, nek5000-users at lists.mcs.anl.gov
>>>>> <nek5000-users at lists.mcs.anl.gov> wrote:
>>>>>> Hi,
>>>>>> I was trying to run nek5000 with vortex, following the default user
>>>>>> setting.
>>>>>> There is no problem for building, however when I start to run the
>>>>>> application, there is an error "NONSTD HDR, parse_hdr, abort". The
>>>>>> following
>>>>>> is the related error report.
>>>>>> 
>>>>>> Reading checkpoint data
>>>>>>        0       0 OPEN: r1492_n08.fld27
>>>>>> byte swap: T   0.000000       0.000000
>>>>>> 140   8   8   8 5.0101000E+0250101 U P                             4
>>>>>> NELT,NX,N
>>>>>> ÃºaÃ@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@
>>>>>>
>>>>>>                           NONSTD HDR, parse_hdr, abort.
>>>>>> 
>>>>>> I briefly read the code. It looks like the code is reading the 
>>>>>> checkpoint
>>>>>> file "r1492_n08.fld27" and there is something wrong with the file 
>>>>>> header.
>>>>>> The file header does not follow the standard format and the code cannot
>>>>>> understand the file.
>>>>>> 
>>>>>> How can I solve this problem?
>>>>>> 
>>>>>> Thank you.
>>>>>> 
>>>>>> -Dong
>>>>>> 
>>>>> 
>>>> _______________________________________________
>>>> Nek5000-users mailing list
>>>> Nek5000-users at lists.mcs.anl.gov
>>>> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
>>> 
>> 
>> 
>> On Tue, 11 Oct 2011, nek5000-users at lists.mcs.anl.gov wrote:
>> 
>>> Hi, Stefan.
>>> Sure. Attached is the log file.
>>> 
>>> -Dong
>>> 
>>> -----Original Message-----
>>> From: nek5000-users-bounces at lists.mcs.anl.gov 
>>> [mailto:nek5000-users-bounces at lists.mcs.anl.gov] On Behalf Of 
>>> nek5000-users at lists.mcs.anl.gov
>>> Sent: Tuesday, October 11, 2011 2:15 PM
>>> To: nek5000-users at lists.mcs.anl.gov
>>> Subject: Re: [Nek5000-users] Error when running the vortex problem
>>> 
>>> Please post a full log file. Note the file size is limited to 100KB.
>>> -Stefan
>>> 
>>> On 10/11/11, S K <stgeke at googlemail.com> wrote:
>>>> Hi Dong,
>>>> 
>>>> It works for me. Did you change anything?
>>>> 
>>>> -Stefan
>>>> 
>>>> On 10/11/11, nek5000-users at lists.mcs.anl.gov
>>>> <nek5000-users at lists.mcs.anl.gov> wrote:
>>>>> Hi,
>>>>> I was trying to run nek5000 with vortex, following the default user
>>>>> setting.
>>>>> There is no problem for building, however when I start to run the
>>>>> application, there is an error "NONSTD HDR, parse_hdr, abort". The
>>>>> following
>>>>> is the related error report.
>>>>> 
>>>>> Reading checkpoint data
>>>>>        0       0 OPEN: r1492_n08.fld27
>>>>> byte swap: T   0.000000       0.000000
>>>>> 140   8   8   8 5.0101000E+0250101 U P                             4
>>>>> NELT,NX,N
>>>>> ÃºaÃ@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@@^@^@^@^@^@^@^@^@^@^@^@^@^@^@^@
>>>>>
>>>>>                           NONSTD HDR, parse_hdr, abort.
>>>>> 
>>>>> I briefly read the code. It looks like the code is reading the 
>>>>> checkpoint
>>>>> file "r1492_n08.fld27" and there is something wrong with the file 
>>>>> header.
>>>>> The file header does not follow the standard format and the code cannot
>>>>> understand the file.
>>>>> 
>>>>> How can I solve this problem?
>>>>> 
>>>>> Thank you.
>>>>> 
>>>>> -Dong
>>>>> 
>>>> 
>>> _______________________________________________
>>> Nek5000-users mailing list
>>> Nek5000-users at lists.mcs.anl.gov
>>> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
>>> 
>> _______________________________________________
>> Nek5000-users mailing list
>> Nek5000-users at lists.mcs.anl.gov
>> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
>