[Nek5000-users] Periodic BC & Genmap issue

Tue Jun 22 10:40:57 CDT 2010

Hi Michael,

not sure why gunzip didn't work - it worked here... but I've
put the unzipped version in:

   www.mcs.anl.gov/~fischer/genmap.f

Let me know if that works for you.

Cheers,

Paul

On Tue, 22 Jun 2010, nek5000-users at lists.mcs.anl.gov wrote:

> Paul,
>
> Yes I tried gzip and gunzip but it is telling me that it is not in a zipped format:
>
> gunzip genmap.f.gz
> gzip: genmap.f.gz: not in gzip format
>
> What do you mean by locale?
>
>
> ----- Original Message -----
> From: nek5000-users at lists.mcs.anl.gov
> To: nek5000-users at lists.mcs.anl.gov
> Sent: Tuesday, June 22, 2010 10:24:24 AM GMT -06:00 Guadalajara / Mexico City / Monterrey
> Subject: Re: [Nek5000-users] Periodic BC & Genmap issue
>
>
> did you
>
> gunzip genmap.f.gz
>
> ?
>
>
> On Tue, 22 Jun 2010, nek5000-users at lists.mcs.anl.gov wrote:
>
>> Paul,
>>
>> I am having trouble accessing the zipped file, when I try to decompress it tells me that it is not in gzip format. Perhaps try again, or another format?
>>
>> - Michael
>>
>> ----- Original Message -----
>> From: nek5000-users at lists.mcs.anl.gov
>> To: "Nekton User List" <nek5000-users at lists.mcs.anl.gov>
>> Sent: Tuesday, June 22, 2010 1:47:35 AM GMT -06:00 Guadalajara / Mexico City / Monterrey
>> Subject: Re: [Nek5000-users] Periodic BC & Genmap issue
>>
>>
>> Hi Michael,
>>
>> It looks like the issue is related to the mesh and to tolerances.
>> It appears to me that the periodic faces are not congruent - nearly
>> so, but not 100%.
>>
>> I've changed my version of genmap to make the tolerance in the
>> periodicity check reflect the user-prompted value. I'm not yet
>> commiting this to the repo because I need to think more about the
>> consequences. However, the attached code does work when you input
>> ".1" for the tolerance prompt - and it flags an error when you put
>> in .01 or smaller. Try diff'g this against your current version
>> to see the change.
>>
>> Paul
>>
>> PS - rather than attaching, I'm placing in
>> www.mcs.anl.gov/~fischer/genmap.f.gz
>>
>>
>> On Mon, 21 Jun 2010, nek5000-users at lists.mcs.anl.gov wrote:
>>
>>> Hi,
>>>
>>> I am running into an error when trying to use genmap. I believe it has to do with the periodic boundary conditions I have set up. I have checked the elements, and faces and indeed they are given correctly. This leads me to believe that there may be an issue with genmap. I have attached the rea file. This was to test the periodic faces for this geometry. The output is shown below, thanks for any help with this.
>>>
>>> - Michael M.
>>>
>>> Here is the output:
>>>
>>> test
>>> Input mesh tolerance (default 0.2):
>>> NOTE: smaller is better, but generous is more forgiving for bad meshes.
>>> .2
>>> reading .rea file data ...
>>> start locglob_lexico: 8 60 480 0.20000000000000001
>>> locglob: 1 1 480
>>> locglob: 2 27 480
>>> locglob: 3 42 480
>>> locglob: 1 168 480
>>> locglob: 2 168 480
>>> locglob: 3 168 480
>>> locglob: 1 168 480
>>> locglob: 2 168 480
>>> locglob: 3 168 480
>>> done locglob_lexico: 168 168 480 4
>>> start periodic vtx: 60 168
>>> 1 3 5 3 3.66325334E-04 1 shift
>>> 3 4 4 Matrix: x0
>>> 1 x0 1.7389E-03 2.8363E-03 2.8363E-03 1.7389E-03
>>> 2 x0 -6.9998E-02 7.0969E-02 6.9026E-02 -6.9998E-02
>>> 3 x0 2.0879E-02 2.0879E-02 -2.0937E-02 -2.0821E-02
>>> 4 x0 8.3935E-03 8.0685E-03 -2.4856E-02 8.3935E-03
>>> 1 4 4 Matrix: x1
>>> 1 x1 1.7389E-03 1.7389E-03 2.8351E-03 2.8351E-03
>>> 2 x1 -7.0107E-02 -7.0107E-02 6.8930E-02 7.1286E-02
>>> 3 x1 2.0876E-02 -2.0824E-02 -2.0927E-02 2.0876E-02
>>> 4 x1 8.3867E-03 8.3867E-03 -2.4834E-02 8.0608E-03
>>> 3 4 4 Matrix: z0
>>> 1 z0 1.7389E-03 2.8363E-03 2.8363E-03 1.7389E-03
>>> 2 z0 -1.2500E+00 -1.1090E+00 -1.1110E+00 -1.2500E+00
>>> 3 z0 0.0000E+00 0.0000E+00 -4.1816E-02 -4.1700E-02
>>> 4 z0 -5.0620E-01 -5.0653E-01 -5.3945E-01 -5.0620E-01
>>> 1 4 4 Matrix: z1
>>> 1 z1 1.7389E-03 1.7389E-03 2.8351E-03 2.8351E-03
>>> 2 z1 -1.2500E+00 -1.2500E+00 -1.1110E+00 -1.1086E+00
>>> 3 z1 0.0000E+00 -4.1700E-02 -4.1803E-02 0.0000E+00
>>> 4 z1 4.9380E-01 4.9380E-01 4.6058E-01 4.9347E-01
>>> 3 4 3 1.00000000E-03 7.09692500E-02 abort: FACE MATCH FAIL
>>> 1 3 5 7.09692500E-05 3.66325334E-04 abort: FACE MATCH FAIL
>>>
>>>
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