[Nek5000-users] Nek5000-users Digest, Vol 104, Issue 15
nek5000-users at lists.mcs.anl.gov
nek5000-users at lists.mcs.anl.gov
Wed Oct 18 09:44:46 CDT 2017
Hi Paul,
Even I used the 2d mesh in example directory with quad multi-split and
n2to3, there still some errors showing element mesh mismatch. I do think
things gonna changed since using genmap where there is always one or some
errors showing some elements were with shift. How can I do that?
......
......
......
WARNING2 Element mesh mismatch at:
I,J,K,IE: 8 7 8 175498
Near Y = 0.42311775 0.79128327 18.648600 , d:
0.48220174E-01 0.0000000 1.2026574
WARNING2 Element mesh mismatch at:
I,J,K,IE: 1 8 8 175499
Near Y = 0.40657800 0.75559000 18.648600 , d: 0.75191377
0.0000000 1.3234691
WARNING2 Element mesh mismatch at:
I,J,K,IE: 2 8 8 175499
Near Y = 0.41137682 0.75312483 18.648600 , d: 1.0321964
0.0000000 1.3234691
WARNING2 Element mesh mismatch at:
I,J,K,IE: 8 8 8 175500
Near Y = 0.40657800 0.75559000 18.648600 , d: 0.75191377
-0.33306691E-15 1.2647709
Mesh consistency check failed. EXITING in VRDSMSH.
call exitt: dying ...
backtrace(): obtained 8 stack frames.
./nek5000() [0x6aee70]
./nek5000() [0x877e12]
./nek5000() [0x461c1a]
./nek5000() [0x4082d1]
./nek5000() [0x406e19]
./nek5000() [0x4034be]
/lib64/libc.so.6(__libc_start_main+0xf5) [0x7fe817d58c05]
./nek5000() [0x4033c9]
Regards,
ZJ
On 18 October 2017 at 13:42, <nek5000-users-request at lists.mcs.anl.gov>
wrote:
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> Today's Topics:
>
> 1. pipe prenek (nek5000-users at lists.mcs.anl.gov)
> 2. Re: pipe prenek (nek5000-users at lists.mcs.anl.gov)
> 3. Element mesh mismatch in pipe (nek5000-users at lists.mcs.anl.gov)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Wed, 18 Oct 2017 10:48:38 +0100
> From: nek5000-users at lists.mcs.anl.gov
> To: nek5000-users at lists.mcs.anl.gov
> Subject: [Nek5000-users] pipe prenek
> Message-ID:
> <mailman.669.1508320120.19102.nek5000-users at lists.mcs.anl.gov>
> Content-Type: text/plain; charset="utf-8"
>
> Hi Nek,
>
> Is there anyone knows how to calculate the curvature in .rea file.
> Recently, I want to generate a pipe mesh but it doesn't seem like a pipe in
> which I guess there is something wrong in curvature part in .rea file. I
> have attached the mesh part below.
>
> **MESH DATA** 1st line is X of corner 1,2,3,4. 2nd line is Y.
> 12 2 12 NEL,NDIM,NELV
> ELEMENT 1 [ 1A] GROUP 0
> 0.000000 0.350000 0.250000 0.000000
> 0.000000 0.000000 0.250000 0.350000
> ELEMENT 2 [ 1B] GROUP 0
> 0.500000 0.353554 0.250000 0.350000
> 0.000000 0.353554 0.250000 0.000000
> ELEMENT 3 [ 1C] GROUP 0
> 0.000000 0.000000 0.250000 0.353554
> 0.500000 0.350000 0.250000 0.353554
> ELEMENT 4 [ 1A] GROUP 0
> 0.000000 0.000000 0.250000 0.350000
> 0.000000 -0.350000 -0.250000 0.000000
> ELEMENT 5 [ 1B] GROUP 0
> 0.000000 0.353554 0.250000 0.000000
> -0.500000 -0.353554 -0.250000 -0.350000
> ELEMENT 6 [ 1C] GROUP 0
> 0.500000 0.350000 0.250000 0.353554
> 0.000000 0.000000 -0.250000 -0.353554
> ELEMENT 7 [ 1A] GROUP 0
> 0.000000 -0.350000 -0.250000 0.000000
> 0.000000 0.000000 -0.250000 -0.350000
> ELEMENT 8 [ 1B] GROUP 0
> -0.500000 -0.353554 -0.250000 -0.350000
> 0.000000 -0.353554 -0.250000 0.000000
> ELEMENT 9 [ 1C] GROUP 0
> 0.000000 0.000000 -0.250000 -0.353554
> -0.500000 -0.350000 -0.250000 -0.353554
> ELEMENT 10 [ 1A] GROUP 0
> 0.000000 0.000000 -0.250000 -0.350000
> 0.000000 0.350000 0.250000 0.000000
> ELEMENT 11 [ 1B] GROUP 0
> 0.000000 -0.353554 -0.250000 0.000000
> 0.500000 0.353554 0.250000 0.350000
> ELEMENT 12 [ 1C] GROUP 0
> -0.500000 -0.350000 -0.250000 -0.353554
> 0.000000 0.000000 0.250000 0.353554
> ***** CURVED SIDE DATA *****
> 8 Curved sides follow IEDGE,IEL,CURVE(I),I=1,5, CCURVE
> 1 2 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 3 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 5 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 6 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 8 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 9 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 11 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 12 0.50000 0.00000 0.00000 0.00000 0.00000 C
>
>
> Kind regards,
>
> ZJ
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> ------------------------------
>
> Message: 2
> Date: Wed, 18 Oct 2017 12:18:45 +0000
> From: nek5000-users at lists.mcs.anl.gov
> To: "nek5000-users at lists.mcs.anl.gov"
> <nek5000-users at lists.mcs.anl.gov>
> Subject: Re: [Nek5000-users] pipe prenek
> Message-ID:
> <mailman.673.1508329131.19102.nek5000-users at lists.mcs.anl.gov>
> Content-Type: text/plain; charset="us-ascii"
>
>
> Dear ZJ,
>
>
> In order to parse the characters in the line, nek uses formatted reads for
>
> curve sides and for BC info.
>
>
> The format changes as the number of elements increases in order to
> accommodate the larger integers (i.e., the element number) in the same line,
>
> so you have to check either the reader source or prenek source or a valid
>
> .rea file to see what that formatting looks like.
>
>
> I've fixed your pipe mesh here. Note that there is a 2D pipe mesh (but
> with a different base template) in NekExamples/pipe/w2dcyl020a.rea
>
>
> Paul
>
>
> ________________________________
> From: Nek5000-users <nek5000-users-bounces at lists.mcs.anl.gov> on behalf
> of nek5000-users at lists.mcs.anl.gov <nek5000-users at lists.mcs.anl.gov>
> Sent: Wednesday, October 18, 2017 4:48:38 AM
> To: nek5000-users at lists.mcs.anl.gov
> Subject: [Nek5000-users] pipe prenek
>
> Hi Nek,
>
> Is there anyone knows how to calculate the curvature in .rea file.
> Recently, I want to generate a pipe mesh but it doesn't seem like a pipe in
> which I guess there is something wrong in curvature part in .rea file. I
> have attached the mesh part below.
>
> **MESH DATA** 1st line is X of corner 1,2,3,4. 2nd line is Y.
> 12 2 12 NEL,NDIM,NELV
> ELEMENT 1 [ 1A] GROUP 0
> 0.000000 0.350000 0.250000 0.000000
> 0.000000 0.000000 0.250000 0.350000
> ELEMENT 2 [ 1B] GROUP 0
> 0.500000 0.353554 0.250000 0.350000
> 0.000000 0.353554 0.250000 0.000000
> ELEMENT 3 [ 1C] GROUP 0
> 0.000000 0.000000 0.250000 0.353554
> 0.500000 0.350000 0.250000 0.353554
> ELEMENT 4 [ 1A] GROUP 0
> 0.000000 0.000000 0.250000 0.350000
> 0.000000 -0.350000 -0.250000 0.000000
> ELEMENT 5 [ 1B] GROUP 0
> 0.000000 0.353554 0.250000 0.000000
> -0.500000 -0.353554 -0.250000 -0.350000
> ELEMENT 6 [ 1C] GROUP 0
> 0.500000 0.350000 0.250000 0.353554
> 0.000000 0.000000 -0.250000 -0.353554
> ELEMENT 7 [ 1A] GROUP 0
> 0.000000 -0.350000 -0.250000 0.000000
> 0.000000 0.000000 -0.250000 -0.350000
> ELEMENT 8 [ 1B] GROUP 0
> -0.500000 -0.353554 -0.250000 -0.350000
> 0.000000 -0.353554 -0.250000 0.000000
> ELEMENT 9 [ 1C] GROUP 0
> 0.000000 0.000000 -0.250000 -0.353554
> -0.500000 -0.350000 -0.250000 -0.353554
> ELEMENT 10 [ 1A] GROUP 0
> 0.000000 0.000000 -0.250000 -0.350000
> 0.000000 0.350000 0.250000 0.000000
> ELEMENT 11 [ 1B] GROUP 0
> 0.000000 -0.353554 -0.250000 0.000000
> 0.500000 0.353554 0.250000 0.350000
> ELEMENT 12 [ 1C] GROUP 0
> -0.500000 -0.350000 -0.250000 -0.353554
> 0.000000 0.000000 0.250000 0.353554
> ***** CURVED SIDE DATA *****
> 8 Curved sides follow IEDGE,IEL,CURVE(I),I=1,5, CCURVE
> 1 2 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 3 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 5 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 6 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 8 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 9 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 1 11 0.50000 0.00000 0.00000 0.00000 0.00000 C
> 4 12 0.50000 0.00000 0.00000 0.00000 0.00000 C
>
>
> Kind regards,
>
> ZJ
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> ------------------------------
>
> Message: 3
> Date: Wed, 18 Oct 2017 13:42:25 +0100
> From: nek5000-users at lists.mcs.anl.gov
> To: nek5000-users at lists.mcs.anl.gov
> Subject: [Nek5000-users] Element mesh mismatch in pipe
> Message-ID:
> <mailman.674.1508330579.19102.nek5000-users at lists.mcs.anl.gov>
> Content-Type: text/plain; charset="utf-8"
>
> Hi Nek,
>
> Do you know what can I do for the pipe running. It was good before, but I
> dont know why it doesn't work now it shows the error below when using
> nekmpi. I re-genmap even re-generated the rea file which didn't work.
>
> I,J,K,IE: 8 7 8 172686
> Near Y = 0.44264699E-01 -0.45639873 9.3750000 , d: 0.0000000
> -0.45384730E-01 2.0779221
> WARNING2 Element mesh mismatch at:
> I,J,K,IE: 1 8 8 172687
> Near Y = 0.46328000E-01 -0.47523300 9.3750000 , d:
> 0.55511151E-16 -0.70769971 2.0187379
> WARNING2 Element mesh mismatch at:
> I,J,K,IE: 2 8 8 172687
> Near Y = 0.49283703E-01 -0.47473225 9.3750000 , d: 0.0000000
> -0.77340445 2.0187379
> WARNING2 Element mesh mismatch at:
> I,J,K,IE: 8 8 8 172688
> Near Y = 0.46328000E-01 -0.47523300 9.3750000 , d: 0.0000000
> -0.70769971 2.0000000
> Mesh consistency check failed. EXITING in VRDSMSH.
>
> call exitt: dying ...
>
> backtrace(): obtained 8 stack frames.
> ./nek5000() [0x6af030]
> ./nek5000() [0x877fa2]
> ./nek5000() [0x461c91]
> ./nek5000() [0x4082b1]
> ./nek5000() [0x406df9]
> ./nek5000() [0x4034be]
> /lib64/libc.so.6(__libc_start_main+0xf5) [0x7f23bb3adc05]
> ./nek5000() [0x4033c9]
>
>
> Kind regards,
>
> ZJ
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