[Nek5000-users] prex question

Sun Nov 3 13:28:43 CST 2013

Hi Tubois,

11 SET ENTIRE LEVEL applies the next selected
boundary condition to any _remaining_ boundaries for which
BCs have yet to be defined.

In this case, that is just the BCs on the top and bottom
of the domain, since the inlet and outlet were prescribed
in the box file, while the sides were left blank.   The
cylinder itself inherits and retains its boundary conditions
from the "import.rea" file.

Does this clarify?

Best, Paul

----- Original Message -----
From: nek5000-users at lists.mcs.anl.gov
To: nek5000-users at lists.mcs.anl.gov
Sent: Sunday, November 3, 2013 11:35:36 AM
Subject: Re: [Nek5000-users] prex question

Hi Paul, 

Thank you very much! Just need a confirm about your mesh. 
11 SET ENTIRE LEVEL         
   1 PERIODIC-AUTO 
means to set the periodic boundary condition for the box except the inlet already set in fpcyl.box? 
n Is this a lattice for hex-close-packed spheres?: 
So the boundary condition for the circle will be set to walls automatically? 

Thank you! 

Tubois 

On Sun, Nov 3, 2013 at 5:46 PM, < nek5000-users at lists.mcs.anl.gov > wrote: 

Hi Tubois, 

I've just updated this example and have included a script that appears 
to work. 

I recommend moving your existing ext_cyl directory to, say, ext_cyl.1, 
and then svn update ext_cyl. 

Then, in the new ext_cyl directory you should be able to type: 

mkmesh 

The README file is also updated. Have a look at mkmesh and you 
can see the basic steps. 

Paul 

----- Original Message ----- 
From: nek5000-users at lists.mcs.anl.gov 
To: nek5000-users at lists.mcs.anl.gov 
Sent: Sunday, November 3, 2013 10:00:17 AM 
Subject: [Nek5000-users] prex question 

Hello everyone, 

1, I am trying to create the mesh of the example ext_cyl with genbox, and pretek. After consulting the email archives online, I almost got it works. The question lies on mesh-merging. I used pretex. The commands is listed as follows. 

I got a mesh ext_cyl.rea identical to the one in the example, when I visualized it with postx. However, when I use xxdiff to examine it, I found several differences. 
BOUNDARY CONDITIONS: 
FLUID BOUNDARY CONDITIONS: 
11 0.00000 0.00000 ..... 
For the file in the example, this line is 
P 11 1337.00 3.00000 ...... 

So which step did I missed? To set the BC in pretek? Can someone gives a detailed command lines? 

2, About creating the mesh, the wiki says that Nek5000 works with Moab Cubit, but this software is not free of charge. Is there any other free software for meshing? In the archive, I found the discussion about converting Gambit (we have Gambit in school) mesh to rea. The guy left an email address cmeador at tamu.edu , which is no more valid. 

Thank you very much! 

Best regards 

Tubois 
================================================================== 

Choose a Name for This session: 
ext_cyl 

Beginning Session ext_cyl 
1 READ PREVIOUS PARAMETERS 
2 TYPE IN NEW PARAMETERS 
3 CONJ. HEAT TRANSFER MERGE 
Choose item: 
1 
1 
Enter name of previous session 
box.rea 
1 BUILD FROM FILE 
2 BUILD INTERACTIVELY 
Choose item: 
1 
1 
Enter name of previous session 
(Default= box.rea ) 
I pressed ENTER 

Will Read Mesh and B.C. data from box.rea 
Reading Element 29 [ 1C] 
Reading Element 58 [ 1f] 
Reading Element 87 [ 1I] 
Reading Element 116 [ 1l] 
Reading Element 145 [ 1O] 
Reading Element 174 [ 1r] 
Reading Element 203 [ 1U] 
Reading Element 232 [ 1x] 
Reading Element 261 [ 1a] 
Reading Element 290 [ 1D] 
Reading Element 319 [ 1g] 
Reading Element 348 [ 1J] 
Reading Element 377 [ 1m] 
Reading Element 406 [ 1P] 
Reading Element 435 [ 1s] 
Reading Element 464 [ 1V] 
Reading Element 493 [ 1y] 
Reading Element 522 [ 1b] 
Reading Element 551 [ 1E] 
Reading Element 580 [ 1h] 
Reading Element 609 [ 1K] 
Reading Element 638 [ 1n] 
Reading Element 667 [ 1Q] 
Reading Element 696 [ 1t] 
Reading Element 725 [ 1W] 
Reading Element 754 [ 1z] 
Reading Element 783 [ 1c] 
Reading Element 812 [ 1F] 
Reading Element 841 [ 1i] 
Reading Element 870 [ 1L] 
Reading Element 899 [ 1o] 
Reading Element 928 [ 1R] 
Reading Element 957 [ 1u] 
Reading Element 986 [ 1X] 
Reading Element 1015 [ 1A] 
Reading Element 1044 [ 1d] 
Reading Element 1073 [ 1G] 
Reading Element 1102 [ 1j] 
Reading Element 1131 [ 1M] 
Reading Element 1160 [ 1p] 
Reading Element 1189 [ 1S] 
Reading Element 1218 [ 1v] 
Reading Element 1247 [ 1Y] 
Reading Element 1276 [ 1B] 
Reading Element 1305 [ 1e] 
Reading Element 1334 [ 1H] 
Reading Element 1363 [ 1k] 
Reading Element 1392 [ 1N] 
Reading Element 1421 [ 1q] 
Reading Element 1450 [ 1T] 
drwobjs: 0 
Showing only 90 elements of 1456 
*** BUILD MENU *** 
inside gencen 1456 F 4 
done gencen 1456 
1 END ELEMENTS 
2 MODIFY ELEMENT 
3 GLOBAL REFINE 
4 CURVE SIDES 
5 DELETE ELEMENT 
6 ZOOM 
7 SET GRID 
8 DEFINE OBJECT 
9 REDRAW MESH 
10 IMPORT MESH 
11 IMPORT VTK MESH 
12 IMPORT vtx MESH 
13 REFLECT MESH 
Choose item: 
10 

10 
input name of new .rea file 
import.rea 

Would you like to displace existing elements in box? 
y 

Found 80 curve sides. 
IFLD: 1 1 T F 
***** FLUID BOUNDARY CONDITIONS ***** 
***** FLUID BOUNDARY CONDITIONS *****$ 
This is nel,ncurve old: 1456 0 
This is nel,ncurve new: 1536 80 
inside gencen 1536 F 4 
done gencen 1536 
X min/max of new elements: -1.200000 1.200001 
Y min/max of new elements: -1.200000 1.200000 
NO KEEP: 514 F -1.0500000 -1.0500000 0.0000000 
NO KEEP: 515 F -0.75000000 -1.0500000 0.0000000 
NO KEEP: 516 F -0.45000002 -1.0500000 0.0000000 
NO KEEP: 517 F -0.15000001 -1.0500000 0.0000000 
NO KEEP: 518 F 0.15000001 -1.0500000 0.0000000 
NO KEEP: 519 F 0.45000002 -1.0500000 0.0000000 
NO KEEP: 520 F 0.75000000 -1.0500000 0.0000000 
NO KEEP: 521 F 1.0500000 -1.0500000 0.0000000 
NO KEEP: 570 F -1.0500000 -0.75000000 0.0000000 
NO KEEP: 571 F -0.75000000 -0.75000000 0.0000000 
NO KEEP: 572 F -0.45000002 -0.75000000 0.0000000 
NO KEEP: 573 F -0.15000001 -0.75000000 0.0000000 
NO KEEP: 574 F 0.15000001 -0.75000000 0.0000000 
NO KEEP: 575 F 0.45000002 -0.75000000 0.0000000 
NO KEEP: 576 F 0.75000000 -0.75000000 0.0000000 
NO KEEP: 577 F 1.0500000 -0.75000000 0.0000000 
NO KEEP: 626 F -1.0500000 -0.45000002 0.0000000 
NO KEEP: 627 F -0.75000000 -0.45000002 0.0000000 
NO KEEP: 628 F -0.45000002 -0.45000002 0.0000000 
NO KEEP: 629 F -0.15000001 -0.45000002 0.0000000 
NO KEEP: 630 F 0.15000001 -0.45000002 0.0000000 
NO KEEP: 631 F 0.45000002 -0.45000002 0.0000000 
NO KEEP: 632 F 0.75000000 -0.45000002 0.0000000 
NO KEEP: 633 F 1.0500000 -0.45000002 0.0000000 
NO KEEP: 682 F -1.0500000 -0.15000001 0.0000000 
NO KEEP: 683 F -0.75000000 -0.15000001 0.0000000 
NO KEEP: 684 F -0.45000002 -0.15000001 0.0000000 
NO KEEP: 685 F -0.15000001 -0.15000001 0.0000000 
NO KEEP: 686 F 0.15000001 -0.15000001 0.0000000 
NO KEEP: 687 F 0.45000002 -0.15000001 0.0000000 
NO KEEP: 688 F 0.75000000 -0.15000001 0.0000000 
NO KEEP: 689 F 1.0500000 -0.15000001 0.0000000 
NO KEEP: 738 F -1.0500000 0.15000001 0.0000000 
NO KEEP: 739 F -0.75000000 0.15000001 0.0000000 
NO KEEP: 740 F -0.45000002 0.15000001 0.0000000 
NO KEEP: 741 F -0.15000001 0.15000001 0.0000000 
NO KEEP: 742 F 0.15000001 0.15000001 0.0000000 
NO KEEP: 743 F 0.45000002 0.15000001 0.0000000 
NO KEEP: 744 F 0.75000000 0.15000001 0.0000000 
NO KEEP: 745 F 1.0500000 0.15000001 0.0000000 
NO KEEP: 794 F -1.0500000 0.45000002 0.0000000 
NO KEEP: 795 F -0.75000000 0.45000002 0.0000000 
NO KEEP: 796 F -0.45000002 0.45000002 0.0000000 
NO KEEP: 797 F -0.15000001 0.45000002 0.0000000 
NO KEEP: 798 F 0.15000001 0.45000002 0.0000000 
NO KEEP: 799 F 0.45000002 0.45000002 0.0000000 
NO KEEP: 800 F 0.75000000 0.45000002 0.0000000 
NO KEEP: 801 F 1.0500000 0.45000002 0.0000000 
NO KEEP: 850 F -1.0500000 0.75000000 0.0000000 
NO KEEP: 851 F -0.75000000 0.75000000 0.0000000 
NO KEEP: 852 F -0.45000002 0.75000000 0.0000000 
NO KEEP: 853 F -0.15000001 0.75000000 0.0000000 
NO KEEP: 854 F 0.15000001 0.75000000 0.0000000 
NO KEEP: 855 F 0.45000002 0.75000000 0.0000000 
NO KEEP: 856 F 0.75000000 0.75000000 0.0000000 
NO KEEP: 857 F 1.0500000 0.75000000 0.0000000 
NO KEEP: 906 F -1.0500000 1.0500000 0.0000000 
NO KEEP: 907 F -0.75000000 1.0500000 0.0000000 
NO KEEP: 908 F -0.45000002 1.0500000 0.0000000 
NO KEEP: 909 F -0.15000001 1.0500000 0.0000000 
NO KEEP: 910 F 0.15000001 1.0500000 0.0000000 
NO KEEP: 911 F 0.45000002 1.0500000 0.0000000 
NO KEEP: 912 F 0.75000000 1.0500000 0.0000000 
NO KEEP: 913 F 1.0500000 1.0500000 0.0000000 
Deleting element 514 of 1536. 
Deleting element 515 of 1536. 
Deleting element 516 of 1536. 
Deleting element 517 of 1536. 
Deleting element 518 of 1536. 
Deleting element 519 of 1536. 
Deleting element 520 of 1536. 
Deleting element 521 of 1536. 
Deleting element 570 of 1536. 
Deleting element 571 of 1536. 
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Deleting element 573 of 1536. 
Deleting element 574 of 1536. 
Deleting element 575 of 1536. 
Deleting element 576 of 1536. 
Deleting element 577 of 1536. 
Deleting element 626 of 1536. 
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Deleting element 628 of 1536. 
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Deleting element 630 of 1536. 
Deleting element 631 of 1536. 
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Deleting element 688 of 1536. 
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Deleting element 910 of 1536. 
Deleting element 911 of 1536. 
Deleting element 912 of 1536. 
Deleting element 913 of 1536. 
drwobjs: 0 
Showing only 90 elements of 1472 
drwobjs: 0 
inside gencen 1472 F 4 
done gencen 1472 
1 END ELEMENTS 
2 MODIFY ELEMENT 
3 GLOBAL REFINE 
4 CURVE SIDES 
5 DELETE ELEMENT 
6 ZOOM 
7 SET GRID 
8 DEFINE OBJECT 
9 REDRAW MESH 
10 IMPORT MESH 
11 IMPORT VTK MESH 
12 IMPORT vtx MESH 
13 REFLECT MESH 
Choose item: 
1 

1 
1 ACCEPT MATL,QVOL 
2 SELECT ELEMENT 
3 SELECT MATL [ 0] 
4 SET MATL PROPS,Q 
5 SHOW MATL PROPS,Q 
Choose it 

1 
1 
start locglob_lexico: 4 1472 5888 1.99999996E-02 
locglob: 1 1 5888 
locglob: 2 81 5888 
locglob: 1 1562 5888 
locglob: 2 1562 5888 
Performing unique_vertex2 self_chk 5888 
done locglob_lexico: 1562 1562 5888 5 
Performing makecell self_chk 5888 

*** MIDWAY BREAK MENU *** 
ABORT to write build data to file and exit 
SET B.C'S to continue 
1 SET BCs 
2 ABORT 
Choose item: 

2 
Generating Mesh Points for 1472 Elements 
1472 this is nel in prexit 
Writing Parameters to file 
Deleting tmp.* files. 
Exiting session 4.59163468E-41 

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