October 2010 - Nek5000-users - mailman3.cels.anl.gov

Extrude an axisymmetric flow onto a fully thee-dimensional mesh
by nek5000-users＠lists.mcs.anl.gov 15 Oct '10

15 Oct '10

Hi Nek's :-) , I have computed an axisymmetric flow using the IFAXIS option in Nek. I would like now to extrude / reconstruct it onto a fully three-dimensional mesh to perform another calculation using it as a base flow. Is there any routine already existing enabling me to do so? If not, a few hints on how I should do it would be highly appreciated :-) Best regards, JC

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problem with DNS of heat transfer in a channel
by nek5000-users＠lists.mcs.anl.gov 12 Oct '10

12 Oct '10

Hello, Paul, Thank you for your answer for the same problem last month. But I still could not figure out this issue. (Domain:6.4/2.0/3.2, Resolution: 12*8*12 elements with 8th order, turbulent Re_tau=178.12, Pr=0.71) , piece of my *.rea file ***************************************************************************** 1.00000 DENSITY -178.12 Re_b 0.000000E+00 BETAG 0.00000 GTHETA 0.000000E+00 PGRADX 0.000000E+00 FLOWRATE 1.0 RHOCP -126.47 CONDUCT ***************************************************************************** my *usr file ***************************************************************************** subroutine userq (ix,iy,iz,ieg) include 'SIZE' include 'TOTAL' include 'NEKUSE' ie = gllel(ieg) qvol = vx(ix,iy,iz,ie)/15.771 source = 0.0 return end ***************************************************************************** Here 15.71 is averaged mean velocity over channel section. After a long time running (dimensionless time > 350 ) I compared the result , the velocity profile looks good. But the temperature is much higher than Kasagi's result. I'm wondering whether the parameters above are correct ? I attached the plot of mean velocity and mean temperature. Thank you again -- Zhicheng Wang

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Reminder - please register for the First Nek5000 Workshop ASAP!
by nek5000-users＠lists.mcs.anl.gov 12 Oct '10

12 Oct '10

Dear Nek5000 Users: We are pleased to invite you to attend the first Nek5000 Workshop, to be held at Argonne National Laboratory on December 9th and 10th, 2010. The intent is to bring developers and users of Nek5000 together to promote collaborative activities, exchange information, and share experiences in areas of common interest. The schedule is under development, but we are currently planning to have technical sessions on both days, December 9th and December 10th, including hands-on sessions in the use of Nek5000, VisIt, and Cubit. One objective of the workshop is to assist users in defining their simulation problems and to address technical issues that they may face. Attendees are invited to contribute short (15 min.) presentations on their applications of Nek5000. Contributions should consist of an abstract (1-2 pages) and presentation slides. Please note that, as this is the first users meeting, we are uncertain of anticipated interest and may, therefore, cancel the meeting if we do not meet a critical attendance limit. It is imperative that you register by the deadline if you plan to attend, so that suitable arrangements can be made at Argonne National Laboratory. REGISTRATION DEADLINE: October 15, 2010 Please fill out the information in the link listed below. This information will be used for procurement of a gate pass and as your RSVP for the workshop. www.cels.anl.gov/about/visitor_registration.php please type Paul Fischer in the "Who is hosting your visit" and chose Mary Dzielski, as the "Administrative Contact" Recommendation for hotel accommodations: Argonne's Guest House: $70 + tax, 1-800-632-8990 http://www.anlgh.org Helpful link for visiting Argonne: http://www.anl.gov/Administration/visit.html Any questions regarding travel arrangements, please contact Mary Dzielski (dzielski(a)mcs.anl.gov) Questions regarding the workshop, please contact Paul Fischer (fischer(a)mcs.anl.gov) or Stefan Kerkemeier (stefanke(a)mcs.anl.gov) We look forward to your attendance! Sincerely, Nek5000 Development Team

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Re: [Nek5000-users] Planar averaging in 2D
by nek5000-users＠lists.mcs.anl.gov 08 Oct '10

08 Oct '10

Hi David, The attached routine was written for planar averaging in y -- Have a look - it should in principle work in 2D as well. Note that it's not been tested in 2D or 3D as far as I know. I wrote it for someone a week or two ago (with the same caveat). Am posting to the user list in case someone knows if this is working or has been tested/fixed. Paul On Fri, 8 Oct 2010, Aleksandr Obabko wrote: > Hi David, > > You are correct -- planar_avarge_z has to be modified. I'm finishing the > report today so after it I can make a pass at the routine. > > Best, > Aleks > > > On Fri, 8 Oct 2010, David Goluskin wrote: > >> Hi Aleks, >> >> A few months ago, you told me how to get horizontally averaged temperature >> profiles using the planar_average_z routine. To get horizontal averages >> for >> a 2D run, I am guessing I need to either modify the planar averaging >> routine >> or change the vertical coordinate form y to z, which I don`t know how to >> do. What do you suggest? >> >> Thank you, >> >> David >> >

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Hpts Routine Not outputting data
by nek5000-users＠lists.mcs.anl.gov 04 Oct '10

04 Oct '10

Hi, I recently was having trouble with the hpts routine. It was giving me NanQ for all points at all steps, this was on repo 548. I was able to get it to work before, but moved my case to another computer and this was the result. I tried updating to the latest repo (568), but now nothing is dumped to hpts.out, not even the header. - Michael

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Re: [Nek5000-users] Compiling issue, waiting for unfinished jobs...??
by nek5000-users＠lists.mcs.anl.gov 04 Oct '10

04 Oct '10

Hi Stefan, Paul, Yes I was able to resolve the issue; I didn't realize my disk space was full and received the error message around the time I did something else I thought caused it. Thanks for looking at it though. - Michael ----- Original Message ----- From: nek5000-users(a)lists.mcs.anl.gov To: nek5000-users(a)lists.mcs.anl.gov Sent: Monday, October 4, 2010 7:24:50 AM GMT -06:00 US/Canada Central Subject: Re: [Nek5000-users] Compiling issue, waiting for unfinished jobs...?? Michael: It looks like the compiler cannot write some temporary files to the disk. I am pretty sure this problem is unrelated to Nek and you system has somehow a problem. -Stefan ----- Original Message ----- From: nek5000-users(a)lists.mcs.anl.gov To: Nekton User List <nek5000-users(a)lists.mcs.anl.gov> Sent: Mon, 4 Oct 2010 02:16:08 -0600 (GMT-06:00) Subject: Re: [Nek5000-users] Compiling issue, waiting for unfinished jobs...?? Hi Michael, Can you compile any other code w/ the same procedure? Paul On Mon, 4 Oct 2010, nek5000-users(a)lists.mcs.anl.gov wrote: > > > > Hi, > > > > I can't get a run to compile, both with an old repo and the latest repo . I get the following error message during the compling : It says something about waiting for unfinished jobs, and the a code generation return code. I don't know what it is talking about, but I have tried everything I know of and it still won't compile. I did quit a previous run using echo -1 which failed to fully write the f file, and this issue occurred right after, I don't know if this is related or not. As anyone had this problem before or know how to solve it? I was able to get this case to run but now it is telling me this and I am stumped. This is the portion of the compile log where the error occurs and it quits. > > > > - Michael > > > > 1586-444 (U) An error occurred while writing to file "/scratch/cmm7686/ tmp /ipaD2JMab". > 1501-511 Compilation failed for file mvmesh .f. > gmake : *** [obj/ mvmesh .o] Error 1 > gmake : *** Waiting for unfinished jobs.... > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > 1586-444 (U) An error occurred while writing to file "/scratch/cmm7686/ tmp / ipaNHnCUa ". > 1501-511 Compilation failed for file ssolv .f. > gmake : *** [obj/ ssolv .o] Error 1 > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-016 (W) WARNING: Compiler problem occurred while compiling uzawa : Cannot exceed the user or group quota.. > "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-034 (S) Cannot create object file. > 1586-346 (U) An error occurred during code generation. The code generation return code was 1. > 1501-511 Compilation failed for file navier1.f. > gmake : *** [obj/navier1.o] Error 1 > -bash-3.00$ > _______________________________________________ Nek5000-users mailing list Nek5000-users(a)lists.mcs.anl.gov https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users

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Compiling issue, waiting for unfinished jobs...??
by nek5000-users＠lists.mcs.anl.gov 04 Oct '10

04 Oct '10

Hi, I can't get a run to compile, both with an old repo and the latest repo . I get the following error message during the compling : It says something about waiting for unfinished jobs, and the a code generation return code. I don't know what it is talking about, but I have tried everything I know of and it still won't compile. I did quit a previous run using echo -1 which failed to fully write the f file, and this issue occurred right after, I don't know if this is related or not. As anyone had this problem before or know how to solve it? I was able to get this case to run but now it is telling me this and I am stumped. This is the portion of the compile log where the error occurs and it quits. - Michael 1586-444 (U) An error occurred while writing to file "/scratch/cmm7686/ tmp /ipaD2JMab". 1501-511 Compilation failed for file mvmesh .f. gmake : *** [obj/ mvmesh .o] Error 1 gmake : *** Waiting for unfinished jobs.... "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. 1586-444 (U) An error occurred while writing to file "/scratch/cmm7686/ tmp / ipaNHnCUa ". 1501-511 Compilation failed for file ssolv .f. gmake : *** [obj/ ssolv .o] Error 1 "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-036 (I) The NOSTRICT option (default at OPT(3)) has the potential to alter the semantics of a program. Please refer to documentation on the STRICT/ NOSTRICT option for more information. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-016 (W) WARNING: Compiler problem occurred while compiling uzawa : Cannot exceed the user or group quota.. "/home/cmm7686/nek5_548/trunk/ nek /navier1.f", 1500-034 (S) Cannot create object file. 1586-346 (U) An error occurred during code generation. The code generation return code was 1. 1501-511 Compilation failed for file navier1.f. gmake : *** [obj/navier1.o] Error 1 -bash-3.00$

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