Hi Neks, I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file. Here, I wrote the data into four files (see further below). I also attach the visit script !-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo !-------No pressure field, no scalar output ifpo=.false. ifto=.false. call outpost2( uzt,epst,epsv,pr,t,0,'eps') ifpo=.true. ifto=.true. !-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1 !-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000 !-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally. Shortly thereafter, the following occured... The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost". My questions: Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked. Thanks in advance, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. M�r 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Hi Paul, how can I set up the single precision output? best regards, Joerg.
Hi Joerg,
Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this.
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
It looks like setting p63=0 should take care of that... Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output? best regards, Joerg.
Hi Joerg,
Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this.
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
p63 is set to zero and it still does not work Joerg Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Hi Joerg, Did you try Justin's suggestion of looking at your header? It probably already is 32-bit ? (This would normally be the case.) Perhaps the output data is corrupted, e.g., nans or whatever...? Paul ----- Original Message ----- From: [email protected] To: [email protected] Sent: Wednesday, March 20, 2013 10:03:10 AM Subject: Re: [Nek5000-users] trouble with visit p63 is set to zero and it still does not work Joerg Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Hi Paul, I didn't understand what Justin meant. The first line in all output files looks like this: #std 4 12 12 12 64000 256000 .2165378385933E+03 5000 2 4 XU Thanks Joerg.
Hi Joerg,
Did you try Justin's suggestion of looking at your header? It probably already is 32-bit ? (This would normally be the case.)
Perhaps the output data is corrupted, e.g., nans or whatever...?
Paul
----- Original Message ----- From: [email protected] To: [email protected] Sent: Wednesday, March 20, 2013 10:03:10 AM Subject: Re: [Nek5000-users] trouble with visit
p63 is set to zero and it still does not work
Joerg
Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users _______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Hi Joerg, The first " 4 " indicates that the data is output in 4-byte (32-bit) format. My guess is that there might be a problem with the raw data in the fields that are being written. For example, what is the sign of epst() ? Is it guaranteed to be positive ? do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
I didn't understand what Justin meant. The first line in all output files looks like this: #std 4 12 12 12 64000 256000 .2165378385933E+03 5000 2 4 XU Thanks Joerg.
Hi Joerg,
Did you try Justin's suggestion of looking at your header? It probably already is 32-bit ? (This would normally be the case.)
Perhaps the output data is corrupted, e.g., nans or whatever...?
Paul
----- Original Message ----- From: [email protected] To: [email protected] Sent: Wednesday, March 20, 2013 10:03:10 AM Subject: Re: [Nek5000-users] trouble with visit
p63 is set to zero and it still does not work
Joerg
Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users _______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
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Hi Paul, I will check. The same worked for smaller grids. epst and epsv are positive definite. It is probably a visit problem. Best regards, Joerg. Am 20.03.2013 um 16:49 schrieb [email protected]:
Hi Joerg,
The first " 4 " indicates that the data is output in 4-byte (32-bit) format.
My guess is that there might be a problem with the raw data in the fields that are being written. For example, what is the sign of epst() ? Is it guaranteed to be positive ?
do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
I didn't understand what Justin meant. The first line in all output files looks like this:
#std 4 12 12 12 64000 256000 .2165378385933E+03 5000 2 4 XU
Thanks Joerg.
Hi Joerg, Did you try Justin's suggestion of looking at your header? It probably already is 32-bit ? Â (This would normally be the case.) Perhaps the output data is corrupted, e.g., nans or whatever...? Paul ----- Original Message ----- From: [email protected] To: [email protected] Sent: Wednesday, March 20, 2013 10:03:10 AM Subject: Re: [Nek5000-users] trouble with visit p63 is set to zero and it still does not work Joerg Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit  script
!-------usr file-------------------------------------------------    tiny=1.e-16    do i=1,n     epst(i)=log(epst(i)+tiny)     epsv(i)=log(epsv(i)+tiny)    enddo
!-------No pressure field, no scalar output    ifpo=.false.    ifto=.false.
   call outpost2( uzt,epst,epsv,pr,t,0,'eps')
   ifpo=.true.    ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux     87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users _______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
_______________________________________________ Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users____________________... Nek5000-users mailing list [email protected] https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
Just wondering what this reader is doing when you have the same extension .00001 for all four files..would f%05d still work? I imagine , at least, that it will have problem looping over your files filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1 Ammar On Mar 20, 2013, at 10:58 AM, [email protected] wrote:
Hi Paul,
I will check. The same worked for smaller grids. epst and epsv are positive definite. It is probably a visit problem.
Best regards, Joerg.
Am 20.03.2013 um 16:49 schrieb [email protected]:
Hi Joerg,
The first " 4 " indicates that the data is output in 4-byte (32-bit) format.
My guess is that there might be a problem with the raw data in the fields that are being written. For example, what is the sign of epst() ? Is it guaranteed to be positive ?
do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
I didn't understand what Justin meant. The first line in all output files looks like this:
#std 4 12 12 12 64000 256000 .2165378385933E+03 5000 2 4 XU
Thanks Joerg.
Hi Joerg, Did you try Justin's suggestion of looking at your header? It probably already is 32-bit ? Â (This would normally be the case.) Perhaps the output data is corrupted, e.g., nans or whatever...? Paul ----- Original Message ----- From: [email protected] To: [email protected] Sent: Wednesday, March 20, 2013 10:03:10 AM Subject: Re: [Nek5000-users] trouble with visit p63 is set to zero and it still does not work Joerg Am 20.03.2013 um 14:47 schrieb [email protected]:
It looks like setting p63=0 should take care of that...
Paul
On Wed, 20 Mar 2013, [email protected] wrote:
Hi Paul,
how can I set up the single precision output?
best regards, Joerg.
Hi Joerg, Normally the output is indeed in single precision. It's not clear to me the double-precision + visit is working - but I've been a bit out of the loop on this. Paul On Wed, 20 Mar 2013, [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit  script
!-------usr file-------------------------------------------------    tiny=1.e-16    do i=1,n     epst(i)=log(epst(i)+tiny)     epsv(i)=log(epsv(i)+tiny)    enddo
!-------No pressure field, no scalar output    ifpo=.false.    ifto=.false.
   call outpost2( uzt,epst,epsv,pr,t,0,'eps')
   ifpo=.true.    ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux     87 20. Mär 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
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Dear all, Indeed, we believe that there are still some issues with Visit and 8-byte Nek5000 files, even in the latest Visit version 2.6.1. I attach below the previous communication we had on that. In short, Visit loads double-precision files, and some operations work without problems (3D contours), whereas other give wrong results (2D slices etc.). Best regards, Philipp and Reza. ________________________________________ From: Reza Dadfar [mailto:[email protected]] Sent: den 6 mars 2013 11:10 To: [email protected] Cc: [email protected] Subject: RE: [Nek5000-users] Visit reader for double precision f files Dear Neks, Reference to our previous question regarding reading double precision Nekton output file in Visit, we have tried to use the latest version of Visit, 2.6.1 However the problem is still there and visit cannot read the double precision Nekton files correctly. I was wondering if you could help us to solve this problem. With many thanks Reza ________________________________________ From: [email protected] [[email protected]] on behalf of [email protected] [[email protected]] Sent: Friday, November 16, 2012 4:04 PM To: [email protected] Subject: [Nek5000-users] Visit reader for double precision f files Dear Neks, Reference to previous discussion (Sep.13th) about the support for the reading 64 bit files of nek5000 in VisIt, we have put up together a 3D cylinder as test case. For a double-precision format nek5000 dump file the 3D view and especially iso-contours are working fine whereas any 2D projection slice, or cut of the data is not working properly. In general operations considering the whole grid seem to work fine, but those related to a section of the grid such as box don't. This anomaly is happening regardless of choosing various pressure solver scheme (Pn_Pn/Pn_Pn-2) or including the grid data to be dumped in the file or not. I was wondering if you can help me with this issue. With many thanks Reza P.S. The 3D cylinder test-case located at the origin (0,0,0) of the coordinate system and extruded along the z-axis (perpendicular to the xy plane). The box extends from -15 to 25 in x direction, -9 to 9 in y direction and -2 to 2 in z directions. The mesh is constructed from the 2D cylinder in nek5000 repository. The number of elements is reduced, then extended in the z direction. An example of the dumped file can be found in the ftn: ftp://ftp.mech.kth.se/pub/pschlatt/nek5000
Hello everybody, I am a new nek5000 user. I have just successfully compiled the package (on my 64 bit ubuntu) and run the examples: turbChannel, vortex, turbJet. Now, although the executable seems to solve the problems (the display outputs look reasonable), the output files with *.fldxxxx etc contain only zeros (I can see that using postnek). Moreover, at the end of the run (vortex), at the summary, the output that appears on the display is as in the attachment (only zeros). Many thanks in advance, Barak Galanti
Hello everybody, I am a new nek5000 user. I have just successfully compiled the package (on my 64 bit ubuntu) and run the examples: turbChannel, vortex, turbJet. Now, although the executable seems to solve the problems (the display outputs look reasonable), the output files with *.fldxxxx etc contain only zeros (I can see that using postnek). Moreover, at the end of the run (vortex), at the summary, the output that appears on the display is as in the attachment (only zeros). Many thanks in advance, Barak Galanti
Hi Joerg, What's your header (output of: head -1 blah0.f?????) Justin On Wed, 20 Mar 2013 14:10:44 +0100 [email protected] wrote:
Hi Neks,
I am facing problems with the visualization in visit. The output of the three scalar fields uzt, epst, epsv is done is seen in the following line from my usr file.
Here, I wrote the data into four files (see further below). I also attach the visit script
!-------usr file------------------------------------------------- tiny=1.e-16 do i=1,n epst(i)=log(epst(i)+tiny) epsv(i)=log(epsv(i)+tiny) enddo
!-------No pressure field, no scalar output ifpo=.false. ifto=.false.
call outpost2( uzt,epst,epsv,pr,t,0,'eps')
ifpo=.true. ifto=.true.
!-------Visit script------------------------------------------------ NEK5000 version: 1.0 filetemplate: epsG1_64%d.f%05d firsttimestep: 1 numtimesteps: 1
!-------the four files that have to be load into visit and which make up one snapshot-------------- -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:03 epsG1_640.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:09 epsG1_641.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:16 epsG1_642.f00001 -rw-r--r-- 1 josc1234 linux 2657536136 27. Feb 08:22 epsG1_643.f00001 -rw-r----- 1 josc1234 linux 87 20. M__r 13:37 vis.nek5000
!-------This is the error message in visit--------------------------------------- The compute engine running on makalu51.rz.tu-ilmenau.de has exited abnormally.
Shortly thereafter, the following occured...
The Pseudocolor plot of "y_velocity" for the file "/usr/wrk/people4/josc1234/nek5_visit/r095_Lx1_12_Ra1e8/vis.nek5000" could not be generated by the compute engine on host "localhost".
My questions:
Could it be that the graphics output should be in single precision? I saw that the people at KTH did have similar trouble. If yes, how can I switch to single precision in the usr file output? For smaller grid it worked.
Thanks in advance, Joerg.
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