[Nek5000-users] Error while compiling exo2nek

Tue Nov 21 09:49:46 CST 2017

Ok so how did you fix the permission issue? Is there something we need to change on our end?

-----Original message-----
> From:nek5000-users at lists.mcs.anl.gov <nek5000-users at lists.mcs.anl.gov>
> Sent: Tuesday 21st November 2017 16:44
> To: nek5000-users at lists.mcs.anl.gov
> Subject: Re: [Nek5000-users] Error while compiling exo2nek
> 
> No, I ran it without sudo as well, and cchanged to sudo when I got the permission error.
> 
> On an additional issue, Im generating my meshes in the exodusII format by using PoinWise and then exporting the exodusII file. exo2nek fails with the following error message when I try to use it on these files.
> 
> EXODUS: ERROR: Attempting to open the netcdf-4 file:
>     pw_exo1.exo
>     . Either the netcdf library does not support netcdf-4 or there is a filesystem or some other issue 
> ERROR: cannot open file pw_exo1.exo                     
> 
> On checking the properties of the .exo file I found that its an HDF document and not a netcdf file. 
> Since Marcos file converts without problems Im sure the issue lies in how pointwise is exporting the exodusII files. 
> 
> Is exo2nek not a viable alternative for exodusII files then? 
> 
> On Tue, Nov 21, 2017 at 10:33 AM <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>> wrote:
> I guess the mistake was to run ./maketools exo2nek with sudo.
> 
> -----Original message-----
> > From:nek5000-users at lists.mcs.anl.gov <mailto:From%3Anek5000-users at lists.mcs.anl.gov> <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>>
> > Sent: Tuesday 21st November 2017 16:13
> > To: nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>
> > Subject: Re: [Nek5000-users] Error while compiling exo2nek
> >
> > Changed the permission of the install file and it works fine now.
> >
> > Also the mesh supplied by Marco has been converted sucessfully and a .re2 file has been generated.
> >
> > Thanks all!
> >
> > On Tue, Nov 21, 2017 at 9:45 AM <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>>> wrote:
> >
> > > env: ‘./install’: Permission denied
> >
> > Looks like you cannot run the install. Can you check the permissions.
> >
> > -----Original message-----
> > > From:nek5000-users at lists.mcs.anl.gov <mailto:From%3Anek5000-users at lists.mcs.anl.gov> <mailto:From%3Anek5000-users at lists.mcs.anl.gov <mailto:From%253Anek5000-users at lists.mcs.anl.gov>> <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>>>
> > > Sent: Tuesday 21st November 2017 15:38
> > > To: nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>>
> > > Subject: Re: [Nek5000-users] Error while compiling exo2nek
> > >
> > > Hi Marco,
> > >
> > > I cant get exo2nek to compile properly at all. After downloading the latest version I get the following error messages when I run sudo ./maketools exo2nek
> > >
> > > Make exo2nek...
> > > ----------------------
> > > make[1]: Entering directory /home/adutta/Nek5000/tools/exo2nek
> > > make[1]: Warning: File makefile has modification time 17453 s in the future
> > > env: ‘./install’: Permission denied
> > > makefile:19: recipe for target lib failed
> > > make[1]: *** [lib] Error 126
> > > make[1]: Leaving directory /home/adutta/Nek5000/tools/exo2nek
> > >
> > > ERROR: exo2nek failed to compile!
> > > makefile:4: recipe for target all failed
> > > make: *** [all] Error 1
> > >
> > >
> > >
> > > On Tue, Nov 21, 2017 at 9:33 AM <nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov> <mailto:nek5000-users at lists.mcs.anl.gov <mailto:nek5000-users at lists.mcs.anl.gov>>>> wrote:
> > > Can you try the exo2nek script on the attached exo mesh file and see if it works. It works on my machine. It has 2496 elements and 3 sidesets.
> > >
> > > Marco
> > >
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> > > --
> > > Amitvikram Dutta
> > > Graduate Research Assistant
> > > Fluid Mechanics Research Lab
> > > University of Waterloo
> > > _______________________________________________
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> > --
> > Amitvikram Dutta
> > Graduate Research Assistant
> > Fluid Mechanics Research Lab
> > University of Waterloo
> > _______________________________________________
> > Nek5000-users mailing list
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> -- 
> Amitvikram Dutta
> Graduate Research Assistant
> Fluid Mechanics Research Lab
> University of Waterloo
> _______________________________________________
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