<div dir="ltr">I fixed the permission issue by opening up the permissions menu on the install file and clicking "Allow running as a program"<br></div><br><div class="gmail_quote"><div dir="ltr">On Tue, Nov 21, 2017 at 10:49 AM <<a href="mailto:nek5000-users@lists.mcs.anl.gov">nek5000-users@lists.mcs.anl.gov</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Ok so how did you fix the permission issue? Is there something we need to change on our end?<br>
<br>
-----Original message-----<br>
> <a href="mailto:From%3Anek5000-users@lists.mcs.anl.gov" target="_blank">From:nek5000-users@lists.mcs.anl.gov</a> <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>><br>
> Sent: Tuesday 21st November 2017 16:44<br>
> To: <a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a><br>
> Subject: Re: [Nek5000-users] Error while compiling exo2nek<br>
><br>
> No, I ran it without sudo as well, and cchanged to sudo when I got the permission error.<br>
><br>
> 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.<br>
><br>
> EXODUS: ERROR: Attempting to open the netcdf-4 file:<br>
> pw_exo1.exo<br>
> . Either the netcdf library does not support netcdf-4 or there is a filesystem or some other issue<br>
> ERROR: cannot open file pw_exo1.exo <br>
><br>
> On checking the properties of the .exo file I found that its an HDF document and not a netcdf file.<br>
> Since Marcos file converts without problems Im sure the issue lies in how pointwise is exporting the exodusII files.<br>
><br>
> Is exo2nek not a viable alternative for exodusII files then?<br>
><br>
> On Tue, Nov 21, 2017 at 10:33 AM <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>> wrote:<br>
> I guess the mistake was to run ./maketools exo2nek with sudo.<br>
><br>
> -----Original message-----<br>
> > <a href="mailto:From%3Anek5000-users@lists.mcs.anl.gov" target="_blank">From:nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:From%253Anek5000-users@lists.mcs.anl.gov" target="_blank">From%3Anek5000-users@lists.mcs.anl.gov</a>> <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>><br>
> > Sent: Tuesday 21st November 2017 16:13<br>
> > To: <a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>><br>
> > Subject: Re: [Nek5000-users] Error while compiling exo2nek<br>
> ><br>
> > Changed the permission of the install file and it works fine now.<br>
> ><br>
> > Also the mesh supplied by Marco has been converted sucessfully and a .re2 file has been generated.<br>
> ><br>
> > Thanks all!<br>
> ><br>
> > On Tue, Nov 21, 2017 at 9:45 AM <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>>> wrote:<br>
> ><br>
> > > env: ‘./install’: Permission denied<br>
> ><br>
> > Looks like you cannot run the install. Can you check the permissions.<br>
> ><br>
> > -----Original message-----<br>
> > > <a href="mailto:From%3Anek5000-users@lists.mcs.anl.gov" target="_blank">From:nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:From%253Anek5000-users@lists.mcs.anl.gov" target="_blank">From%3Anek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:From%253Anek5000-users@lists.mcs.anl.gov" target="_blank">From%3Anek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:From%25253Anek5000-users@lists.mcs.anl.gov" target="_blank">From%253Anek5000-users@lists.mcs.anl.gov</a>>> <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>>><br>
> > > Sent: Tuesday 21st November 2017 15:38<br>
> > > To: <a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>><br>
> > > Subject: Re: [Nek5000-users] Error while compiling exo2nek<br>
> > ><br>
> > > Hi Marco,<br>
> > ><br>
> > > 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<br>
> > ><br>
> > > Make exo2nek...<br>
> > > ----------------------<br>
> > > make[1]: Entering directory /home/adutta/Nek5000/tools/exo2nek<br>
> > > make[1]: Warning: File makefile has modification time 17453 s in the future<br>
> > > env: ‘./install’: Permission denied<br>
> > > makefile:19: recipe for target lib failed<br>
> > > make[1]: *** [lib] Error 126<br>
> > > make[1]: Leaving directory /home/adutta/Nek5000/tools/exo2nek<br>
> > ><br>
> > > ERROR: exo2nek failed to compile!<br>
> > > makefile:4: recipe for target all failed<br>
> > > make: *** [all] Error 1<br>
> > ><br>
> > ><br>
> > ><br>
> > > On Tue, Nov 21, 2017 at 9:33 AM <<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:nek5000-users@lists.mcs.anl.gov" target="_blank">nek5000-users@lists.mcs.anl.gov</a>>>>> wrote:<br>
> > > 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.<br>
> > ><br>
> > > Marco<br>
> > ><br>
> > > _______________________________________________<br>
> > > Nek5000-users mailing list<br>
> > > <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>>> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>>>><br>
> > > <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>>> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>>>><br>
> > > --<br>
> > > Amitvikram Dutta<br>
> > > Graduate Research Assistant<br>
> > > Fluid Mechanics Research Lab<br>
> > > University of Waterloo<br>
> > > _______________________________________________<br>
> > > Nek5000-users mailing list<br>
> > > <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>>><br>
> > > <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>>><br>
> > _______________________________________________<br>
> > Nek5000-users mailing list<br>
> > <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>>><br>
> > <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>>><br>
> > --<br>
> > Amitvikram Dutta<br>
> > Graduate Research Assistant<br>
> > Fluid Mechanics Research Lab<br>
> > University of Waterloo<br>
> > _______________________________________________<br>
> > Nek5000-users mailing list<br>
> > <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>><br>
> > <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>><br>
> _______________________________________________<br>
> Nek5000-users mailing list<br>
> <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a> <mailto:<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a>><br>
> <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a> <<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a>><br>
> --<br>
> Amitvikram Dutta<br>
> Graduate Research Assistant<br>
> Fluid Mechanics Research Lab<br>
> University of Waterloo<br>
> _______________________________________________<br>
> Nek5000-users mailing list<br>
> <a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a><br>
> <a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a><br>
_______________________________________________<br>
Nek5000-users mailing list<br>
<a href="mailto:Nek5000-users@lists.mcs.anl.gov" target="_blank">Nek5000-users@lists.mcs.anl.gov</a><br>
<a href="https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users" rel="noreferrer" target="_blank">https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users</a><br>
</blockquote></div><div dir="ltr">-- <br></div><div class="gmail_signature" data-smartmail="gmail_signature"><div dir="ltr"><p dir="ltr"><b><font color="#000033">Amitvikram Dutta</font></b></p>
<p dir="ltr">Graduate Research Assistant</p>
<p dir="ltr">Fluid Mechanics Research Lab</p>
<p dir="ltr">University of Waterloo</p>
</div></div>