[Nek5000-users] usr file - Vol 62, Issue 9

[nek5000-users at lists.mcs.anl.gov]

Zhenyu,

Hi...  In general, you do the following:

Use an existing run files as templates to start with.  You need the 
.rea, SIZE, .box, and .usr files.  Rename the rea,box, and usr files to 
a unique name for your run, like your_run.rea, your_run.box, your_run.usr.

  * Edit the .box file to define your grid, geometry, and BCs.
  * Edit the .rea file with all the basic run parameters.  If you have
    an .rea template that is ascii (without the .re2 option) and it has
    geometry information at the end, ignore this information as it will
    be regenerated.
  * Edit the SIZE file to set your array sizes and GLL DOF (this must
    also be set correctly in .rea).
  * Edit the .usr file per instructions, including the information for
    boundary conditions if applicable.

Then, you generate a new .rea file with the grid geometry by running 
genbox:  "genbox ./your_run.box".  This will create the files box.rea 
and box.tmp.  You rename box.rea to your_run.rea. This will overwrite 
the one you edited with a new one with all your changes in the settings 
sections intact, and new geometry information at the end.  Delete box.tmp.

Next, you run genmap to create a new map file:  "genmap ./your_run".  
This will create the new map file.

Next, compile the code with:  "./makenek ./your_run".  If successful, 
you will get a new binary copy of nek5000.

Then you run with one of the scripts like:  "./nekbmpi ./your_run 24"

You will probably get a lot of errors initially based on improper 
makenek setting for your compiler and target platform, geometry issues, 
etc...  Read all the documentation and look at the examples to figure 
this stuff out for your application...

See Ya,

Murph
mlodea at oakland.edu



>
> ForwardedMessage.eml
>
> Subject:
> [Nek5000-users] How to create .usr file
> From:
> nek5000-users at lists.mcs.anl.gov
> Date:
> 4/10/2014 10:49 AM
>
> To:
> Nek5000-users at lists.mcs.anl.gov
>
>
> Dear All,
>
> I am trying nek5000 under ubuntu.
>
> As  a beginner, I just wonder which is the best way to create the .usr 
> file, should I copy one from the examples and change it for my case or 
> use a tool just like genbox, genmap, etc. to generate it? I have the 
> same question for creation of SIZE
>
> By the way,  I can only find the usage of prenek and demonstrative 
> cases from the old manual of nekton, what is the current way of 
> generating meshes for public uses?
>
> Thank you very much in advance.
>
> Zhenyu
>
> ForwardedMessage.eml
>
> Subject:
> Re: [Nek5000-users] How to create .usr file
> From:
> nek5000-users at lists.mcs.anl.gov
> Date:
> 4/9/2014 11:17 AM
>
> To:
> nek5000-users at lists.mcs.anl.gov
>
>
> Hi Zhenyu,
>
> The *.usr is to be copied from the examples and change it according to 
> your needs like Boundary condition and Initial condition.
>
> The SIZE file too should be copied (change the number of element per 
> processor according to yours) .
>
> See the example 'Expansion ' --> mkmesh file, which will give you an 
> insight about how to write a script to create a mesh using prenek.
>
> Best Regards,
> Kamal.
>
>
> On 10/04/2014 16:49, nek5000-users at lists.mcs.anl.gov wrote:
>> Dear All,
>>
>> I am trying nek5000 under ubuntu.
>>
>> As  a beginner, I just wonder which is the best way to create the 
>> .usr file, should I copy one from the examples and change it for my 
>> case or use a tool just like genbox, genmap, etc. to generate it? I 
>> have the same question for creation of SIZE
>>
>> By the way,  I can only find the usage of prenek and demonstrative 
>> cases from the old manual of nekton, what is the current way of 
>> generating meshes for public uses?
>>
>> Thank you very much in advance.
>>
>> Zhenyu
>>
>>
>> _______________________________________________
>> Nek5000-users mailing list
>> Nek5000-users at lists.mcs.anl.gov
>> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users
>
>
>
> _______________________________________________
> Nek5000-users mailing list
> Nek5000-users at lists.mcs.anl.gov
> https://lists.mcs.anl.gov/mailman/listinfo/nek5000-users

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