[FLASH-USERS] Compilation Error in Sedov Example Problem

[Charles Peterson]

Hi Ryan,

I ended up being able to run the Sedov example by setting up the problem
and compiling from a login node (making the corresponding login node
directories to store the Makefile.h in as you suggested). I then used the
command srun flash4 in my batch script instead of the mpirun command, and
it ran smoothly! Thank you for the help!

Best,
Chip

On Thu, Jul 18, 2024 at 5:23 PM Ryan Farber <rjfarber at umich.edu> wrote:

> Hi Charles,
>
> Thank you for attaching your SLURM submission script, as well as your
> stdout.
>
> Note the following lines from your stdout:
>     checking sites Aliases file
>     site directory for site gl3048.arc-ts.umich.edu not found;
>     using prototype Linux
>
> So the setup command generates a Makefile based on the Makefile.h in the
> sites/Prototypes/Linux directory.
> You then copied your Makefileh.h from sites to the object directory -- but
> setup already ran so it's probably not used at all.
>
> You should instead either place your Makefile.h inside of
> Sites/Prototypes/Linux (to overwrite the default), create a directory sites/
> gl3048.arc-ts.umich.edu (as well as one per compute node and login node,
> gulp...), or modify the Aliases file.
>
> Best wishes,
> --------
> Ryan
>
>
> On Thu, Jul 18, 2024 at 12:04 PM Charles Peterson <chippete at umich.edu>
> wrote:
>
>> Hi Ryan,
>>
>> Thanks for the quick response! The error I posted above is the entire
>> stream from the returned .err file. Below I've also attached the .out file
>> and the Makefile.h that I used. I also reached out to UM HPC support and am
>> currently waiting on a response from them. Thank you for the suggestion!
>>
>> Best,
>> Chip
>>
>> On Tue, Jul 16, 2024 at 8:21 PM Ryan Farber <rjfarber at umich.edu> wrote:
>>
>>> Hi Chip,
>>>
>>> Your specific error I don’t believe I’ve encountered unfortunately. It
>>> would be helpful if you can attach the full stderr stream (combined with
>>> stdout is fine).
>>>
>>> Other useful information might be in your Makefile.h and your batch
>>> script (if you’re compiling with “make -j” it’s possible the cluster is
>>> killing your job for using too many resources if that’s running on a login
>>> node.
>>>
>>> If you’re compiling on a computer node, that should be fine but might
>>> depend on your cluster. If you’re on Great Lakes the note UM’s support is
>>> pretty great, and should have some experience supporting new FLASH users.
>>>
>>> Best wishes,
>>> Ryan
>>>
>>> Sent from my iPhone
>>>
>>> On Jul 16, 2024, at 5:45 PM, Charles Peterson <chippete at umich.edu>
>>> wrote:
>>>
>>> 
>>> Hi flash users,
>>>
>>> I am a new user to FLASH and have been trying to run FLASH on my
>>> University's HPC cluster (I'm also very new to using HPC's). The batch
>>> script that I've been working with first loads the following modules:
>>> <image.png>
>>>
>>> It then calls for the setup, compilation, and running of the Sedov
>>> example problem. After running this batch script, the setup process is
>>> successful, while an error is run into with running make:
>>> <image.png>
>>>
>>> Would anyone have any suggestions on how to fix this? Any and all help
>>> is greatly appreciated.
>>>
>>> Thanks!
>>> Chip
>>> --
>>> *Charles (Chip) Peterson*
>>> University of Michigan '25
>>> Engineering Physics
>>> Nuclear Engineering and Radiological Sciences
>>> chippete at umich.edu - (253)-255-7090
>>> _______________________________________________
>>> flash-users mailing list
>>> flash-users at flash.rochester.edu
>>>
>>> For list info, including unsubscribe:
>>> https://flash.rochester.edu/mailman/listinfo/flash-users
>>>
>>>
>>
>> --
>> *Charles (Chip) Peterson*
>> University of Michigan '25
>> Engineering Physics
>> Nuclear Engineering and Radiological Sciences
>> chippete at umich.edu - (253)-255-7090
>>
>

-- 
*Charles (Chip) Peterson*
University of Michigan '25
Engineering Physics
Nuclear Engineering and Radiological Sciences
chippete at umich.edu - (253)-255-7090
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://flash.rochester.edu/pipermail/flash-users/attachments/20240731/ddf1455e/attachment.htm>