[FLASH-USERS] Proton Imaging on existing checkpoint files

[Ryan Farber]

Hi Wang,

I don't have experience using Laserslab simulations, so I don't quite
understand the workflow.

I recommended including a logfile for the case restart = .false. to confirm
your initial run was successful. That may help others chime in for you to
get the help you need.

Are you saying that the checkpoint file is corrupted? Or is the "empty
image" from looking at modu3d_forced_hdf5_plt_cnt_0000?

If you're concerned the plt_cnt file is empty, note this warning message:

 WARNING you have called IO_writePlotfile but no plot_vars are defined.

 put the vars you want in the plotfile in your flash.par (plot_var_1 =
"dens")

You also have some runs end with:

 [ 07-12-2020  16:42:22.879 ] [DRIVER_ABORT]: Driver_abort() called by PE
        0

 [ 07-12-2020  16:42:22.879 ] abort_message: pi_createProtons3DRec: proton
does not hit domain boundary!

There were 19 runs in the logfile that you sent. What are the differences
between the runs?

Best,
--------
Ryan


On Sun, Jul 12, 2020 at 2:05 PM Wang <astrowjz at mail.bnu.edu.cn> wrote:

> Hi Ryan,
>
> Thanks for your advice!
>
> I run with restart = .false. before, it will produce a new checkpoint
> file, but I want to use the checkpoint file that I have obtained from
> Laserslab simulation, so that I can get magnetic information from proton
> image.
>
> If I run with restart = .false., I can get an image of uniform proton
> distribution, otherwise, if I run with restart = .true. to load data, I can
> only get an empty image.
>
> Do you mean I should run first time with restart = .false. to rewrite the
> checkpoint file and run second time with restart = .true. to obtain
> proton image?
>
> Best,
> Wang
>
> On Jul 13, 2020, at 00:30, Ryan Farber <rjfarber at umich.edu> wrote:
>
> Hi Wang,
>
> It looks like you accidentally left restart = .true. in flash.par. If that
> was intentional, it would be helpful to see the logfile of the run with
> restart = .false. that produces the checkpoint file you're trying to
> restart from.
>
> Best,
> --------
> Ryan
>
>
> On Sun, Jul 12, 2020 at 6:22 AM Wang <astrowjz at mail.bnu.edu.cn> wrote:
>
>> Hi all,
>>
>> Recently I am using FLASH to simulate proton images. I have already run a
>> simulation and generated a 3D check point file. And I tended to use proton
>> imaging unit and let a proton beam pass through the simulation region of
>> the check point files. If everything’s ok, I can obtain a txt file which
>> records proton’s position.
>>
>> But now, I can only obtain an empty file, I don’t know how to fix it.
>> Thank you for your help, and any suggestions would be greatly
>> appreciated.
>>
>> This is the setup of protonimaging:
>> ./setup ProtonImaging -auto -3d -geometry=cartesian -parfile=flash.par
>> -nxb=32 -nyb=32 -nzb=32 +protonImaging --without-unit=physics/Hydro
>> --without-unit=physics/Eos -objdir=astrowjz/protonimaging pi_maxBeams=1
>> pi_maxDetectors=1 threadProtonTrace=True
>>
>>
>> Best,
>> Wang
>>
>>
>>
>>
>>
>>
>>
>
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