[FLASH-USERS] [EXT] Fwd: Some Problem when restart the StirTurb

[Marissa B. P. Adams]

Hi Tristan,

I will admit I did not look at your log file, however I can assume based on
the error you're using the Stir unit's "generate" unit. I would recommend
trying the Stir "FromFile" implementation instead for now.

The generate sub-unit seems to have issues with restarts/reading in the
random seed from the file you can generate to store the random seeds in
(take a look at the *Config* file in the sub-unit). I've attempted to think
of a fix for this but came to the conclusion it'd take some time to
renovate (I could be wrong though ofc!).

Best,
Marissa



On Mon, May 24, 2021 at 12:25 PM Tristan <juwj at mail2.sysu.edu.cn> wrote:

> Additionally, I may not receive the mail from the flash-user mail list. I
> try to join the mail list. If you have any idea about the question, please
> CC to me at juwj at mail2.sysu.edu.cn.  Thanks everyone !
> Best wishes!
>
> Begin forwarded message:
>
> *From: *Tristan <juwj at mail2.sysu.edu.cn>
> *Subject: **Some Problem when restart the StirTurb*
> *Date: *May 25, 2021 at 12:18:44 AM GMT+8
> *To: *flash-users at flash.uchicago.edu
>
> Hello, everyone:
> When I run the Flash code with the StirTrub unit for my turbulence
> simulation, it works well.But when I want to restart from a checkpointfile
> , something went wrong.
> To restart from a CheckPointFile, I changed my flash.par :
> ```
> restart    =    .true.
> checkpointFileNumber  = 5
> plotFileNumber    = 10
> ```
> The total number of CheckPointFile is 10, and for plotfile is 20 when I
> run the code first time. So I just want to restart from half the number
> That is the error I met :
> ```
>  [io_readData] Opening driventurb_3d_hdf5_chk_0005 for restart
>  Progress:   seed length =            0
>  Random seed =
>  nmodes =          188
>  Source terms initialized
>   Finished with Grid_initDomain, restart
>  Ready to call Hydro_init
>  Hydro initialized
>  Gravity initialized
>  Initial dt verified
>  *** Wrote plotfile to driventurb_3d_forced_hdf5_plt_cnt_0000 ****
>  Initial plotfile written
>  Driver init all done
>        n          t         dt  (         x,          y,          z) |
>      106 2.5417E+00 4.9986E-02  (  999.    ,   999.    ,   999.    ) |
>      107 2.5917E+00 9.9972E-02  (  999.    ,   999.    ,   999.    ) |
>      108 2.6916E+00 1.9994E-01  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0010 ****
>      109 2.8916E+00 3.9989E-01  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0011 ****
>      110 3.2915E+00 7.9977E-01  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote checkpoint file to driventurb_3d_hdf5_chk_0006 ****
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0012 ****
>      111 4.0912E+00 1.5995E+00  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote checkpoint file to driventurb_3d_hdf5_chk_0007 ****
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0013 ****
>      112 5.6908E+00 3.1991E+00  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote checkpoint file to driventurb_3d_hdf5_chk_0008 ****
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0014 ****
>      113 8.8899E+00 6.3982E+00  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote checkpoint file to driventurb_3d_hdf5_chk_0009 ****
>  *** Wrote plotfile to driventurb_3d_hdf5_plt_cnt_0015 ****
>      114 1.5288E+01 1.2796E+01  (  999.    ,   999.    ,   999.    ) |
>  *** Wrote checkpoint file to driventurb_3d_hdf5_chk_0010 ****
>  exiting: reached max SimTime
>  *** Wrote plotfile to driventurb_3d_forced_hdf5_plt_cnt_0001 ****
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated 'st_randseed'
> At line 25 of file Stir_finalize.F90
> Fortran runtime error: Attempt to DEALLOCATE unallocated ‘st_randseed'
> ```
> The file Stir_finalize.F90 is below:
>
> !!****if* source/physics/sourceTerms/Stir/StirMain/Generate/Stir_finalize
>   !!
>   !! NAME
>   !!
>   !!  Stir_finalize
>   !!
>   !! SYNOPSIS
>   !!
>   !!  call Stir_finalize()
>   !!
>   !! ARGUMENTS
>   !!
>   !!  none
>   !!
>   !! DESCRIPTION
>   !!
>   !!  Clean up the Stir unit
>   !!
>   !!***
>
>   subroutine Stir_finalize()
>     use Stir_data, ONLY : st_randseed, st_reproducible, &
>          st_saveReproducible, st_randomSaveUnit
>     implicit none
>     deallocate(st_randseed)        !!!!!!!! This is the 25th line.
>     if(st_reproducible.or.st_saveReproducible)&
>          close(unit=st_randomSaveUnit)
>     return
>   end subroutine Stir_finalize
>
>
> I have updated the log file for you to check my work. If someone met the
> some questions, let me know.
>
>
>
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