[FLASH-USERS] Error while running: Assertion failed ... memcpy argument memory ranges overlap

[John ZuHone]

Huong (and Chris),

Thanks for the additional info.

I do notice one thing about your Makefile.h. In your FFLAGS and F90FLAGS, you don't have -fdefault-real-8 or -fdefault-double-8 defined. Since FLASH assumes all reals are 8 bytes when doing MPI calls, you might get hung up here too. If you compile gfortran with FLASH you MUST have these defined.

Best,

John

On May 7, 2010, at 5:19 PM, huong luu wrote:

> 
> Hi,
> 
> Thank you for your quick response. I am sorry for the lack of information I provided. I was confused then. Please find my answers below
> 
> On Fri, May 7, 2010 at 3:37 PM, John ZuHone <jzuhone at cfa.harvard.edu> wrote:
> Huong,
> 
> We will need to know a lot more about what you are trying to do before we can discern what your problem is. 
> 
> Probably the best thing for you to do is to tell us the following:
> 
> What problem are you trying to run?
> 
> What units are you compiling in? (They are in the setup_units file)
> 
> What setup call did you use? (This is in the setup_call file)
> 
> What parameter file are you using (flash.par)? This seems especially relevant given all of the unknown parameters you have.
> 
> All of those files should be within the object directory.
>  
> 
> I was trying to run Sedov example. So basically this is all that I have done
> 
> Edit Makefile.h.gfortran 
> ./setup Sedov -makefile=gfortran -auto
> cd object
> gmake
> 
> And after that I copied the flash.par from source/Simulation/SimulationMain/Sedov/flash.par (I guess it would be the same as the generated one though). I didn't change anything else except for the Makefile.h.gfortran in sites dir.
> 
> and then I run it as ./flash3 and got the errors.
> 
> The system I am running on have 2 quad-core CPUs and 16GB RAM and I am the only user on that. So I get quite large amount of memory.
> 
> Does this helps anything for finding the problem?
> 
> Thanks in advance and regards,
> Huong
>  
> 
> Best,
> 
> John Z
> 
> On May 7, 2010, at 4:32 PM, huong luu wrote:
> 
>> Hi,
>> I am trying to run FLASH3. In my system, I have installed HDF1.6 serial. I use the gfortran makefile and I believe that I have all the the parameters in the Makefile correctly (I also attached the Makefile here. Can you have a quick look at it?). I successfully created flash3 executable file.
>> 
>> However, when I run it, I have this error:
>> 
>> [luu1 at cn77 object]$ ./flash3
>>  RuntimeParameters_read:  ignoring unknown parameter "iProcs"...
>>  RuntimeParameters_read:  ignoring unknown parameter "jProcs"...
>>  RuntimeParameters_read:  ignoring unknown parameter "kProcs"...
>>  RuntimeParameters_read:  ignoring unknown parameter "order"...
>>  RuntimeParameters_read:  ignoring unknown parameter "slopeLimiter"...
>>  RuntimeParameters_read:  ignoring unknown parameter "LimitedSlopeBeta"...
>>  RuntimeParameters_read:  ignoring unknown parameter "charLimiting"...
>>  RuntimeParameters_read:  ignoring unknown parameter "RiemannSolver"...
>>  RuntimeParameters_read:  ignoring unknown parameter "shockInstabilityFix"...
>>  RuntimeParameters_read:  ignoring unknown parameter "shockDetect"...
>>  MaterialProperties initialized
>>  Cosmology initialized
>>  Source terms initialized
>>   iteration, no. not moved =            0           0
>>  refined: total leaf blocks =            1
>>  refined: total blocks =            1
>> Assertion failed in file ../../../../../src/mpich2-1.2.1/src/mpi/coll/helper_fns.c at line 337: 0
>> memcpy argument memory ranges overlap, dst_=0x18e80880 src_=0x18e80880 len_=96
>> 
>> internal ABORT - process 0
>> 
>> Have you ever encounter this error and do you have any idea how to fix it?
>> 
>> Thanks a lot in advance,
>> Huong
>> <Makefile.h.gfortran>
> 
> 

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