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

[Chris Daley]

Hi Huong,

This is a bug in Paramesh that we recently fixed in trunk.  There are
some MPI calls that have overlapping send and receive buffers.  The
overlap is detected in mpich2 versions >= 1.2.1.  I've attached the
patch we used in trunk.

Go to the top level FLASH directory and do:
patch -p0 < fix_mpi_calls.diff

Recompile your application and the assert should disappear.

Chris


John ZuHone wrote:
> Huong,
> 
> You'll probably need to tell us how much memory is available on your 
> machine as well.
> 
> 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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