[gmx-developers] parallel make problems

Rossen Apostolov rossen at kth.se
Fri Apr 5 13:08:27 CEST 2013

Hi Erik,

Are you compiling fftw with the build, i.e. using -DGMX_BUILD_OWN_FFTW ?


On 4/5/13 11:55 AM, Erik Marklund wrote:
> Hi,
> Building gromacs 4.6.1 failed whenever I issued parallel make, i.e. 
> make -j. I reported this to the cluster admins since I had never seen 
> such behaviour before from gromacs' side, and here's their reply. I 
> can't tell whether gromacs is at fault or the cluster.
> Erik
> Begin forwarded message:
>>  Hi,
>>> I was compiling gromacs on tintin's login node the other day and it
>>>   seems that parallel make, i.e. make -j, doesn't work on tintin. I
>>>   got linker errors that never showed up when make was run serially.
>>>   I've never encountered such behaviour before.
>> Without any more information (or being able to look for actual files 
>> right now), I'd guess this is a problem with the makefiles rather 
>> than the actual make. It seems somewhat unexpected that CMake would 
>> create makefiles that aren't safe for parallel building, but it does 
>> seem the most likely culprit (assuming it doesn't let developers add 
>> rules directly to the makefile to work around problems, I don't 
>> remember if that's possible).
>> That you only see the problem on tintin can likely be explained by 
>> timing or other non deterministic factors.

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