Firefly and PC GAMESS-related discussion club

 
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Denis Zavelev
denis.zavelev@gmail.com

>Is it possible to get remote access to the system for a day or two for debugging?
I've asked our system administrator about new account in institute's net. If he gets the access, I'll let you know by e-mail. If not... of course, our institute is not far from MSU but I suppose you don't have enough time for this.
And I'll also try to launch this build on another workstations (with the same Ubuntu version and linux kernel version but with different CPUs).



>On Wed Oct 24 '12 2:00am, Denis Zavelev wrote
>---------------------------------------------
>>Dear Alex!

>>>it seems there is some incompatibility between FF 8.0.0
>>>and the Linux kernel version you are using.
>>Probably so (though I'll try to check it on another PCs with the same Ubuntu and kernel versions).

>>>My guess is that
>>>this problem is related to stack allocation code at the very
>>>beginning of Firefly's execution.
>>Can this be kernel bug?
>>Should I try newer or older kernel versions?

>>>Try adding the following option to the Firefly's command line:
>>>

./firefly -stkflgs:10 < other options >

>>>>My configure string was:
>>>>./configure --prefix=/home/metalian/mpich2-install --with-arch=LINUX32 --enable-threads --enable-shared CFLAGS=-m32 CXXFLAGS=-m32 FFLAGS=-m32 FCFLAGS=-m32 |& tee c2.txt
>>>>It works perfectly with 7.1.G (after making 7.1.G working I decided to try 8.0.0rc)

>>>>>The compiler was gcc version 4.1.2 20071124 (Red Hat 4.1.2-42)
>>>>>(as C++ and Fortran libraries are not used by Firefly, this is the
>>>>>only relevant compiler).
>>>>Ubuntu 12.04 has gcc 4.6.3

>>>>>I have got a lot of libraries in /opt/mpich2-1.5-gcc32/lib
>>>>>There was no libmpich.so.3 library so I created it as a symbolic
>>>>>link to libmpich.so.8  
>>>>Yes, of course, the same thing (ldd gave me this name to create symlink for, all other libs were also found).

>>>>>Then I ran Firefly using /opt/mpich2-1.5-gcc32/bin/mpiexec and got it running perfectly.  
>>>>The only difference is using /home/metalian/mpich2-install but $PATH contains it.

>>>>>Could it be the case there is some library conflict with
>>>>>your installation of mpich2?
>>>>I don't know. How can I find this?

>>>>>Did you perhaps get some part
>>>>>of the output in the file or there were no output at all?
>>>>No output at all.

>>>>>What is the output of
>>>>>
>>>>>./firefly -nompi
>>>>>
>>>>>command?
>>>>Output is the same ('Segmentation fault' and nothing more).

>>>>Once again, 7.1.G works fine in the same system.
>>>>
>>>>
>>>>>>Just tried to run firefly8.mpich2.ex from rc33 (with the same mpich2-1.5 built from sources with all 32-bit options) and got segmentation fault.
>>>>>>===================================================================================
>>>>>>=   BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
>>>>>>=   EXIT CODE: 139
>>>>>>=   CLEANING UP REMAINING PROCESSES
>>>>>>=   YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
>>>>>>===================================================================================
>>>>>>YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11)

>>>>>>ldd firefly8.mpich2.ex
>>>>>>gives:
>>>>>>     linux-gate.so.1 =>  (0xf774e000)
>>>>>>     libmpich.so.3 => /home/metalian/mpich2-install/lib/libmpich.so.3 (0xf74eb000)
>>>>>>     libm.so.6 => /lib/i386-linux-gnu/libm.so.6 (0xf749e000)
>>>>>>     libopa.so.1 => /home/metalian/mpich2-install/lib/libopa.so.1 (0xf749a000)
>>>>>>     libmpl.so.1 => /home/metalian/mpich2-install/lib/libmpl.so.1 (0xf7494000)
>>>>>>     librt.so.1 => /lib/i386-linux-gnu/librt.so.1 (0xf748b000)
>>>>>>     libpthread.so.0 => /lib/i386-linux-gnu/libpthread.so.0 (0xf7470000)
>>>>>>     libdl.so.2 => /lib/i386-linux-gnu/libdl.so.2 (0xf746b000)
>>>>>>     libc.so.6 => /lib/i386-linux-gnu/libc.so.6 (0xf72c0000)
>>>>>>     libgcc_s.so.1 => /lib/i386-linux-gnu/libgcc_s.so.1 (0xf72a2000)
>>>>>>     /lib/ld-linux.so.2 (0xf774f000)

>>>>>>I'm using Ubuntu 12.04 64-bit with all latest updates, kernel version is 3.2.0-32-generic.

>>>>>>Execution strings used (no difference between results):
>>>>>>mpiexec -n 2 ./firefly8.mpich2.ex -r -f -p -o $inpfile.out -t scratch -b ./metalian.lib
>>>>>>mpiexec -n 2 /home/metalian/Quant/ff8rc33_mpich2_linux/firefly8.mpich2.ex -r -f -p -o /home/metalian/Quant/ff8rc33_mpich2_linux/$inpfile.out -t /home/metalian/Quant/ff8rc33_mpich2_linux/scratch  -b /home/metalian/Quant/ff8rc33_mpich2_linux/metalian.lib

>>>>>>I've also tried to use:
>>>>>>./firefly8.mpich2.ex -f -p -o inptest.out -ex . -t scratch -p4pg procgrp
>>>>>>In this case I'm getting only "Segmentation fault" message and nothing more.

>>>>>>System is based upon AMD Athlon(tm) 64 X2 Dual Core Processor 6000+.