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Alex Granovsky
gran@classic.chem.msu.su

Is it possible to get remote access to the system for a day or two for debugging?

Kind regards,
Alex



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+.