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Old 02-03-2009, 11:35 AM   #1
yuanlang
Junior Member
 
Location: Pennsylvania

Join Date: Jul 2008
Posts: 2
Default help - buffer overflow problem of Maq in Ubuntu 8.10

Hi,

I compiled maq 0.7.1 by "configure;make;sudo make install" and tried to run "maq.pl demo" in my Ubuntu 8.10 desktop yesterdau. However I ran into a problem as below:

*** buffer overflow detected ***: /usr/local/bin/maq terminated
======= Backtrace: =========
/lib/libc.so.6(__fortify_fail+
0x37)[0x7fa3946b0887]
/lib/libc.so.6[0x7fa3946ae750]
/usr/local/bin/maq[0x423ebe]
/usr/local/bin/maq[0x424465]
/lib/libc.so.6(__libc_start_main+0xe6)[0x7fa3945cf466]
/usr/local/bin/maq[0x401da9]
======= Memory map: ========
00400000-00438000 r-xp 00000000 08:05 2164005 /usr/local/bin/maq
00637000-00638000 r--p 00037000 08:05 2164005 /usr/local/bin/maq
00638000-0063b000 rw-p 00038000 08:05 2164005 /usr/local/bin/maq
0229e000-022bf000 rw-p 0229e000 00:00 0 [heap]
7fa3945b1000-7fa39471a000 r-xp 00000000 08:05 3612716 /lib/libc-2.8.90.so
7fa39471a000-7fa394919000 ---p 00169000 08:05 3612716 /lib/libc-2.8.90.so
7fa394919000-7fa39491d000 r--p 00168000 08:05 3612716 /lib/libc-2.8.90.so
7fa39491d000-7fa39491e000 rw-p 0016c000 08:05 3612716 /lib/libc-2.8.90.so
7fa39491e000-7fa394923000 rw-p 7fa39491e000 00:00 0
7fa394923000-7fa394939000 r-xp 00000000 08:05 3612690 /lib/libgcc_s.so.1
7fa394939000-7fa394b39000 ---p 00016000 08:05 3612690 /lib/libgcc_s.so.1
7fa394b39000-7fa394b3a000 r--p 00016000 08:05 3612690 /lib/libgcc_s.so.1
7fa394b3a000-7fa394b3b000 rw-p 00017000 08:05 3612690 /lib/libgcc_s.so.1
7fa394b3b000-7fa394bbf000 r-xp 00000000 08:05 3612744 /lib/libm-2.8.90.so
7fa394bbf000-7fa394dbe000 ---p 00084000 08:05 3612744 /lib/libm-2.8.90.so
7fa394dbe000-7fa394dbf000 r--p 00083000 08:05 3612744 /lib/libm-2.8.90.so
7fa394dbf000-7fa394dc0000 rw-p 00084000 08:05 3612744 /lib/libm-2.8.90.so
7fa394dc0000-7fa394eb1000 r-xp 00000000 08:05 2080932 /usr/lib/libstdc++.so.6.0.10
7fa394eb1000-7fa3950b1000 ---p 000f1000 08:05 2080932 /usr/lib/libstdc++.so.6.0.10
7fa3950b1000-7fa3950b8000 r--p 000f1000 08:05 2080932 /usr/lib/libstdc++.so.6.0.10
7fa3950b8000-7fa3950ba000 rw-p 000f8000 08:05 2080932 /usr/lib/libstdc++.so.6.0.10
7fa3950ba000-7fa3950cd000 rw-p 7fa3950ba000 00:00 0
7fa3950cd000-7fa3950e4000 r-xp 00000000 08:05 2083314 /usr/lib/libz.so.1.2.3.3
7fa3950e4000-7fa3952e3000 ---p 00017000 08:05 2083314 /usr/lib/libz.so.1.2.3.3
7fa3952e3000-7fa3952e5000 rw-p 00016000 08:05 2083314 /usr/lib/libz.so.1.2.3.3
7fa3952e5000-7fa395304000 r-xp 00000000 08:05 3612694 /lib/ld-2.8.90.so
7fa3954e9000-7fa3954ec000 rw-p 7fa3954e9000 00:00 0
7fa3954ff000-7fa395503000 rw-p 7fa3954ff000 00:00 0
7fa395503000-7fa395504000 r--p 0001e000 08:05 3612694 /lib/ld-2.8.90.so
7fa395504000-7fa395505000 rw-p 0001f000 08:05 3612694 /lib/ld-2.8.90.so
7fff9d4f0000-7fff9d505000 rw-p 7ffffffea000 00:00 0 [stack]
7fff9d5ff000-7fff9d600000 r-xp 7fff9d5ff000 00:00 0 [vdso]
ffffffffff600000-ffffffffff601000 r-xp 00000000 00:00 0 [vsyscall]
Aborted
** fail to run command '(cd maqdemo; /usr/local/bin/maq simustat easyrun/all.map > eval.simustat)' at /usr/local/bin/maq.pl line 842.

I am a newbie to bioinformatics. Is there anything wrong with the compilation? Or the configuration in my desktop should be changed? Your help will be highly appreciated.

Have a nice day!
yuanlang is offline   Reply With Quote