Sorry, I forgot to mention I’m using Avogadro 1.0.0 under Ubuntu 9.10
best regards
Kenneth
---------- Forwarded message ----------
Date: Fri, 30 Jul 2010 17:28:44 -0300 (UYT)
From: Kenneth Irving ken@mail.fq.edu.uy
To: avogadro-discuss@lists.sourceforge.net
Subject: Having problemas with surface creation
First of All let me say I find Avogadro an excellent program. I’ve been using
it lately and it’s been of great help to create Gaussian09 input files and
after displaying Gaussian09 results. Not many molecular modeling programs
available for Linux platform, and Avogadro is one of the best I’ve ever used.
Didn’t have problems with Gaussian09 .fchk files, until reacently when I tried
to create density and ESP surfaces and Avogadro just cancels execution.
Running it from a shell I get error output which I include below.
Hope someone can tell me what can be the problem. With some .fchk files I have
no problems, with others, I get this error:
QStackedLayout::setCurrentWidget: Widget 0x9524f58 not contained in stack
libpng warning: Ignoring attempt to set cHRM RGB triangle with zero area
*** glibc detected *** avogadro: free(): invalid next size (fast): 0x09d730b0
======= Backtrace: =========
/lib/tls/i686/cmov/libc.so.6[0x17b0d1]
/lib/tls/i686/cmov/libc.so.6[0x17c7d2]
/lib/tls/i686/cmov/libc.so.6(cfree+0x6d)[0x17f8ad]
/usr/lib/avogadro/1_0/extensions/surfaceextension.so[0x1d6f7ca]
/usr/lib/avogadro/1_0/extensions/surfaceextension.so[0x1d72152]
/usr/lib/avogadro/1_0/extensions/surfaceextension.so[0x1d721a1]
/usr/lib/avogadro/1_0/extensions/surfaceextension.so[0x1d7334a]
/usr/lib/libQtCore.so.4(_ZN12QtConcurrent16ThreadEngineBase3runEv+0x38)[0x68c6c8]
/usr/lib/libQtCore.so.4[0x68f8d7]
/usr/lib/libQtCore.so.4[0x699e32]
/lib/tls/i686/cmov/libpthread.so.0[0x25a80e]
/lib/tls/i686/cmov/libc.so.6(clone+0x5e)[0x1dca0e]
======= Memory map: ========
00110000-0024e000 r-xp 00000000 08:01 307002 /lib/tls/i686/cmov/libc-2.10.1.so
0024e000-0024f000 —p 0013e000 08:01 307002 /lib/tls/i686/cmov/libc-2.10.1.so
0024f000-00251000 r–p 0013e000 08:01 307002 /lib/tls/i686/cmov/libc-2.10.1.so
00251000-00252000 rw-p 00140000 08:01 307002 /lib/tls/i686/cmov/libc-2.10.1.so
00252000-00255000 rw-p 00000000 00:00 0
00255000-0026a000 r-xp 00000000 08:01 308178
/lib/tls/i686/cmov/libpthread-2.10.1.so
0026a000-0026b000 r–p 00014000 08:01 308178
/lib/tls/i686/cmov/libpthread-2.10.1.so
0026b000-0026c000 rw-p 00015000 08:01 308178
/lib/tls/i686/cmov/libpthread-2.10.1.so
0026c000-0026e000 rw-p 00000000 00:00 0
0026e000-00292000 r-xp 00000000 08:01 308164 /lib/tls/i686/cmov/libm-2.10.1.so
00292000-00293000 r–p 00023000 08:01 308164 /lib/tls/i686/cmov/libm-2.10.1.so
00293000-00294000 rw-p 00024000 08:01 308164 /lib/tls/i686/cmov/libm-2.10.1.so
00294000-002b0000 r-xp 00000000 08:01 289753 /lib/libgcc_s.so.1
002b0000-002b1000 r–p 0001b000 08:01 289753 /lib/libgcc_s.so.1
002b1000-002b2000 rw-p 0001c000 08:01 289753 /lib/libgcc_s.so.1
002b2000-002b4000 r-xp 00000000 08:01 307008 /lib/tls/i686/cmov/libdl-2.10.1.so
002b4000-002b5000 r–p 00001000 08:01 307008 /lib/tls/i686/cmov/libdl-2.10.1.so
002b5000-002b6000 rw-p 00002000 08:01 307008 /lib/tls/i686/cmov/libdl-2.10.1.so
002b6000-002ca000 r-xp 00000000 08:01 289903 /lib/libz.so.1.2.3.3
002ca000-002cb000 r–p 00013000 08:01 289903 /lib/libz.so.1.2.3.3
002cb000-002cc000 rw-p 00014000 08:01 289903 /lib/libz.so.1.2.3.3
002cc000-002ce000 r-xp 00000000 08:16 48753 /usr/lib/libXdamage.so.1.1.0
002ce000-002cf000 rw-p 00001000 08:16 48753 /usr/lib/libXdamage.so.1.1.0
002cf000-002e7000 r-xp 00000000 08:16 48615 /usr/lib/libaudio.so.2.4
002e7000-002e8000 r–p 00017000 08:16 48615 /usr/lib/libaudio.so.2.4
002e8000-002e9000 rw-p 00018000 08:16 48615 /usr/lib/libaudio.so.2.4
002e9000-002f0000 r-xp 00000000 08:16 48736 /usr/lib/libSM.so.6.0.0
002f0000-002f1000 r–p 00006000 08:16 48736 /usr/lib/libSM.so.6.0.0
002f1000-002f2000 rw-p 00007000 08:16 48736 /usr/lib/libSM.so.6.0.0
002f2000-002fa000 r-xp 00000000 08:16 48779 /usr/lib/libXrender.so.1.3.0
002fa000-002fb000 r–p 00007000 08:16 48779 /usr/lib/libXrender.so.1.3.0
002fb000-002fc000 rw-p 00008000 08:16 48779 /usr/lib/libXrender.so.1.3.0
002fc000-00300000 r-xp 00000000 08:16 51231 /usr/lib/libgthread-2.0.so.0.2200.3
00300000-00301000 r–p 00003000 08:16 51231 /usr/lib/libgthread-2.0.so.0.2200.3
00301000-00302000 rw-p 00004000 08:16 51231 /usr/lib/libgthread-2.0.so.0.2200.3
00302000-00304000 r-xp 00000000 08:16 48744 /usr/lib/libXau.so.6.0.0
00304000-00305000 r–p 00001000 08:16 48744 /usr/lib/libXau.so.6.0.0
00305000-00306000 rw-p 00002000 08:16 48744 /usr/lib/libXau.so.6.0.0
00306000-00308000 r-xp 00000000 08:01 308184
/lib/tls/i686/cmov/libutil-2.10.1.so
00308000-00309000 r–p 00001000 08:01 308184
/lib/tls/i686/cmov/libutil-2.10.1.so
00309000-0030a000 rw-p 00002000 08:01 308184
/lib/tls/i686/cmov/libutil-2.10.1.so
0030a000-00390000 r-xp 00000000 08:16 52409 /usr/lib/libQtOpenGL.so.4.5.2
00390000-00391000 —p 00086000 08:16 52409 /usr/lib/libQtOpenGL.so.4.5.2
00391000-00392000 r–p 00086000 08:16 52409 /usr/lib/libQtOpenGL.so.4.5.2
00392000-00396000 rw-p 00087000 08:16 52409 /usr/lib/libQtOpenGL.so.4.5.2
00396000-004c0000 r-xp 00000000 08:16 48738 /usr/lib/libX11.so.6.2.0
004c0000-004c1000 —p 0012a000 08:16 48738 /usr/lib/libX11.so.6.2.0
004c1000-004c2000 r–p 0012a000 08:16 48738 /usr/lib/libX11.so.6.2.0
004c2000-004c4000 rw-p 0012b000 08:16 48738 /usr/lib/libX11.so.6.2.0
004c4000-004c5000 rw-p 00000000 00:00 0
004c5000-00535000 r-xp 00000000 08:16 51020 /usr/lib/libfreetype.so.6.3.20
00535000-00539000 r–p 0006f000 08:16 51020 /usr/lib/libfreetype.so.6.3.20
00539000-0053a000 rw-p 00073000 08:16 51020 /usr/lib/libfreetype.so.6.3.20
0053a000-00551000 r-xp 00000000 08:16 48707 /usr/lib/libICE.so.6.3.0
00551000-00552000 r–p 00016000 08:16 48707 /usr/lib/libICE.so.6.3.0
00552000-00553000 rw-p 00017000 08:16 48707 /usr/lib/libICE.so.6.3.0
00553000-00555000 rw-p 00000000 00:00 0
00555000-00580000 r-xp 00000000 08:16 49042 /usr/lib/libfontconfig.so.1.3.0
00580000-00581000 r–p 0002a000 08:16 49042 /usr/lib/libfontconfig.so.1.3.0
00581000-00582000 rw-p 0002b000 08:16 49042 /usr/lib/libfontconfig.so.1.3.0
00582000-00585000 r-xp 00000000 08:01 289896 /lib/libuuid.so.1.3.0
00585000-00586000 r–p 00002000 08:01 289896 /lib/libuuid.so.1.3.0
00586000-00587000 rw-p 00003000 08:01 289896 /lib/libuuid.so.1.3.0
00587000-00588000 rwxp 00000000 00:00 0
00589000-005a4000 r-xp 00000000 08:01 289965 /lib/ld-2.10.1.so
005a4000-005a5000 r–p 0001a000 08:01 289965 /lib/ld-2.10.1.so
005a5000-005a6000 rw-p 0001b000 08:01 289965 /lib/ld-2.10.1.so
005a6000-005c2000 r-xp 00000000 08:16 49776 /usr/lib/libxcb.so.1.1.0
005c2000-005c3000 r–p 0001c000 08:16 49776 /usr/lib/libxcb.so.1.1.0
005c3000-005c4000 rw-p 0001d000 08:16 49776 /usr/lib/libxcb.so.1.1.0
005c4000-005cb000 r-xp 00000000 08:01 308181 /lib/tls/i686/cmov/librt-2.10.1.so
005cb000-005cc000 r–p 00006000 08:01 308181 /lib/tls/i686/cmov/librt-2.10.1.so
005cc000-005cd000 rw-p 00007000 08:01 308181 /lib/tls/i686/cmov/librt-2.10.1.so
005cd000-005fc000 r-xp 00000000 08:01 289856 /lib/libpcre.so.3.12.1
005fc000-005fd000 r–p 0002e000 08:01 289856 /lib/libpcre.so.3.12.1
005fd000-005fe000 rw-p 0002f000 08:01 289856 /lib/libpcre.so.3.12.1
005fe000-00602000 r-xp 00000000 08:16 48755 /usr/lib/libXdmcp.so.6.0.0
00602000-00603000 rw-p 00003000 08:16 48755 /usr/lib/libXdmcp.so.6.0.0
00603000-0060c000 r-xp 00000000 08:16 48765 /usr/lib/libXi.so.6.0.0
0060c000-0060d000 r–p 00008000 08:16 48765 /usr/lib/libXi.so.6.0.0
0060d000-0060e000 rw-p 00009000 08:16 48765 /usr/lib/libXi.so.6.0.0
00610000-0061e000 r-xp 00000000 08:16 48757 /usr/lib/libXext.so.6.4.0
0061e000-0061f000 r–p 0000d000 08:16 48757 /usr/lib/libXext.so.6.4.0
0061f000-00620000 rw-p 0000e000 08:16 48757 /usr/lib/libXext.so.6.4.0Aborted
Best regards
Kenneth