Editor crashes when aligning new sequences

[baderk]

Reported by: Jörg Peplies

EDIT4 crashes when sequences are added/aligned in the editor (+fastaligner) using large pt_servers.

Console output:

error
error
appendName((null), UncOrg85)
appendName(UncOrg85, UncMa118)
appendName(UncOrg85, UncMa118, UncB2363)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687, UncB8980)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687, UncB8980, UncB2729)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687, UncB8980, UncB2729, UncB2591)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687, UncB8980, UncB2729, UncB2591, UncB8822)
appendName(UncOrg85, UncMa118, UncB2363, UncGa672, UncGa687, UncB8980, UncB2729, UncB2591, UncB8822, UncGa700)
error
error
appendName((null), UncG1023)
error
error
appendName((null), ColPsych.1)
*** glibc detected *** arb_edit4: munmap_chunk(): invalid pointer: 0xb70fb008 ***
======= Backtrace: =========
/lib/tls/i686/cmov/libc.so.6(cfree+0x1bb)[0xb76cf92b]
arb_edit4[0x806cf85]
arb_edit4[0x806cfe6]
arb_edit4[0x806c097]
/opt/arb//lib/libAW.so(_ZN12AW_cb_struct12run_callbackEv+0x18c)[0xb7e4010c]
/opt/arb//lib/libAW.so(_Z18AW_server_callbackP10_WidgetRecPvS1_+0xb5)[0xb7e40865]
/usr/openwin/lib/libXt.so.6(XtCallCallbackList+0x11b)[0xb7ace40b]
/usr/openwin/lib/libXm.so.3[0xb7bcfd19]
/usr/openwin/lib/libXt.so.6[0xb7b054c1]
/usr/openwin/lib/libXt.so.6(_XtTranslateEvent+0x2e5)[0xb7b05b95]
/usr/openwin/lib/libXt.so.6(XtDispatchEventToWidget+0x4c2)[0xb7adc672]
/usr/openwin/lib/libXt.so.6[0xb7adce8a]
/usr/openwin/lib/libXt.so.6(XtDispatchEvent+0xc7)[0xb7adbcf7]
/usr/openwin/lib/libXt.so.6(XtAppMainLoop+0x4c)[0xb7adbeac]
/opt/arb//lib/libAW.so(_ZN7AW_root9main_loopEv+0x22)[0xb7e3a662]
arb_edit4[0x8081a4e]
/lib/tls/i686/cmov/libc.so.6(__libc_start_main+0xe0)[0xb7678050]
arb_edit4(__gxx_personality_v0+0x295)[0x8054db1]
======= Memory map: ========
08048000-08101000 r-xp 00000000 07:00 14212      /rofs/opt/arb_wl-2007-12-07/bin/arb_edit4
08101000-08112000 rw-p 000b8000 07:00 14212      /rofs/opt/arb_wl-2007-12-07/bin/arb_edit4
08112000-0afdf000 rw-p 08112000 00:00 0          [heap]
b70fb000-b7155000 rw-p b70fb000 00:00 0
b7155000-b715e000 r-xp 00000000 07:00 14111      /rofs/lib/tls/i686/cmov/libnss_files-2.6.1.so
b715e000-b7160000 rw-p 00008000 07:00 14111      /rofs/lib/tls/i686/cmov/libnss_files-2.6.1.so
b716d000-b718b000 r--s 00000000 00:09 2457609    /SYSV00000000 (deleted)
b718b000-b7212000 rw-p b718b000 00:00 0
b7212000-b722d000 r--s 00000000 00:09 2195457    /SYSV00000000 (deleted)
b722d000-b724a000 r--s 00000000 00:09 2424840    /SYSV00000000 (deleted)
b724a000-b7265000 r--s 00000000 00:09 2392071    /SYSV00000000 (deleted)
b7265000-b7346000 rw-p b7265000 00:00 0
b7346000-b734e000 r-xp 00000000 07:00 20152      /rofs/usr/lib/libXcursor.so.1.0.2
b734e000-b734f000 rw-p 00007000 07:00 20152      /rofs/usr/lib/libXcursor.so.1.0.2
b734f000-b7543000 rw-p b734f000 00:00 0
b7543000-b7557000 r-xp 00000000 07:00 21263      /rofs/usr/lib/libz.so.1.2.3.3
b7557000-b7558000 rw-p 00013000 07:00 21263      /rofs/usr/lib/libz.so.1.2.3.3
b7558000-b755f000 r-xp 00000000 07:00 20166      /rofs/usr/lib/libXi.so.6.0.0
b755f000-b7560000 rw-p 00006000 07:00 20166      /rofs/usr/lib/libXi.so.6.0.0
b7560000-b7561000 rw-p b7560000 00:00 0
b7561000-b756a000 r-xp 00000000 07:00 20325      /rofs/usr/lib/libdrm.so.2.3.0
b756a000-b756b000 rw-p 00008000 07:00 20325      /rofs/usr/lib/libdrm.so.2.3.0
b756b000-b757f000 r-xp 00000000 07:00 14120      /rofs/lib/tls/i686/cmov/libpthread-2.6.1.so
b757f000-b7581000 rw-p 00013000 07:00 14120      /rofs/lib/tls/i686/cmov/libpthread-2.6.1.so
b7581000-b7583000 rw-p b7581000 00:00 0
b7583000-b7587000 r-xp 00000000 07:00 20160      /rofs/usr/lib/libXfixes.so.3.1.0
b7587000-b7588000 rw-p 00003000 07:00 20160      /rofs/usr/lib/libXfixes.so.3.1.0
b7588000-b758a000 r-xp 00000000 07:00 20154      /rofs/usr/lib/libXdamage.so.1.1.0
b758a000-b758b000 rw-p 00001000 07:00 20154      /rofs/usr/lib/libXdamage.so.1.1.0
b758b000-b758f000 r-xp 00000000 07:00 20198      /rofs/usr/lib/libXxf86vm.so.1.0.0
b758f000-b7590000 rw-p 00003000 07:00 20198      /rofs/usr/lib/libXxf86vm.so.1.0.0
b7590000-b7591000 rw-p b7590000 00:00 0
b7591000-b7593000 r-xp 00000000 07:00 14100      /rofs/lib/tls/i686/cmov/libdl-2.6.1.so
b7593000-b7595000 rw-p 00001000 07:00 14100      /rofs/lib/tls/i686/cmov/libdl-2.6.1.so
b7595000-b7599000 r-xp 00000000 07:00 20156      /rofs/usr/lib/libXdmcp.so.6.0.0
b7599000-b759a000 rw-p 00003000 07:00 20156      /rofs/usr/lib/libXdmcp.so.6.0.0
b759a000-b759c000 r-xp 00000000 07:00 20145      /rofs/usr/lib/libXau.so.6.0.0
b759c000-b759d000 rw-p 00001000 07:00 20145      /rofs/usr/lib/libXau.so.6.0.0
b759d000-b75b2000 r-xp 00000000 07:00 20087      /rofs/usr/lib/libICE.so.6.3.0
b75b2000-b75b4000 rw-p 00014000 07:00 20087      /rofs/usr/lib/libICE.so.6.3.0
b75b4000-b75b5000 rw-p b75b4000 00:00 0
b75b5000-b75bc000 r-xp 00000000 07:00 20137      /rofs/usr/lib/libSM.so.6.0.0
b75bc000-b75bd000 rw-p 00006000 07:00 20137      /rofs/usr/lib/libSM.so.6.0.0
b75bd000-b75be000 rw-p b75bd000 00:00 0
b75be000-b75d3000 r-xp 00000000 07:00 20170      /rofs/usr/lib/libXmu.so.6.2.0
b75d3000-b75d4000 rw-p 00015000 07:00 20170      /rofs/usr/lib/libXmu.so.6.2.0
b75d4000-b7656000 r-xp 00000000 07:00 20080      /rofs/usr/lib/libGLU.so.1.3.070001
b7656000-b7657000 rw-p 00081000 07:00 20080      /rofs/usr/lib/libGLU.so.1.3.070001
b7657000-b7661000 r-xp 00000000 07:00 11530      /rofs/lib/libgcc_s.so.1
b7661000-b7662000 rw-p 0000a000 07:00 11530      /rofs/lib/libgcc_s.so.1
b7662000-b77a6000 r-xp 00000000 07:00 14094      /rofs/lib/tls/i686/cmov/libc-2.6.1.so
b77a6000-b77a7000 r--p 00143000 07:00 14094      /rofs/lib/tls/i686/cmov/libc-2.6.1.so
b77a7000-b77a9000 rw-p 00144000 ARB_DB_SERVER: a client died abnormally

[meierh]

not observed in SVN 6032: tested with SSURef_98 on Ubuntu 8.04 64-bit

[meierh]

not observed in SVN 6032: tested with SSURef_98 on Ubuntu 8.04 64-bit (16 GB Main Memory) not observed in SVN 6032: tested with SSURef_98 on SuSE 10.3 64 bit (4 GB Main Memory)

I propose to close with won't fix, as the problem does not occur with the 64-bit version, and could be related with the general problem working with large DBs and PT-Servers on 32 bit machines! If someone does not agree, feel free to reopen!