Bugzilla Bug 143094

Hi there, I've found that mrbayes crashes as you try the sumt function on a
64-bit platform. I've tried this on amd64, on alpha and on ia64. 
I've seen that there are several reports on this behavior on
http://sourceforge.net/tracker/index.php
It seems that the bug has not been yet solved.

d

- the link doesn't work.
- emerge --info missing
- we need a backtrace

http://www.gentoo.org/proj/en/qa/backtraces.xml

Hi there. I've missed a lot of stuff in previous bug report, sorry.
If you still need I'll give emerge --info at the end of this. BTW, the problem
is related to sizeof(long) that is 8 bytes on 64-bit platforms and 4 bytes on
32 bit ones. I've successfully modified the source to handle this and I'm now
producing a patchset to submit. I have some problems in writing a
portage-compatible patch :-(
I'm also going to produce a valuable backtrace, in the meanwhile just be
informed of this workaround

cheers

d

emerge --info for amd64:

Portage 2.1.1_pre3-r3 (default-linux/amd64/2005.1, gcc-3.4.6, glibc-2.3.5-r0,
2.6.15-gentoo-r7-smp x86_64)
=================================================================
System uname: 2.6.15-gentoo-r7-smp x86_64 AMD Opteron(tm) Processor 252
Gentoo Base System version 1.6.12
app-admin/eselect-compiler: [Not Present]
dev-lang/python:     2.3.5, 2.4.3-r1
dev-python/pycrypto: 2.0.1-r5
dev-util/ccache:     [Not Present]
dev-util/confcache:  [Not Present]
sys-apps/sandbox:    1.2.18.1
sys-devel/autoconf:  2.13, 2.59-r6
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.5
sys-devel/binutils:  2.17
sys-devel/gcc-config: 1.3.13-r2
sys-devel/libtool:   1.5.18-r1
virtual/os-headers:  2.6.11-r2
ACCEPT_KEYWORDS="amd64 ~amd64"
AUTOCLEAN="yes"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-mtune=k8 -O3 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib/X11/xkb"
CONFIG_PROTECT_MASK="/etc/env.d /etc/gconf /etc/terminfo /etc/texmf/web2c"
CXXFLAGS="-mtune=k8 -O3 -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="autoaddcvs autoconfig ccache distcc distlocks metadata-transfer
sandbox sfperms strict"
GENTOO_MIRRORS="http://mirror.switch.ch/ftp/mirror/gentoo
http://distfiles.gentoo.org
http://www.ibiblio.org/pub/Linux/distributions/gentoo"
MAKEOPTS="-j3"
PKGDIR="/usr/portage/packages"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress
--force --whole-file --delete --delete-after --stats --timeout=180
--exclude='/distfiles' --exclude='/local' --exclude='/packages'"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="amd64 avi berkdb bitmap-fonts cli crypt cups dlloader dri eds emboss
encode foomaticdb fortran gif gnome gpm gstreamer gtk gtk2 imlib ipv6 isdnlog
jpeg kde lzw lzw-tiff mp3 mpeg ncurses nls opengl pam pcre pdflib perl png pppd
python qt qt3 qt4 quicktime readline reflection sdl session spell spl ssl tcpd
threads tiff truetype-fonts type1-fonts usb xorg xpm xv zlib elibc_glibc
input_devices_keyboard input_devices_mouse input_devices_evdev kernel_linux
userland_GNU"
Unset:  CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, LDFLAGS,
LINGUAS, PORTAGE_RSYNC_EXTRA_OPTS


emerge --info for ia64:

Portage 2.1.1_pre3-r3 (default-linux/ia64/2005.0, gcc-4.0.3/vanilla,
glibc-2.4-r3, 2.6.12-gentoo-r9IA64 ia64)
=================================================================
System uname: 2.6.12-gentoo-r9IA64 ia64 Itanium 2
Gentoo Base System version 1.12.1
app-admin/eselect-compiler: 2.0.0_rc2-r1
dev-lang/python:     2.3.5, 2.4.3-r1
dev-python/pycrypto: 2.0.1-r5
dev-util/ccache:     [Not Present]
dev-util/confcache:  [Not Present]
sys-apps/sandbox:    1.2.18.1
sys-devel/autoconf:  2.13, 2.60
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2
sys-devel/binutils:  2.16.1-r3
sys-devel/gcc-config: 1.3.13-r3
sys-devel/libtool:   1.5.22
virtual/os-headers:  2.6.11-r6
ACCEPT_KEYWORDS="ia64 ~ia64"
AUTOCLEAN="yes"
CBUILD="ia64-unknown-linux-gnu"
CFLAGS="-O3 -pipe"
CHOST="ia64-unknown-linux-gnu"
CONFIG_PROTECT="/etc /usr/lib/X11/xkb /usr/share/texmf/dvipdfm/config/
/usr/share/texmf/dvips/config/ /usr/share/texmf/tex/generic/config/
/usr/share/texmf/tex/platex/config/ /usr/share/texmf/xdvi/"
CONFIG_PROTECT_MASK="/etc/env.d /etc/eselect/compiler /etc/gconf /etc/terminfo"
CXXFLAGS="-O3 -pipe"
DISTDIR="/usr/portage/distfiles"
FEATURES="autoconfig distlocks metadata-transfer sandbox sfperms strict"
GENTOO_MIRRORS="http://mirror.switch.ch/ftp/mirror/gentoo
http://distfiles.gentoo.org
http://www.ibiblio.org/pub/Linux/distributions/gentoo"
MAKEOPTS="-j5"
PKGDIR="/usr/portage/packages"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress
--force --whole-file --delete --delete-after --stats --timeout=180
--exclude='/distfiles' --exclude='/local' --exclude='/packages'"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/local/portage"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="ia64 X berkdb bitmap-fonts cli crypt cups dlloader dri eds encode
foomaticdb fortran gdbm gif gnome gpm gstreamer gtk gtk2 imlib ipv6 isdnlog
jpeg kde libg++ libwww mikmod motif mysql ncurses nls nptl nptlonly ogg
oggvorbis opengl oss pam pcre pdflib perl png pppd python qt quicktime readline
reflection sdl session spell spl ssl tcpd threads truetype truetype-fonts
type1-fonts vorbis xml2 xmms xorg xv zlib elibc_glibc input_devices_keyboard
input_devices_mouse input_devices_evdev kernel_linux userland_GNU"
Unset:  CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, LDFLAGS,
LINGUAS, PORTAGE_RSYNC_EXTRA_OPTS

Created an attachment (id=93833) [edit]
full backtrace for SIGSEGV

Here there's the link to bug report page on sourceforge...
http://sourceforge.net/tracker/?group_id=129302&atid=714418

(In reply to comment #3)
> Created an attachment (id=93833) [edit]
> full backtrace for SIGSEGV

Eh, can you attach something readable please?

Created an attachment (id=93835) [edit]
backtrace in utf-8

`iconv -f utf-16 -t utf-8 old-attachment > new-attachment`

Readable backtrace attached :)

Thanks jkt.

(In reply to comment #8)

whooops! Sorry.

Thanks for the report. I removed AMD64 support from the ebuilds pending
upstream fixing the issue.