Bug 152487 – Unaligned access in many applications (R, mysql)

• Status: RESOLVED WONTFIX
• Product: Gentoo Linux

[Description dawe 2006-10-23 03:13:58 UTC]

After a brand new Gentoo installation on my ia64 machines, I see that some apps (notably R and mysql) give messages like this:
mysql(9336): unaligned access to 0x60000fffff541dba, ip=0x2000000000c91ec1
while I read I should not be alarmed by this, it is annoying that mysql gives the message to STDOUT. 
Gentoo Base System version 1.12.5
Portage 2.1.2_pre2-r1 (default-linux/ia64/2006.0, gcc-4.1.1, glibc-2.4-r4, 2.6.17-gentoo-r3-smp ia64)
=================================================================
System uname: 2.6.17-gentoo-r3-smp ia64 Itanium 2
Last Sync: Thu, 05 Oct 2006 11:00:01 +0000
app-admin/eselect-compiler: [Not Present]
dev-java/java-config: [Not Present]
dev-lang/python:     2.4.3-r4
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:  2.60
sys-devel/automake:  1.4_p6, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2
sys-devel/binutils:  2.17
sys-devel/gcc-config: 1.3.13-r4
sys-devel/libtool:   1.5.22
virtual/os-headers:  2.6.11-r6
ACCEPT_KEYWORDS="ia64 x86 ~ia64"
AUTOCLEAN="yes"
CBUILD="ia64-unknown-linux-gnu"
CFLAGS="-O2 -pipe -ffast-math"
CHOST="ia64-unknown-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/X11/xkb"
CONFIG_PROTECT_MASK="/etc/env.d /etc/gconf /etc/revdep-rebuild /etc/terminfo /etc/texmf/web2c"
CXXFLAGS="-O2 -pipe -ffast-math"
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 berkdb bitmap-fonts cli crypt cups dlloader dri eds elibc_glibc encode foomaticdb fortran gdbm gif gnome gpm gstreamer gtk gtk2 imlib input_devices_evdev input_devices_keyboard input_devices_mouse ipv6 isdnlog jpeg kde kernel_linux libg++ libwww mikmod motif mysql ncurses nls nptl nptlonly ogg opengl oss pam pcre perl png pppd python qt3 qt4 quicktime readline reflection sdl session spell spl ssl tcpd threads truetype truetype-fonts type1-fonts udev userland_GNU video_cards_apm video_cards_ark video_cards_ati video_cards_chips video_cards_cirrus video_cards_cyrix video_cards_dummy video_cards_fbdev video_cards_glint video_cards_i128 video_cards_i740 video_cards_i810 video_cards_imstt video_cards_mga video_cards_neomagic video_cards_nv video_cards_rendition video_cards_s3 video_cards_s3virge video_cards_savage video_cards_siliconmotion video_cards_sisusb video_cards_tdfx video_cards_tga video_cards_v4l video_cards_vesa video_cards_vga video_cards_via video_cards_voodoo vorbis xml2 xmms xorg xv zlib"
Unset:  CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LANG, LC_ALL, LDFLAGS, LINGUAS, PORTAGE_RSYNC_EXTRA_OPTS

[Comment 1 dawe 2006-10-24 01:49:52 UTC]

Solved with mysql-5.0.26 in place of mysql-5.0.24.

[Comment 2 dawe 2006-10-25 02:35:09 UTC]

Sorry to all, this is a bad posted bug. Not necessarily related to ia64 system but maybe to applications themselves.

[Comment 3 Tim Yamin (RETIRED) 2006-10-25 06:15:29 UTC]

(In reply to comment #2)
> Sorry to all, this is a bad posted bug. Not necessarily related to ia64 system
> but maybe to applications themselves.

Yea, it's a bug with the apps. The newer mysql should be stabled on ia64 in a few weeks, as for R -- if there's a new version which fixes the warnings please do let us know. Thanks.