[gentoo-user] Collisions when compiling glibc-2.5-r3 on amd64

[gentoo-user] Collisions when compiling glibc-2.5-r3 on amd64

[Marc Joliet]

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Hi List,

I didn't find any bug report matching my experience. This appears to be
the closest match: http://bugs.gentoo.org/show_bug.cgi?id=145749. I
thought I'd ask about it here first, before reporting a bug, in the
event of PEBKAC.

I updated linux-headers today to the current stable, 2.6.21, and the
messages recommend a recompile of the system libc, in this glibc. When
it wants to merge the compiled glibc, I get this:

[------------------------------------------------------------]

>>> Completed installing glibc-2.5-r4
into /var/tmp/portage/sys-libs/glibc-2.5-r4/image/

ecompressdir: bzip2 -9 usr/share/man
ecompressdir: bzip2 -9 /usr/share/info
making executable: usr/lib32/libc.so
making executable: usr/lib32/libpthread.so
making executable: usr/lib64/libc.so
making executable: usr/lib64/libpthread.so
* checking 2373 files for package collisions
1000 files checked ...
2000 files checked ...
existing file /lib is not owned by this package
* This package is blocked because it wants to overwrite
* files belonging to other packages (see messages above).
* If you have no clue what this is all about report it
* as a bug for this package on http://bugs.gentoo.org

package sys-libs/glibc-2.5-r4 NOT merged


Searching all installed packages for file collisions...
Press Ctrl-C to Stop

 * x11-drivers/nvidia-drivers-1.0.9746-r1:

     '/lib'

 * sys-boot/grub-0.97-r3:

     '/lib'

 * media-sound/alsa-firmware-1.0.14_rc2-r1:

     '/lib'

 * media-sound/alsa-driver-1.0.14_rc2-r1:

     '/lib'

 * sys-fs/udev-104-r12:

     '/lib'

 * sys-fs/cryptsetup-luks-1.0.4-r3:

     '/lib'

 * sys-fs/device-mapper-1.02.19:

     '/lib'

 * sys-fs/lvm2-2.02.10:

     '/lib'

 * media-libs/libgphoto2-2.2.1-r1:

     '/lib'

 * sys-apps/hal-0.5.9-r1:

     '/lib'

 * net-analyzer/macchanger-1.5.0-r1:

     '/lib'

marcec marcec # 

[------------------------------------------------------------]

Is there a 'clean' work around? The only option I found is to set
COLLISION_IGNORE="/usr" in make.conf. I'll try that out and post the
results later today (heck, is it Sunday already?). For "emerge --info"
see attachment.

Apparently, from what I read, the collision-protect[1] option is
supposed to ignore directories. Since this was asked in other reports I
found while searching for info: /lib is not a symlink, rather /lib64 is
a symlink to /lib. Out of curiosity: when would /lib ever be a symlink?

Note that I will not have my email available for a few days starting
tonight (Sunday). I'm sending my PC via mail to my home for the summer
holidays, versus it staying in my dorm room. Yes I know of VNC, but I
didn't find the time to set it up.

Any help greatly appreciated!
-- 
Marc Joliet

[1] I only semi-recently (a few weeks ago) set the collision-protect
option, and until now, glibc is the only package to complain.

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Portage 2.1.2.9 (default-linux/amd64/2007.0, gcc-4.1.2, glibc-2.5-r3, 2.6.20-gentoo-r8 x86_64)
=================================================================
System uname: 2.6.20-gentoo-r8 x86_64 AMD Athlon(tm) 64 X2 Dual Core Processor 4200+
Gentoo Base System release 1.12.9
Timestamp of tree: Sat, 14 Jul 2007 21:00:01 +0000
distcc 2.18.3 x86_64-pc-linux-gnu (protocols 1 and 2) (default port 3632) [disabled]
dev-java/java-config: 1.3.7, 2.0.33-r1
dev-lang/python:     2.3.5-r3, 2.4.4-r4
dev-python/pycrypto: 2.0.1-r5
sys-apps/sandbox:    1.2.17
sys-devel/autoconf:  2.13, 2.61
sys-devel/automake:  1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10
sys-devel/binutils:  2.17
sys-devel/gcc-config: 1.3.16
sys-devel/libtool:   1.5.23b
virtual/os-headers:  2.6.21
ACCEPT_KEYWORDS="amd64"
AUTOCLEAN="yes"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -march=athlon64 -pipe -msse3"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/share/config/kdm /usr/kde/3.5/shutdown /usr/share/X11/xkb /usr/share/config /var/qmail/alias /var/qmail/control"
CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/gconf /etc/php/apache2-php5/ext-active/ /etc/php/cgi-php5/ext-active/ /etc/php/cli-php5/ext-active/ /etc/revdep-rebuild /etc/splash /etc/terminfo /etc/texmf/web2c"
CXXFLAGS="-O2 -march=athlon64 -pipe -msse3"
DISTDIR="/usr/portage/distfiles"
FEATURES="collision-protect distlocks metadata-transfer parallel-fetch sandbox sfperms strict userpriv usersandbox"
GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo"
LANG="de_DE.UTF-8"
LC_ALL="de_DE.UTF-8"
LINGUAS="en de it fr ru pl"
MAKEOPTS="-s -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 --filter=H_**/files/digest-*"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY="/usr/portage/local/layman/pro-audio /usr/portage/local/layman/science /usr/local/portage"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="3dnow 3dnowext 7zip X a52 aac aalib accessibility acl acpi ada alsa amd64 artswrappersuid asterisk audiofile avahi berkdb bitmap-fonts blas bluetooth bzip2 cairo caps cdda cdr cjk cli cracklib crypt css cups dbus dga djvu dri dssi dts dv dvb dvd dvdr dvdread dvi eds encode evo exif fat ffmpeg firefox flac foomaticdb fortran fuse gcj gdbm gif gimpprint glitz glut gnokii gnutls gphoto2 gpm gtk hal hfs iconv ieee1394 imlib ipod ipv6 irda isdnlog jack java jfs joystick jpeg jpeg2k kde kdehiddenvisibility kdgraphics kerberos kig-scripting kipi ladspa lapack lcd lcms ldap libcaca libg++ libsamplerate live lm_sensors logitech-mouse mad matroska mbrola midi mikmod mmx mmxext modplug mono mozcalendar moznocompose moznoirc moznomail mp3 mpeg mudflap musepack musicbrainz nautilus ncurses nls nntp nptl nptlonly nsplugin ntfs nvidia ogg openexr opengl openmp pam pam_chroot pam_timestamp pcmcia pcre pdf perforce perl php png postgres povray ppds pppd pwdb python qt3 qt4 quicktime rdesktop readline reflection reiser4 reiserfs remote rtsp ruby samba scanner sdl session shout skins slang sms sndfile soundtouch speedo speex spell spl sql sqlite sse sse2 ssl stats stream subversion svg symlink tcpd theora threads tiff timidity truetype truetype-fonts type1-fonts unicode usb v4l v4l2 vcd visualization vlm vorbis wxwindows xcomposite xfs xine xinerama xml xorg xpm xprint xscreensaver xv xvid xvmc zeroconf zlib" ALSA_CARDS="ice1724 hda-intel usb-audio" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mulaw multi null plug rate route share shm softvol" ELIBC="glibc" INPUT_DEVICES="evdev keyboard mouse joystick vmmouse void" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="en de it fr ru pl" USERLAND="GNU" VIDEO_CARDS="dummy fbdev nv nvidia v4l vesa vga vmware"
Unset:  CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LDFLAGS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS


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Re: [gentoo-user] Collisions when compiling glibc-2.5-r3 on amd64

[Marc Joliet]

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Am Sonntag, den 15.07.2007, 01:06 +0200 schrieb Marc Joliet:
[SNIP]

Sorry to answer myself first, but to prevent confusion: I tried both r3
and r4, and get the message with both. Sorry I forgot to mention that,
as the topic and actual message weren't consistent. I forget things when
I'm tired :/.

Plus, setting COLLISION_IGNORE="/usr" in make.conf didn't help. I still
get the same message. Is the syntax correct? I wouldn't imagine it being
any different than other portage variables.

Any help appreciated, as always!
-- 
Marc Joliet

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Re: [gentoo-user] Collisions when compiling glibc-2.5-r3 on amd64

[Marc Joliet]

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Am Sonntag, den 15.07.2007, 01:06 +0200 schrieb Marc Joliet:
[SNIP]

Well, who'd a thunk it, of course my tired self reads /lib and
thinks /usr *smacks forehead*. Sorry for the noise...
-- 
Marc Joliet

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Re: [gentoo-user] "Symptom cured" (i.e. SEMI-SOLVED)

[Marc Joliet]

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Am Sonntag, den 15.07.2007, 01:55 +0200 schrieb Marc Joliet:
> Am Sonntag, den 15.07.2007, 01:06 +0200 schrieb Marc Joliet:
> [SNIP]
> 
> Well, who'd a thunk it, of course my tired self reads /lib and
> thinks /usr *smacks forehead*. Sorry for the noise...

Well, that seems to have fixed things insofar that I can emerge glibc.
If anybody has more info, I would appreciate it. If this is worthy of a
bug report (I assume it is), I suggest somebody else report it, as I
won't have internet access as of tonight for a few days (if not the
entire week), not to mention me never having reported a bug.
-- 
Marc Joliet

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