[Solved]Updated system, and dealing with glibc issue.

Question

I neglected to update/use Arch for quite some time, and decided to last night. I quickly encountered problems and I've read https://www.archlinux.org/news/filesyst … equired-1/, https://www.archlinux.org/news/the-lib- … a-symlink/, https://www.archlinux.org/news/fontconf … -required/, http://allanmcrae.com/2012/07/updating- … e-install/, and many threads about issues with filesystem and/or glibc.
First, I followed the instructions to resolve the issue with fontconfig.
<read various threads>
Then, I landed here: https://wiki.archlinux.org/index.php/De … iki:usrlib. I installed glibc-2.16.0-1-x86_64 using the instructions provided. IIRC, I was still experiencing conflicts with filesystem. I came across a thread where a user stated that instructions from Allan McRae's blog (from the link at the top) allowed him to upgrade his system. I tried it out, and I got around the filesystem issue as well as the issue with dependencies linked to tzdata, etc. My issue now lies with the pacman -Su step:
[asdf@asdf ~]$ sudo pacman -Su
:: Starting full system upgrade...
resolving dependencies...
looking for inter-conflicts...
Targets (1): glibc-2.16.0-5
Total Installed Size: 37.63 MiB
Net Upgrade Size: 0.05 MiB
Proceed with installation? [Y/n] y
(1/1) checking package integrity [###############################] 100%
(1/1) loading package files [###############################] 100%
(1/1) checking for file conflicts [###############################] 100%
error: failed to commit transaction (conflicting files)
glibc: /lib exists in filesystem
Errors occurred, no packages were upgraded.
Following Issue 2 under https://wiki.archlinux.org/index.php/De … iki:usrlib, I entered
$ grep '^lib/' /var/lib/pacman/local/*/files
. The output was:
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/security/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/security/pam_ck_connector.so
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/basic.target.wants/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/basic.target.wants/console-kit-log-system-start.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/console-kit-daemon.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/console-kit-log-system-restart.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/console-kit-log-system-start.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/console-kit-log-system-stop.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/halt.target.wants/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/halt.target.wants/console-kit-log-system-stop.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/kexec.target.wants/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/kexec.target.wants/console-kit-log-system-restart.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/poweroff.target.wants/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/poweroff.target.wants/console-kit-log-system-stop.service
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/reboot.target.wants/
/var/lib/pacman/local/consolekit-0.4.5-2/files:lib/systemd/system/reboot.target.wants/console-kit-log-system-restart.service
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/ld-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/ld-linux-x86-64.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libBrokenLocale-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libBrokenLocale.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libSegFault.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libanl-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libanl.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libc-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libc.so.6
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libcidn-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libcidn.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libcrypt-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libcrypt.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libdl-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libdl.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libm-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libm.so.6
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libmemusage.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnsl-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnsl.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_compat-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_compat.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_db-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_db.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_dns-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_dns.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_files-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_files.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_hesiod-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_hesiod.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_nis-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_nis.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_nisplus-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libnss_nisplus.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libpcprofile.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libpthread-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libpthread.so.0
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libresolv-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libresolv.so.2
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/librt-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/librt.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libthread_db-1.0.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libthread_db.so.1
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libutil-2.16.so
/var/lib/pacman/local/glibc-2.16.0-1/files:lib/libutil.so.1
/var/lib/pacman/local/hal-0.5.14-6/files:lib/
/var/lib/pacman/local/hal-0.5.14-6/files:lib/udev/
/var/lib/pacman/local/hal-0.5.14-6/files:lib/udev/rules.d/
/var/lib/pacman/local/hal-0.5.14-6/files:lib/udev/rules.d/90-hal.rules
/var/lib/pacman/local/lib32-glibc-2.14-5/files:lib/
/var/lib/pacman/local/lib32-glibc-2.14-5/files:lib/ld-linux.so.2
/var/lib/pacman/local/ntfs-3g-2012.1.15-4/files:lib/
Being a newb, I didn't want to do something stupid, so I didn't take any action here..
I proceeded on with trying
find /lib -exec pacman -Qo -- {} +
The output was:
error: cannot determine ownership of directory '/lib'
/lib/libutil.so.1 is owned by glibc 2.16.0-1
/lib/libnsl.so.1 is owned by glibc 2.16.0-1
/lib/libnss_compat-2.16.so is owned by glibc 2.16.0-1
/lib/libSegFault.so is owned by glibc 2.16.0-1
/lib/ld-linux.so.2 is owned by lib32-glibc 2.14-5
/lib/ld-2.16.so is owned by glibc 2.16.0-1
/lib/libpthread.so.0 is owned by glibc 2.16.0-1
/lib/libnss_nisplus.so.2 is owned by glibc 2.16.0-1
/lib/libthread_db-1.0.so is owned by glibc 2.16.0-1
/lib/librt-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_files.so.2 is owned by glibc 2.16.0-1
error: cannot determine ownership of directory '/lib/ufw'
error: No package owns /lib/ufw/user6.rules.pacsave
error: No package owns /lib/ufw/user.rules.pacsave
error: cannot determine ownership of directory '/lib/udev'
error: cannot determine ownership of directory '/lib/udev/rules.d'
/lib/udev/rules.d/90-hal.rules is owned by hal 0.5.14-6
/lib/libnss_hesiod-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_dns.so.2 is owned by glibc 2.16.0-1
/lib/libnss_hesiod.so.2 is owned by glibc 2.16.0-1
/lib/libm.so.6 is owned by glibc 2.16.0-1
/lib/libnss_files-2.16.so is owned by glibc 2.16.0-1
/lib/libc-2.16.so is owned by glibc 2.16.0-1
/lib/libBrokenLocale.so.1 is owned by glibc 2.16.0-1
/lib/libdl.so.2 is owned by glibc 2.16.0-1
/lib/libutil-2.16.so is owned by glibc 2.16.0-1
/lib/libBrokenLocale-2.16.so is owned by glibc 2.16.0-1
/lib/libpthread-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_nisplus-2.16.so is owned by glibc 2.16.0-1
/lib/librt.so.1 is owned by glibc 2.16.0-1
/lib/libnss_nis-2.16.so is owned by glibc 2.16.0-1
/lib/libc.so.6 is owned by glibc 2.16.0-1
/lib/libcrypt-2.16.so is owned by glibc 2.16.0-1
/lib/libresolv-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_db.so.2 is owned by glibc 2.16.0-1
/lib/libcidn.so.1 is owned by glibc 2.16.0-1
/lib/libresolv.so.2 is owned by glibc 2.16.0-1
/lib/libmemusage.so is owned by glibc 2.16.0-1
/lib/ld-linux-x86-64.so.2 is owned by glibc 2.16.0-1
error: cannot determine ownership of directory '/lib/security'
/lib/security/pam_ck_connector.so is owned by consolekit 0.4.5-2
/lib/libanl-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_compat.so.2 is owned by glibc 2.16.0-1
/lib/libcidn-2.16.so is owned by glibc 2.16.0-1
/lib/libm-2.16.so is owned by glibc 2.16.0-1
/lib/libcrypt.so.1 is owned by glibc 2.16.0-1
error: cannot determine ownership of directory '/lib/systemd'
error: cannot determine ownership of directory '/lib/systemd/system'
/lib/systemd/system/console-kit-daemon.service is owned by consolekit 0.4.5-2
/lib/systemd/system/console-kit-log-system-restart.service is owned by consolekit 0.4.5-2
error: cannot determine ownership of directory '/lib/systemd/system/kexec.target.wants'
/lib/systemd/system/kexec.target.wants/console-kit-log-system-restart.service is owned by consolekit 0.4.5-2
error: cannot determine ownership of directory '/lib/systemd/system/basic.target.wants'
/lib/systemd/system/basic.target.wants/console-kit-log-system-start.service is owned by consolekit 0.4.5-2
error: cannot determine ownership of directory '/lib/systemd/system/poweroff.target.wants'
/lib/systemd/system/poweroff.target.wants/console-kit-log-system-stop.service is owned by consolekit 0.4.5-2
error: cannot determine ownership of directory '/lib/systemd/system/halt.target.wants'
/lib/systemd/system/halt.target.wants/console-kit-log-system-stop.service is owned by consolekit 0.4.5-2
error: cannot determine ownership of directory '/lib/systemd/system/reboot.target.wants'
/lib/systemd/system/reboot.target.wants/console-kit-log-system-restart.service is owned by consolekit 0.4.5-2
/lib/systemd/system/console-kit-log-system-stop.service is owned by consolekit 0.4.5-2
/lib/systemd/system/console-kit-log-system-start.service is owned by consolekit 0.4.5-2
/lib/libdl-2.16.so is owned by glibc 2.16.0-1
/lib/libnsl-2.16.so is owned by glibc 2.16.0-1
/lib/libnss_nis.so.2 is owned by glibc 2.16.0-1
/lib/libnss_dns-2.16.so is owned by glibc 2.16.0-1
/lib/libpcprofile.so is owned by glibc 2.16.0-1
/lib/libnss_db-2.16.so is owned by glibc 2.16.0-1
/lib/libanl.so.1 is owned by glibc 2.16.0-1
/lib/libthread_db.so.1 is owned by glibc 2.16.0-1
Again, I'm not sure what to do here.
On an irrelevant note, a red flag went up earlier. By some means, it appears I messed up Arch. Is there a chance I can fix the issue with the kernel or is the best option a reinstall?
(482/563) upgrading linux [################] 100%
>>> Updating module dependencies. Please wait ...
depmod: ERROR: could not open directory /lib/modules/3.6.10-1-ARCH: No such file or directory
depmod: FATAL: could not search modules: No such file or directory
>>> Generating initial ramdisk, using mkinitcpio. Please wait...
==> Building image from preset: 'default'
-> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux.img
==> ERROR: '/lib/modules/3.6.10-1-ARCH' is not a valid kernel module directory
==> Building image from preset: 'fallback'
-> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux-fallback.img -S autodetect
==> ERROR: '/lib/modules/3.6.10-1-ARCH' is not a valid kernel module directory
error: command failed to execute correctly
(498/563) upgrading nvidia [################] 100%
depmod: ERROR: could not open directory /lib/modules/3.6.10-1-ARCH: No such file or directory
depmod: FATAL: could not search modules: No such file or directory
If your card is from the 7xxx series or earlier, install nvidia-304xx
[asdf@asdf ~]$ ls -ld /lib
drwxr-xr-x 6 root root 4096 Dec 22 15:11 /lib
[asdf@asdf ~]$ mkinitcpio -p linux
==> Building image from preset: 'default'
-> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux.img
==> ERROR: '/lib/modules/3.6.10-1-ARCH' is not a valid kernel module directory
==> Building image from preset: 'fallback'
-> -k /boot/vmlinuz-linux -c /etc/mkinitcpio.conf -g /boot/initramfs-linux-fallback.img -S autodetect
==> ERROR: '/lib/modules/3.6.10-1-ARCH' is not a valid kernel module directory
Thanks in advance.
Last edited by illusory (2012-12-24 00:24:47)

Answer 1

I checked out https://wiki.archlinux.org/index.php/Initramfs, and I'm not sure what to do. I rebooted a few times in attempt to get things going. I'm assuming I need to start by logging in to the live CD as root and mounting the sda in which Arch is installed? I don't know how to mount root nor know the complete title for the Arch partition (sda x,x). Sorry for the hassle.
Edit: Found https://wiki.archlinux.org/index.php/Ch … partitions. Be back in a bit.
I currently have the temporary filesystems mounted, chrooted, and am in bash.
# mkinitcpio -p linux
doesn't work. I tried
mkinitcpio -g ..... 3.6.10-1-ARCH
and I received something about 3.6.10 and a module directory.
Last edited by illusory (2012-12-23 23:26:00)