Description of problem: I installed my Fedora from the full DVD 4.3GB, not the LIVE CD. yum update hangs when the dependency mono-core core dumps, but mono-core is blaclkisted. The suggested fix of :- 1. cleaning out the locks and then running yum update should work but it suggests running yum-complete-transaction - which then kills the system 2. yum-complete-transaction then proceeds to erase most of the packages in the system [about 1000], leaving you with a dead system but with duplicate packages from other platform types. Version-Release number of selected component (if applicable): mono-core-2.10.8-3.fc18.x86_64 --- PackageKit-yum-plugin-0.8.7-1.fc18.x86_64 yumex-3.0.10-1.fc18.noarch PackageKit-yum-0.8.7-1.fc18.x86_64 yum-metadata-parser-1.1.4-7.fc18.x86_64 anaconda-yum-plugins-1.0-8.fc18.noarch yum-langpacks-0.3.0-4.fc18.noarch yum-utils-1.1.31-7.fc18.noarch yum-plugin-fastestmirror-1.1.31-7.fc18.noarch yum-presto-0.9.0-1.fc18.noarch yum-3.4.3-48.fc18.noarch How reproducible: Steps to Reproduce: 1. yum update and receive more than 24 updates 2. After about 23 updates, yum hangs 3. tail -40 /var/log/messages and see that mono-core core dumped, but was blacklisted, so no alert was raised 4. Kill yum 5. Clean up rpm database - rm /var/lib/rpm/__db* 6. rebuild rpm database - rpm --rebuilddb 7. yum update -- suggests you run yum-complete-transaction 8. yum-complete-transaction --> it does not ask you to confirm the deletion of packages !!! Actual results: A completely broken system. a. Missing packages b. Duplicated packages of another platform, old x86_64 and *i586 This is the second time that I got caught in this trap, I thought that by cleaning out Expected results: An updated system, based on suggested updates. a. A yum dependency. momo-core is broken. b. yum-complete-transaction then deletes required packages and then adds other platform The only solution I found last time was to wipe the disk and start again. I spent the last 2 days installing Fedora 18, adding require packages, company's client layer and then to have it corrupted. I am removing this disk and replacing it with a working Fedora 16 system, leaving the disk as-is to see if there is a work-around Additional info:
Reproduction steps - change 2. After about 13 updates, yum hangs
Looks like a potential dupe of bug 907846.
Hi Panu, I think that you go the duplication reference wrong, this issue is "bug 907846". Can you post the bug issue number here pls. I have rebuild the machine and I did not use the same recommended Swap Space. The disk is 750GB and recommended swap was 10GB. I have 20GB of RAM, which is an immediate problem. My rebuilt machine has 27GB of Swap Space now. The system is much faster and responsive with heavy tasks. I have re-run yum update and I have seen update count of 1200 successfully updated. Could be early days, but so good so far. I have also deployed F18 via LIVE-CD now and not via the Full DVD, 4.3GB
Argh. Sorry about that copy-paste mistake, bug 860500 is what I meant.
This is unbelievable but this is NEARLY the same bug ... In my instance I am seeing the hang of yum associated with the core dumping of mono-core. I am running Docky and Docky dies when mono is killed. I have had this issue a number of times and there are two scenarios:- a. leave yum alone and it restarts automatically b. start another yum process like yum list or info and the previous yum kicks back into life. I have a capture of both scenarios today. It is very very frustrating. I killed yum previously and now I have a set of duplicated packages that I cannot resolve ... This yum update had 2 freezes in this update. Not only is that interesting but mono cored twice just prior to yum freezing. ================================== Feb 8 13:07:53 naipaulpc yum[29036]: Updated: kmod-12-1.fc18.x86_64 Feb 8 13:07:54 naipaulpc yum[29036]: Updated: eclipse-emf-sdk-2.8.1-7.fc18.noarch Feb 8 13:07:55 naipaulpc yum[29036]: Updated: eclipse-emf-xsd-2.8.1-7.fc18.noarch Feb 8 13:07:56 naipaulpc yum[29036]: Updated: util-linux-2.22.2-3.fc18.x86_64 Feb 8 13:07:59 naipaulpc dbus[2777]: avc: received policyload notice (seqno=2) Feb 8 13:07:59 naipaulpc dbus[2967]: avc: received policyload notice (seqno=2) Feb 8 13:07:59 naipaulpc dbus[969]: avc: received policyload notice (seqno=2) Feb 8 13:07:59 naipaulpc dbus[3920]: avc: received policyload notice (seqno=2) Feb 8 13:07:59 naipaulpc dbus-daemon[969]: dbus[969]: avc: received policyload notice (seqno=2) Feb 8 13:07:59 naipaulpc dbus-daemon[969]: dbus[969]: [system] Reloaded configuration Feb 8 13:07:59 naipaulpc dbus[969]: [system] Reloaded configuration Feb 8 13:08:01 naipaulpc yum[29036]: Updated: selinux-policy-targeted-3.11.1-74.fc18.noarch Feb 8 13:08:14 naipaulpc yum[29036]: Updated: selinux-policy-devel-3.11.1-74.fc18.noarch Feb 8 13:08:15 naipaulpc yum[29036]: Updated: selinux-policy-doc-3.11.1-74.fc18.noarch Feb 8 13:08:16 naipaulpc yum[29036]: Updated: libuuid-devel-2.22.2-3.fc18.x86_64 Feb 8 13:08:16 naipaulpc yum[29036]: Updated: qdox-1.12.1-2.fc18.noarch Feb 8 13:08:19 naipaulpc yum[29036]: Updated: 1:java-1.7.0-openjdk-devel-1.7.0.9-2.3.5.fc18.1.x86_64 Feb 8 13:08:20 naipaulpc yum[29036]: Updated: 1:telepathy-mission-control-5.14.0-2.fc18.x86_64 Feb 8 13:08:21 naipaulpc abrtd: Directory 'ccpp-2013-02-08-13:08:20-3059' creation detected Feb 8 13:08:21 naipaulpc abrt[2452]: Saved core dump of pid 3059 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-08-13:08:20-3059 (149311488 bytes) Feb 8 13:08:21 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 2452 Feb 8 13:08:22 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 8 13:08:22 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-08-13:08:20-3059' exited with 1 Feb 8 13:08:22 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-08-13:08:20-3059', deleting Feb 8 13:08:22 naipaulpc yum[29036]: Updated: fedora-logos-17.0.3-3.fc18.noarch Feb 8 13:17:10 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 13:17:10 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 13:17:10 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 13:17:10 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 13:26:33 naipaulpc kernel: [ 7824.156583] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 13:26:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 13:46:32 naipaulpc kernel: [ 9021.376849] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 13:46:33 naipaulpc dnsmasq[2228]: reading /etc/resolv.conf Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 192.168.0.1#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 9.64.163.21#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 9.64.162.21#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using local addresses only for unqualified names Feb 8 13:46:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 14:06:33 naipaulpc kernel: [10220.609872] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 14:06:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 14:13:06 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:13:06 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:13:06 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:13:06 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:13:06 naipaulpc yum[29036]: Updated: iputils-20121221-2.fc18.x86_64 Feb 8 14:13:07 naipaulpc yum[29036]: Updated: flash-plugin-11.2.202.262-release.x86_64 Feb 8 14:13:08 naipaulpc yum[29036]: Updated: 1:akmod-nvidia-304.64-4.fc18.x86_64 Feb 8 14:13:08 naipaulpc yum[29036]: Updated: khrplatform-devel-9.0.1-4.fc18.noarch Feb 8 14:13:09 naipaulpc yum[29036]: Installed: colord-libs-0.1.28-1.fc18.i686 Feb 8 14:13:09 naipaulpc yum[29036]: Updated: libuuid-2.22.2-3.fc18.i686 Feb 8 14:13:26 naipaulpc abrtd: Directory 'ccpp-2013-02-08-14:13:24-24690' creation detected Feb 8 14:13:26 naipaulpc abrt[23686]: Saved core dump of pid 24690 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-08-14:13:24-24690 (132550656 bytes) Feb 8 14:13:26 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 8 14:13:26 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-08-14:13:24-24690' exited with 1 Feb 8 14:13:26 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-08-14:13:24-24690', deleting Feb 8 14:15:41 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:15:41 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:15:41 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:15:41 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:15:42 naipaulpc systemd[1]: Reloading. Feb 8 14:15:42 naipaulpc systemd[1]: access() failed on /etc/rc.d/rc1.d/K57thinkfan: Permission denied Feb 8 14:15:42 naipaulpc systemd[1]: access() failed on /etc/rc.d/rc2.d/K57thinkfan: Permission denied Feb 8 14:15:42 naipaulpc systemd[1]: access() failed on /etc/rc.d/rc3.d/S45thinkfan: Permission denied /K57thinkfan: Permission denied Feb 8 14:15:43 naipaulpc yum[29036]: Erased: shared-color-profiles-0.1.6-1.fc18.noarch ================================== [root@naipaulpc ~]# yum list BDB2053 Freeing read locks for locker 0x152: 2655/140634628196288 BDB2053 Freeing read locks for locker 0x153: 2655/140634628196288 BDB2053 Freeing read locks for locker 0x154: 2655/140634628196288 BDB2053 Freeing read locks for locker 0x155: 2655/140634628196288 Loaded plugins: fastestmirror, ibm-repository, langpacks, presto, refresh-packagekit Existing lock /var/run/yum.pid: another copy is running as pid 29036. Another app is currently holding the yum lock; waiting for it to exit... The other application is: yum Memory : 182 M RSS (1.4 GB VSZ) Started: Fri Feb 8 13:06:16 2013 - 1:06:50 ago State : Uninterruptible, pid: 29036 Another app is currently holding the yum lock; waiting for it to exit... The other application is: yum Memory : 182 M RSS (1.4 GB VSZ) Started: Fri Feb 8 13:06:16 2013 - 1:06:52 ago State : Uninterruptible, pid: 29036 Another app is currently holding the yum lock; waiting for it to exit... The other application is: yum Memory : 182 M RSS (1.4 GB VSZ) Started: Fri Feb 8 13:06:16 2013 - 1:06:54 ago State : Running, pid: 29036 ^C Exiting on user cancel. [root@naipaulpc ~]# yum list BDB2053 Freeing read locks for locker 0x15a: 23876/140397130778560 BDB2053 Freeing read locks for locker 0x15b: 23876/140397130778560 BDB2053 Freeing read locks for locker 0x15c: 23876/140397130778560 BDB2053 Freeing read locks for locker 0x15d: 23876/140397130778560 Loaded plugins: fastestmirror, ibm-repository, langpacks, presto, refresh-packagekit Existing lock /var/run/yum.pid: another copy is running as pid 29036. Another app is currently holding the yum lock; waiting for it to exit... The other application is: yum Memory : 182 M RSS (1.4 GB VSZ) Started: Fri Feb 8 13:06:16 2013 - 1:09:25 ago State : Uninterruptible, pid: 29036 Another app is currently holding the yum lock; waiting for it to exit... The other application is: yum Memory : 182 M RSS (1.4 GB VSZ) Started: Fri Feb 8 13:06:16 2013 - 1:09:27 ago State : Uninterruptible, pid: 29036 ^C Exiting on user cancel. ================================= The other was earlier today when mono cored in the middle of a yum update. Left it for 10 min and yum continued on its own. ================================= Feb 6 01:59:30 naipaulpc yum[21321]: Installed: agnclient-1.0-2.0.1.3003i.fc18.i386 Feb 6 01:59:30 naipaulpc dbus-daemon[943]: dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 01:59:30 naipaulpc dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 01:59:30 naipaulpc dbus-daemon[943]: dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 01:59:30 naipaulpc dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 01:59:40 naipaulpc abrtd: Directory 'ccpp-2013-02-06-01:59:39-15904' creation detected Feb 6 01:59:40 naipaulpc abrt[23467]: Saved core dump of pid 15904 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-06-01:59:39-15904 (132415488 bytes) Feb 6 01:59:40 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 6 01:59:40 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-06-01:59:39-15904' exited with 1 Feb 6 01:59:40 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-06-01:59:39-15904', deleting Feb 6 02:01:17 naipaulpc yum[26787]: Installed: 2:IBMwc-6.1-4.0_3.fc18.i386 Feb 6 02:01:17 naipaulpc yum[26787]: Installed: 2:IBMwc-https-6.1-4.0_1.fc18.i386 Feb 6 02:01:19 naipaulpc yum[26787]: Installed: 1:IBMwc-configs-6.1-1.0_19.fc18.noarch Feb 6 02:01:19 naipaulpc yum[26787]: Installed: 2:IBMwc-nls-6.1-4.0_1.fc18.i386 Feb 6 02:01:20 naipaulpc yum[26787]: Installed: 2:IBMwc-gui-6.1-4.0_4.fc18.i386 Feb 6 02:01:21 naipaulpc yum[26787]: Installed: 2:IBMwc-gui-nls-6.1-4.0_1.fc18.i386 Feb 6 02:01:22 naipaulpc yum[26787]: Installed: 2:IBMwc-ppp-6.1-4.0_1.fc18.i386 ======== Feb 6 02:31:16 naipaulpc colord: Device added: cups-PostScript Feb 6 02:31:16 naipaulpc yum[354]: Installed: ibm-print-install-gui-1.0-4.fc18.noarch Feb 6 02:31:16 naipaulpc dbus-daemon[943]: dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:31:16 naipaulpc dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:31:16 naipaulpc dbus-daemon[943]: dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:31:16 naipaulpc dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:32:09 naipaulpc dbus-daemon[943]: dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:32:09 naipaulpc dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:32:09 naipaulpc dbus-daemon[943]: dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:32:09 naipaulpc dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:32:44 naipaulpc yum[3210]: Installed: 5:ILC-1.5-CLAIM201106201430.noarch Feb 6 02:32:44 naipaulpc dbus-daemon[943]: dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:32:44 naipaulpc dbus[943]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 6 02:32:44 naipaulpc dbus-daemon[943]: dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:32:44 naipaulpc dbus[943]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 6 02:32:45 naipaulpc abrtd: Directory 'ccpp-2013-02-06-02:32:44-7378' creation detected Feb 6 02:32:45 naipaulpc abrt[4616]: Saved core dump of pid 7378 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-06-02:32:44-7378 (139608064 bytes) Feb 6 02:32:45 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 6 02:32:45 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-06-02:32:44-7378' exited with 1 Feb 6 02:32:45 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-06-02:32:44-7378', deleting Feb 6 02:39:42 naipaulpc yum[11434]: Installed: libXp-1.0.0-18.fc18.x86_64 Feb 6 02:39:52 naipaulpc yum[11434]: Installed: 1:java-1.6.0-ibm-1.6.0.12.0-oc.fc18.x86_64 Feb 6 02:39:53 naipaulpc yum[11434]: Installed: 1:java-1.6.0-ibm-plugin-1.6.0.12.0-oc.fc18.x86_64 ============== Feb 6 17:14:33 naipaulpc dbus[961]: [system] Reloaded configuration Feb 6 17:14:38 naipaulpc yum[7969]: Installed: system-config-services-0.101.8-1.fc18.noarch Feb 6 17:14:40 naipaulpc yum[7969]: Installed: system-config-services-docs-1.1.9-4.fc18.noarch Feb 6 17:14:41 naipaulpc yum[7969]: Installed: rdesktop-1.7.1-1.fc18.x86_64 Feb 6 17:14:42 naipaulpc yum[7969]: Installed: systemd-ui-1-3.fc18.x86_64 Feb 6 17:14:44 naipaulpc abrtd: Directory 'ccpp-2013-02-06-17:14:43-2964' creation detected Feb 6 17:14:44 naipaulpc abrt[8822]: Saved core dump of pid 2964 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-06-17:14:43-2964 (139022336 bytes) Feb 6 17:14:44 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 8822 Feb 6 17:14:44 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 6 17:14:44 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-06-17:14:43-2964' exited with 1 Feb 6 17:14:44 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-06-17:14:43-2964', deleting Feb 6 17:14:52 naipaulpc systemd[1]: SELinux Got Sender :1.189 Feb 6 17:14:52 naipaulpc systemd[1]: SELinux Got Sender :1.189 ============ Feb 7 01:31:22 naipaulpc systemd[1]: Started Job spooling tools. Feb 7 01:31:22 naipaulpc yum[12587]: Updated: google-chrome-stable-24.0.1312.69-180721.x86_64 Feb 7 01:31:23 naipaulpc dbus-daemon[979]: dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:31:23 naipaulpc dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:31:23 naipaulpc dbus-daemon[979]: dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:31:23 naipaulpc dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:31:25 naipaulpc abrtd: Directory 'ccpp-2013-02-07-01:31:23-2994' creation detected Feb 7 01:31:25 naipaulpc abrt[14686]: Saved core dump of pid 2994 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-07-01:31:23-2994 (162004992 bytes) Feb 7 01:31:25 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 14686 Feb 7 01:31:25 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 7 01:31:25 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-07-01:31:23-2994' exited with 1 Feb 7 01:31:25 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-07-01:31:23-2994', deleting Feb 7 01:31:48 naipaulpc chronyd[1135]: Selected source 95.170.88.20 Feb 7 01:33:00 naipaulpc systemd-logind[973]: New session 3 of user root. Feb 7 01:33:00 naipaulpc systemd-logind[973]: Removed session 3. Feb 7 01:34:23 naipaulpc yum[20670]: Installed: wxBase-2.8.12-5.fc18.x86_64 Feb 7 01:34:24 naipaulpc yum[20670]: Installed: wxGTK-2.8.12-5.fc18.x86_64 Feb 7 01:34:25 naipaulpc yum[20670]: Installed: realcrypt-7.1a-2.fc18.x86_64 ================ Feb 7 01:44:58 naipaulpc dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:45:03 naipaulpc yum[13098]: Erased: calibre-0.9.8-1.fc18.x86_64 Feb 7 01:45:07 naipaulpc dbus-daemon[979]: dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:45:07 naipaulpc dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:45:07 naipaulpc dbus-daemon[979]: dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:45:07 naipaulpc dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:46:20 naipaulpc kernel: [ 1237.617750] usb 1-1.5.4: reset high-speed USB device number 8 using ehci_hcd Feb 7 01:46:23 naipaulpc udisksd[1776]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 7 01:48:00 naipaulpc abrtd: Directory 'ccpp-2013-02-07-01:47:59-9456' creation detected Feb 7 01:48:00 naipaulpc abrt[20652]: Saved core dump of pid 9456 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-07-01:47:59-9456 (165937152 bytes) Feb 7 01:48:00 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 20652 Feb 7 01:48:00 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 7 01:48:00 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-07-01:47:59-9456' exited with 1 Feb 7 01:48:00 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-07-01:47:59-9456', deleting Feb 7 01:59:22 naipaulpc dbus-daemon[979]: dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:59:22 naipaulpc dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 01:59:22 naipaulpc dbus-daemon[979]: dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 01:59:22 naipaulpc dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 02:02:29 naipaulpc dbus-daemon[979]: dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 02:02:29 naipaulpc dbus[979]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 02:02:29 naipaulpc dbus-daemon[979]: dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 02:02:29 naipaulpc dbus[979]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 02:02:49 naipaulpc yum[19763]: Installed: ksh-20120801-3.fc18.x86_64 Feb 7 02:02:50 naipaulpc yum[19763]: Installed: nautilus-python-1.1-3.fc18.x86_64 Feb 7 02:02:51 naipaulpc yum[19763]: Installed: nautilus-pastebin-0.5.0-7.fc18.x86_64 Feb 7 02:02:53 naipaulpc yum[19763]: Installed: nautilus-actions-3.2.2-2.fc18.x86_64 Feb 7 02:02:56 naipaulpc yum[19763]: Installed: nautilus-open-terminal-0.19-6.fc18.x86_64 Feb 7 02:02:56 naipaulpc yum[19763]: Installed: nautilus-search-tool-0.3.0-14.fc18.x86_64 ======================= Feb 7 20:55:07 naipaulpc dbus[974]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 20:55:23 naipaulpc yum[28624]: Installed: 1:gnome-games-data-3.6.1-1.fc18.noarch Feb 7 20:55:24 naipaulpc yum[28624]: Installed: 1:gnome-games-mahjongg-3.6.1-1.fc18.x86_64 Feb 7 20:55:25 naipaulpc yum[28624]: Installed: 1:gnome-games-iagno-3.6.1-1.fc18.x86_64 Feb 7 20:55:26 naipaulpc yum[28624]: Installed: 1:gnome-games-glines-3.6.1-1.fc18.x86_64 Feb 7 20:55:27 naipaulpc abrtd: Directory 'ccpp-2013-02-07-20:55:26-3002' creation detected Feb 7 20:55:27 naipaulpc abrt[29294]: Saved core dump of pid 3002 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-07-20:55:26-3002 (145371136 bytes) Feb 7 20:55:27 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 29294 Feb 7 20:55:28 naipaulpc yum[28624]: Installed: 1:gnome-games-gnobots2-3.6.1-1.fc18.x86_64 Feb 7 20:55:28 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 7 20:55:28 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-07-20:55:26-3002' exited with 1 Feb 7 20:55:28 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-07-20:55:26-3002', deleting Feb 7 21:05:15 naipaulpc dbus-daemon[974]: dbus[974]: [system] Rejected send message, 2 matched rules; type="method_return", sender=":1.5" (uid=0 pid=967 comm="/usr/lib/systemd/systemd-logind ") interface="(unset)" member="(unset)" error name="(unset)" requested_reply="0" destination=":1.93" (uid=1000 pid=2668 comm="gnome-session ") Feb 7 21:05:15 naipaulpc dbus[974]: [system] Rejected send message, 2 matched rules; type="method_return", sender=":1.5" (uid=0 pid=967 comm="/usr/lib/systemd/systemd-logind ") interface="(unset)" member="(unset)" error name="(unset)" requested_reply="0" destination=":1.93" (uid=1000 pid=2668 comm="gnome-session ") Feb 7 21:05:26 naipaulpc dbus-daemon[974]: dbus[974]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 21:05:26 naipaulpc dbus[974]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 7 21:05:26 naipaulpc dbus-daemon[974]: dbus[974]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 21:05:26 naipaulpc dbus[974]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 7 21:08:18 naipaulpc dbus-daemon[974]: dbus[974]: [system] Activating service name='net.reactivated.Fprint' (using servicehelper) Feb 7 21:08:18 naipaulpc dbus[974]: [system] Activating service name='net.reactivated.Fprint' (using servicehelper) Feb 7 21:08:18 naipaulpc dbus-daemon[974]: dbus[974]: [system] Successfully activated service 'net.reactivated.Fprint' Feb 7 21:08:18 naipaulpc dbus[974]: [system] Successfully activated service 'net.reactivated.Fprint' Feb 7 21:08:18 naipaulpc dbus-daemon[974]: Launching FprintObject Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: D-Bus service launched with name: net.reactivated.Fprint Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: entering main loop Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: user 'nojar' claiming the device: 0 Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: now monitoring fd 10 Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: device 0 claim status 0 Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: no longer monitoring fd 10 Feb 7 21:08:18 naipaulpc dbus-daemon[974]: ** Message: released device 0 Feb 7 21:08:27 naipaulpc gdm-simple-slave[1474]: WARNING: GdmSlave: could not fetch type of session '1': No such file or directory Feb 7 21:08:27 naipaulpc dbus-daemon[974]: dbus[974]: [system] Rejected send message, 2 matched rules; type="method_return", sender=":1.5" (uid=0 pid=967 comm="/usr/lib/systemd/systemd-logind ") interface="(unset)" member="(unset)" error name="(unset)" requested_reply="0" destination=":1.93" (uid=1000 pid=2668 comm="gnome-session ") Feb 7 21:08:27 naipaulpc dbus[974]: [system] Rejected send message, 2 matched rules; type="method_return", sender=":1.5" (uid=0 pid=967 comm="/usr/lib/systemd/systemd-logind ") interface="(unset)" member="(unset)" error name="(unset)" requested_reply="0" destination=":1.93" (uid=1000 pid=2668 comm="gnome-session ") Feb 7 21:08:48 naipaulpc dbus-daemon[974]: ** Message: No devices in use, exit Feb 7 21:13:38 naipaulpc setroubleshoot: SELinux is preventing /usr/lib64/xulrunner/plugin-container from write access on the file /home/nojar/workplace-tmp/iwp-log-notes-nojar.txt. For complete SELinux messages. run sealert -l 93de730b-9899-4781-986a-64b1d33f3d1e Feb 7 21:13:38 naipaulpc yum[28624]: Installed: gnome-games-extra-data-3.2.0-4.fc18.noarch Feb 7 21:13:39 naipaulpc yum[28624]: Installed: 1:gnome-games-gnotravex-3.6.1-1.fc18.x86_64 Feb 7 21:13:40 naipaulpc yum[28624]: Installed: 1:gnome-games-sudoku-3.6.1-1.fc18.noarch
This capture has 2 two yum hangs and two mono-cores Feb 8 13:07:59 naipaulpc dbus[969]: [system] Reloaded configuration Feb 8 13:08:01 naipaulpc yum[29036]: Updated: selinux-policy-targeted-3.11.1-74.fc18.noarch Feb 8 13:08:14 naipaulpc yum[29036]: Updated: selinux-policy-devel-3.11.1-74.fc18.noarch Feb 8 13:08:15 naipaulpc yum[29036]: Updated: selinux-policy-doc-3.11.1-74.fc18.noarch Feb 8 13:08:16 naipaulpc yum[29036]: Updated: libuuid-devel-2.22.2-3.fc18.x86_64 Feb 8 13:08:16 naipaulpc yum[29036]: Updated: qdox-1.12.1-2.fc18.noarch Feb 8 13:08:19 naipaulpc yum[29036]: Updated: 1:java-1.7.0-openjdk-devel-1.7.0.9-2.3.5.fc18.1.x86_64 Feb 8 13:08:20 naipaulpc yum[29036]: Updated: 1:telepathy-mission-control-5.14.0-2.fc18.x86_64 Feb 8 13:08:21 naipaulpc abrtd: Directory 'ccpp-2013-02-08-13:08:20-3059' creation detected Feb 8 13:08:21 naipaulpc abrt[2452]: Saved core dump of pid 3059 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-08-13:08:20-3059 (149311488 bytes) Feb 8 13:08:21 naipaulpc abrtd: Lock file '/var/spool/abrt/ccpp-2013-02-06-00:13:05-1735/.lock' is locked by process 2452 Feb 8 13:08:22 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 8 13:08:22 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-08-13:08:20-3059' exited with 1 Feb 8 13:08:22 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-08-13:08:20-3059', deleting Feb 8 13:08:22 naipaulpc yum[29036]: Updated: fedora-logos-17.0.3-3.fc18.noarch Feb 8 13:17:10 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 13:17:10 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 13:17:10 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 13:17:10 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 13:26:33 naipaulpc kernel: [ 7824.156583] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 13:26:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 13:46:32 naipaulpc kernel: [ 9021.376849] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 13:46:33 naipaulpc dnsmasq[2228]: reading /etc/resolv.conf Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 192.168.0.1#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 9.64.163.21#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using nameserver 9.64.162.21#53 Feb 8 13:46:33 naipaulpc dnsmasq[2228]: using local addresses only for unqualified names Feb 8 13:46:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 14:06:33 naipaulpc kernel: [10220.609872] usb 1-1.5.4: reset high-speed USB device number 12 using ehci_hcd Feb 8 14:06:36 naipaulpc udisksd[1761]: Error performing housekeeping for drive /org/freedesktop/UDisks2/drives/WDC_WD20EADS_11R6B1_WD_WCAVY1643772: Error updating SMART data: sk_disk_check_sleep_mode: Operation not supported (udisks-error-quark, 0) Feb 8 14:13:06 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:13:06 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:13:06 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:13:06 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:13:06 naipaulpc yum[29036]: Updated: iputils-20121221-2.fc18.x86_64 Feb 8 14:13:07 naipaulpc yum[29036]: Updated: flash-plugin-11.2.202.262-release.x86_64 Feb 8 14:13:08 naipaulpc yum[29036]: Updated: 1:akmod-nvidia-304.64-4.fc18.x86_64 Feb 8 14:13:08 naipaulpc yum[29036]: Updated: khrplatform-devel-9.0.1-4.fc18.noarch Feb 8 14:13:09 naipaulpc yum[29036]: Installed: colord-libs-0.1.28-1.fc18.i686 Feb 8 14:13:09 naipaulpc yum[29036]: Updated: libuuid-2.22.2-3.fc18.i686 Feb 8 14:13:26 naipaulpc abrtd: Directory 'ccpp-2013-02-08-14:13:24-24690' creation detected Feb 8 14:13:26 naipaulpc abrt[23686]: Saved core dump of pid 24690 (/usr/bin/mono) to /var/spool/abrt/ccpp-2013-02-08-14:13:24-24690 (132550656 bytes) Feb 8 14:13:26 naipaulpc abrtd: Blacklisted package 'mono-core' Feb 8 14:13:26 naipaulpc abrtd: 'post-create' on '/var/spool/abrt/ccpp-2013-02-08-14:13:24-24690' exited with 1 Feb 8 14:13:26 naipaulpc abrtd: Corrupted or bad directory '/var/spool/abrt/ccpp-2013-02-08-14:13:24-24690', deleting Feb 8 14:15:41 naipaulpc dbus-daemon[969]: dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:15:41 naipaulpc dbus[969]: [system] Activating service name='org.freedesktop.PackageKit' (using servicehelper) Feb 8 14:15:41 naipaulpc dbus-daemon[969]: dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:15:41 naipaulpc dbus[969]: [system] Successfully activated service 'org.freedesktop.PackageKit' Feb 8 14:15:42 naipaulpc systemd[1]: Reloading. ======================= Yum does not depend on mono-core as a package but the linkage is so uncanny ... if yum is operational and mono-cores, yum will freeze. - as one aspect. Why ??
By all appearences this is the same very thing as bug 860500, ie its hanging waiting for a database lock. Whether the cause is the same remains to be seen, but the logs snippets provide an important clue, thanks: The trouble-maker here is very likely to be abrtd: it's triggered by the core-dump in mid-transaction, and accesses the rpmdb while going about its business. If it leaves stale locks behind it, the whole thing hangs up until something (such as running yum again, or 'rpm -qa' as root or such) releases those locks.
*** This bug has been marked as a duplicate of bug 860500 ***