Dependency Conflict between Percona-XtraDB-Cluster-shared and Percona-Server-shared-compat

[Nathan West]

Hello,

I've installed Percona-XtraDB-Cluster-5.5.28 on CentOS 6.3 and have it up and running successfully. (using yum)

I've attempted to install the percona-toolkit but have had issues resolving some dependencies. I was able to resolve all of them except for perl(DBD::mysql) Log is below.

No other mysql version had been installed previously.

I tried to softlink libmysqlclient.so.16, following a forum post I found but that didn't work. I also tried to install the Percona-server-shared-compat library, but that erred with other dependency issues.

[root@percona1 ~]# yum install percona-toolkit
Loaded plugins: fastestmirror, presto
Loading mirror speeds from cached hostfile
 * base: dist1.800hosting.com
 * epel: mirror.steadfast.net
 * extras: centos.mirrors.tds.net
 * updates: mirror.cisp.com
Setting up Install Process
Resolving Dependencies
--> Running transaction check
---> Package percona-toolkit.noarch 0:2.1.7-1 will be installed
--> Processing Dependency: perl(DBD::mysql) >= 1.0 for package: percona-toolkit-2.1.7-1.noarch
--> Running transaction check
---> Package perl-DBD-MySQL.x86_64 0:4.013-3.el6 will be installed
--> Processing Dependency: libmysqlclient.so.16(libmysqlclient_16)(64bit) for package: perl-DBD-MySQL-4.013-3.el6.x86_64
--> Processing Dependency: libmysqlclient.so.16()(64bit) for package: perl-DBD-MySQL-4.013-3.el6.x86_64
--> Running transaction check
---> Package Percona-Server-shared-51.x86_64 0:5.1.66-rel14.1.496.rhel6 will be installed
--> Processing Conflict: 1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64 conflicts Percona-Server-shared-51
--> Processing Conflict: 1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64 conflicts mysql-libs
--> Finished Dependency Resolution
Error: Percona-XtraDB-Cluster-shared conflicts with Percona-Server-shared-51
 You could try using --skip-broken to work around the problem
** Found 3 pre-existing rpmdb problem(s), 'yum check' output follows:
1:Percona-XtraDB-Cluster-client-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql: 1:Percona-XtraDB-Cluster-client-5.5.28-23.7.369.rhel6.x86_64
1:Percona-XtraDB-Cluster-server-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql-server: 1:Percona-XtraDB-Cluster-server-5.5.28-23.7.369.rhel6.x86_64
1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql-libs: 1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64

[Raghavendra D Prabhu (raghavendra-prabhu)]

@Nathan,

This is a known issue, for now, the workaround is to install
Percona-Server-shared-compat before installing the
percona-toolkit. Let us know if this fixes your issue.

[Nathan West (nathan-west)]

@Raghavendra

Thanks for the quick response. Installing the shared-compat library failed also.

Do I need to install the shared-compat library before XtraDB-cluster?

[root@percona1 yum.repos.d]# yum install Percona-Server-shared-compat
Loaded plugins: fastestmirror, presto
Loading mirror speeds from cached hostfile
epel/metalink | 11 kB 00:00
 * base: dist1.800hosting.com
 * epel: mirror.unl.edu
 * extras: centos.mirrors.tds.net
 * updates: mirror.cisp.com
base | 3.7 kB 00:00
epel | 4.3 kB 00:00
epel/primary_db | 4.9 MB 00:01
extras | 3.5 kB 00:00
percona | 951 B 00:00
rbel6 | 1.9 kB 00:00
updates | 3.5 kB 00:00
Setting up Install Process
Resolving Dependencies
--> Running transaction check
---> Package Percona-Server-shared-compat.x86_64 0:5.5.28-rel29.1.335.rhel6 will be installed
--> Processing Conflict: 1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64 conflicts mysql-libs
--> Finished Dependency Resolution
Error: Percona-XtraDB-Cluster-shared conflicts with Percona-Server-shared-compat
 You could try using --skip-broken to work around the problem
** Found 3 pre-existing rpmdb problem(s), 'yum check' output follows:
1:Percona-XtraDB-Cluster-client-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql: 1:Percona-XtraDB-Cluster-client-5.5.28-23.7.369.rhel6.x86_64
1:Percona-XtraDB-Cluster-server-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql-server: 1:Percona-XtraDB-Cluster-server-5.5.28-23.7.369.rhel6.x86_64
1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64 has installed conflicts mysql-libs: 1:Percona-XtraDB-Cluster-shared-5.5.28-23.7.369.rhel6.x86_64

[Raghavendra D Prabhu (raghavendra-prabhu)]

@Nathan,

It is broken with 5.5.28 PXC, though not broken with 5.5.27.
Looks like a regression. Thanks for the details.

This is because:

sudo repoquery --conflicts Percona-XtraDB-Cluster-shared
Percona-Server-shared-51
Percona-Server-shared-55
mysql-libs
raghu archie:~ [118]% sudo repoquery --provides Percona-Server-shared-compat
MySQL-shared
Percona-Server-shared-compat = 5.5.28-rel29.1.335.rhel6
Percona-Server-shared-compat(x86-64) = 5.5.28-rel29.1.335.rhel6
libmysqlclient.so.12()(64bit)
libmysqlclient.so.14()(64bit)
libmysqlclient.so.14(libmysqlclient_14)(64bit)
libmysqlclient.so.15()(64bit)
libmysqlclient.so.15(libmysqlclient_15)(64bit)
libmysqlclient.so.16()(64bit)
libmysqlclient.so.16(libmysqlclient_16)(64bit)
libmysqlclient_r.so.12()(64bit)
libmysqlclient_r.so.14()(64bit)
libmysqlclient_r.so.14(libmysqlclient_14)(64bit)
libmysqlclient_r.so.15()(64bit)
libmysqlclient_r.so.15(libmysqlclient_15)(64bit)
libmysqlclient_r.so.16()(64bit)
libmysqlclient_r.so.16(libmysqlclient_16)(64bit)
mysql-libs

[Raghavendra D Prabhu (raghavendra-prabhu)]

For 5.5.27:

sudo rpm -q --conflicts Percona-XtraDB-Cluster-shared
Percona-Server-shared-55
Percona-Server-shared-51

For 5.5.28:

sudo repoquery --conflicts Percona-XtraDB-Cluster-shared
Percona-Server-shared-51
Percona-Server-shared-55
mysql-libs

mysql-libs was added and is causing the conflict.

[Raghavendra D Prabhu (raghavendra-prabhu)]

@Nathan,

I don't see mysql-libs in Conflicts: any longer. Are you still
seeing this issue?

[Raghavendra D Prabhu (raghavendra-prabhu)]

Marking as incomplete for now.

[Lars Wilke (lw-lwilke)]

Hi,

i see this problem.

On a complete new CentOS6.4 install i do the following:

1. rpm -Uhv http://www.percona.com/downloads/percona-release/percona-release-0.0-2.x86_64.rpm
2. rpm -qa|grep -i percona
    => percona-release-0.0-1.x86_64
3. yum upgrade, and i get

Loaded plugins: fastestmirror
Loading mirror speeds from cached hostfile
 * base: centos.mirror.linuxwerk.com
 * epel: vesta.informatik.rwth-aachen.de
 * extras: centos.mirror.linuxwerk.com
 * updates: ftp.hosteurope.de
Setting up Upgrade Process
Resolving Dependencies
--> Running transaction check
---> Package Percona-Server-shared-51.x86_64 0:5.1.70-rel14.8.580.rhel6 will be obsoleting
---> Package Percona-Server-shared-55.x86_64 0:5.5.32-rel31.0.549.rhel6 will be obsoleting
---> Package Percona-Server-shared-56.x86_64 0:5.6.12-rc60.4.393.rhel6 will be obsoleting
---> Package Percona-Server-shared-compat.x86_64 0:5.5.32-rel31.0.549.rhel6 will be obsoleting
---> Package Percona-XtraDB-Cluster-shared.x86_64 1:5.5.31-23.7.5.438.rhel6 will be obsoleting
---> Package mysql-libs.x86_64 0:5.1.69-1.el6_4 will be obsoleted
--> Processing Conflict: Percona-Server-shared-56-5.6.12-rc60.4.393.rhel6.x86_64 conflicts Percona-Server-shared-55
--> Processing Conflict: 1:Percona-XtraDB-Cluster-shared-5.5.31-23.7.5.438.rhel6.x86_64 conflicts Percona-Server-shared-55
--> Finished Dependency Resolution
Error: Percona-XtraDB-Cluster-shared conflicts with Percona-Server-shared-55-5.5.32-rel31.0.549.rhel6.x86_64
Error: Percona-Server-shared-56 conflicts with Percona-Server-shared-55-5.5.32-rel31.0.549.rhel6.x86_64
 You could try using --skip-broken to work around the problem
 You could try running: rpm -Va --nofiles --nodigest

The mysql-libs are a postfix dependency. See rpm -qR postfix.

[Lars Wilke (lw-lwilke)]

yum -x "Percona-Server-shared-*" upgrade
Loaded plugins: fastestmirror
Loading mirror speeds from cached hostfile
 * base: centos.mirror.linuxwerk.com
 * epel: vesta.informatik.rwth-aachen.de
 * extras: centos.mirror.linuxwerk.com
 * updates: ftp.hosteurope.de
Setting up Upgrade Process
Resolving Dependencies
--> Running transaction check
---> Package Percona-XtraDB-Cluster-shared.x86_64 1:5.5.31-23.7.5.438.rhel6 will be obsoleting
---> Package mysql-libs.x86_64 0:5.1.69-1.el6_4 will be obsoleted
--> Processing Dependency: libmysqlclient.so.16()(64bit) for package: 2:postfix-2.6.6-2.2.el6_1.x86_64
--> Processing Dependency: libmysqlclient.so.16(libmysqlclient_16)(64bit) for package: 2:postfix-2.6.6-2.2.el6_1.x86_64
--> Finished Dependency Resolution
Error: Package: 2:postfix-2.6.6-2.2.el6_1.x86_64 (@base)
           Requires: libmysqlclient.so.16()(64bit)
           Removing: mysql-libs-5.1.69-1.el6_4.x86_64 (@updates)
               libmysqlclient.so.16()(64bit)
           Obsoleted By: 1:Percona-XtraDB-Cluster-shared-5.5.31-23.7.5.438.rhel6.x86_64 (percona)
               Not found
           Available: mysql-libs-5.1.66-2.el6_3.x86_64 (base)
               libmysqlclient.so.16()(64bit)
           Available: mysql-libs-5.1.67-1.el6_3.x86_64 (updates)
               libmysqlclient.so.16()(64bit)
Error: Package: 2:postfix-2.6.6-2.2.el6_1.x86_64 (@base)
           Requires: libmysqlclient.so.16(libmysqlclient_16)(64bit)
           Removing: mysql-libs-5.1.69-1.el6_4.x86_64 (@updates)
               libmysqlclient.so.16(libmysqlclient_16)(64bit)
           Obsoleted By: 1:Percona-XtraDB-Cluster-shared-5.5.31-23.7.5.438.rhel6.x86_64 (percona)
               Not found
           Available: mysql-libs-5.1.66-2.el6_3.x86_64 (base)
               libmysqlclient.so.16(libmysqlclient_16)(64bit)
           Available: mysql-libs-5.1.67-1.el6_3.x86_64 (updates)
               libmysqlclient.so.16(libmysqlclient_16)(64bit)
 You could try using --skip-broken to work around the problem
 You could try running: rpm -Va --nofiles --nodigest

[Lars Wilke (lw-lwilke)]

A possible solution

yum install Percona-XtraDB-Cluster-shared
Loaded plugins: fastestmirror
Loading mirror speeds from cached hostfile
 * base: centos.mirror.linuxwerk.com
 * epel: vesta.informatik.rwth-aachen.de
 * extras: centos.mirror.linuxwerk.com
 * updates: ftp.hosteurope.de
Setting up Install Process
Resolving Dependencies
--> Running transaction check
---> Package Percona-XtraDB-Cluster-shared.x86_64 1:5.5.31-23.7.5.438.rhel6 will be obsoleting
---> Package mysql-libs.x86_64 0:5.1.69-1.el6_4 will be obsoleted
--> Processing Dependency: libmysqlclient.so.16()(64bit) for package: 2:postfix-2.6.6-2.2.el6_1.x86_64
--> Processing Dependency: libmysqlclient.so.16(libmysqlclient_16)(64bit) for package: 2:postfix-2.6.6-2.2.el6_1.x86_64
--> Running transaction check
---> Package Percona-Server-shared-compat.x86_64 0:5.5.32-rel31.0.549.rhel6 will be obsoleting
--> Finished Dependency Resolution

Dependencies Resolved

=========================================================================================================================================
 Package Arch Version Repository Size
=========================================================================================================================================
Installing:
 Percona-Server-shared-compat x86_64 5.5.32-rel31.0.549.rhel6 percona 3.4 M
     replacing mysql-libs.x86_64 5.1.69-1.el6_4
 Percona-XtraDB-Cluster-shared x86_64 1:5.5.31-23.7.5.438.rhel6 percona 648 k
     replacing mysql-libs.x86_64 5.1.69-1.el6_4

Transaction Summary
=========================================================================================================================================
Install 2 Package(s)

Total download size: 4.1 M
Is this ok [y/N]: n

A yum upgrade now will be happy, too.

AFAIU, the problem is, that the Percona repo conflicts with mysql-libs from base.
You are conflicting with the CentOS Base repository here!
Not sure if this conflict could cause trouble during future installs or upgrades.

[Shahriyar Rzayev (rzayev-sehriyar)]

Percona now uses JIRA for bug reports so this bug report is migrated to: https://jira.percona.com/browse/PXC-1263