Confluence not starting after mysql upgrade
Asked by Johan Johansson:

I have Confluence 7.3.1 with mysql version 5.7.27 on Linux 64 bit.

After the upgrade of mysql (from v 5.5) Confluence is no longer starting.

The error message I get is

ERROR \[Catalina-utility-1\] \[confluence.setup.dbcheck.MySQLChecker\] checkIsolationLevel MySQL isolation level could not be read. Isolation level must be 'READ-COMMITTED'. See <http://confluence.atlassian.com/x/GAtmDg>

When logging in to the mysql both the global and the session isolation level is READ-COMMITTED. So I dont get this error message.

I have tried to add the parameter to the connection string to, but to no avail.

The upgrade was made on error but unfortunately we didnt use it for a long time so we no longer have a backup of the one before the upgrade..

EDIT:

Anyway, after fiddling for ages with mysql, I have been able to get forward, but still I get startup errors. Does anyone have an idea what this means:

2020-03-10 13:47:01,387 ERROR \[perm-delta-cache-receiver\] \[gatekeeper.evaluator.cache.GroupMembersCache\] error Loading group members from database failed: could not extract ResultSet  
2020-03-10 13:47:01,403 ERROR \[perm-delta-cache-receiver\] \[gatekeeper.evaluator.cache.CacheUpdateReceiver\] error Failed to initialize evaluator cache  
Failed to initialize evaluator cache\^C  
informa_jojo@jiratest2:\~$  
informa_jojo@jiratest2:\~$ ERROR \[perm-delta-cache-receiver\] \[engine.jdbc.spi.SqlExceptionHelper\]2020-03-10 13:47:01,386 ERROR \[perm-delta-cache-receiver\] \[engine.jdbc.spi.SqlExceptionHelper\] logExceptions Unknown column 'hibernatem0_.child_user_id' in 'where clause'  
-bash: ERROR: command not found  
informa_jojo@jiratest2:\~$ 2020-03-10 13:47:01,387 ERROR \[perm-delta-cache-receiver\] \[gatekeeper.evaluator.cache.GroupMembersCache\] error Loading group members from database failed: could not extract ResultSet  
-bash: 2020-03-10: command not found  
informa_jojo@jiratest2:\~$ 2020-03-10 13:47:01,403 ERROR \[perm-delta-cache-receiver\] \[gatekeeper.evaluator.cache.CacheUpdateReceiver\] error Failed to initialize evaluator cache  
-bash: 2020-03-10: command not found

thanks

any ideas please?

Many thanks


Answers:
author: Johan Johansson
body: Anyway, I was finally able to get it up and running.

It turned out I had imported the database dump with foregin key checks active, so some data had not been imported. So recreating the database with that turned off did the trick.


author: Nicolas Werle _Decadis AG_
body: Hi [@Johan Johansson](/t5/user/viewprofilepage/user-id/641378) ,

can you please provide your my.cnf file (usually to find under /etc/my.cnf) so that we can investigate further?   
Many thanks in advance.   
Best,   
Nicolas

comments: author: Johan Johansson
body: #  
# The MySQL database server configuration file.  
#  
# You can copy this to one of:  
# - "/etc/mysql/my.cnf" to set global options,  
# - "\~/.my.cnf" to set user-specific options.  
#  
# One can use all long options that the program supports.  
# Run program with --help to get a list of available options and with  
# --print-defaults to see which it would actually understand and use.  
#  
# For explanations see  
# <http://dev.mysql.com/doc/mysql/en/server-system-variables.html>

# This will be passed to all mysql clients  
# It has been reported that passwords should be enclosed with ticks/quotes  
# escpecially if they contain "#" chars...  
# Remember to edit /etc/mysql/debian.cnf when changing the socket location.  
\[client\]  
port = 3306  
socket = /var/run/mysqld/mysqld.sock

# Here is entries for some specific programs  
# The following values assume you have at least 32M ram

# This was formally known as \[safe_mysqld\]. Both versions are currently parsed.  
\[mysqld_safe\]  
socket = /var/run/mysqld/mysqld.sock  
nice = 0

\[mysqld\]  
#  
# \* Basic Settings  
#  
user = mysql  
pid-file = /var/run/mysqld/mysqld.pid  
socket = /var/run/mysqld/mysqld.sock  
port = 3306  
basedir = /usr  
datadir = /var/lib/mysql  
tmpdir = /tmp  
lc-messages-dir = /usr/share/mysql  
skip-external-locking  
character-set-server=utf8  
collation-server=utf8_bin  
transaction-isolation=READ-COMMITTED  
#  
# Instead of skip-networking the default is now to listen only on  
# localhost which is more compatible and is not less secure.  
bind-address = 127.0.0.1  
#  
# \* Fine Tuning  
#  
key_buffer = 16M  
max_allowed_packet = 256M  
thread_stack = 192K  
thread_cache_size = 8  
# This replaces the startup script and checks MyISAM tables if needed  
# the first time they are touched  
myisam-recover = BACKUP  
#max_connections = 100  
#table_cache = 64  
#thread_concurrency = 10  
#  
# \* Query Cache Configuration  
#  
query_cache_limit = 1M  
query_cache_size = 16M  
#  
#  
# \* Logging and Replication  
#  
# Both location gets rotated by the cronjob.  
# Be aware that this log type is a performance killer.  
# As of 5.1 you can enable the log at runtime!  
#general_log_file = /var/log/mysql/mysql.log  
#general_log = 1  
#  
# Error log - should be very few entries.  
#  
log_error = /var/log/mysql/error.log  
#  
# Here you can see queries with especially long duration  
#slow_query_log_file = /var/log/mysql/mysql-slow.log  
#slow_query_log = 1  
#long_query_time = 2  
#log_queries_not_using_indexes  
#  
# The following can be used as easy to replay backup logs or for replication.  
# note: if you are setting up a replication slave, see README.Debian about  
# other settings you may need to change.  
#server-id = 1  
#log_bin = /var/log/mysql/mysql-bin.log  
expire_logs_days = 10  
max_binlog_size = 100M  
#binlog_do_db = include_database_name  
#binlog_ignore_db = include_database_name  
#  
# \* InnoDB  
#  
# InnoDB is enabled by default with a 10MB datafile in /var/lib/mysql/.  
# Read the manual for more InnoDB related options. There are many!  
#  
# \* Security Features  
#  
# Read the manual, too, if you want chroot!  
# chroot = /var/lib/mysql/  
#  
# For generating SSL certificates I recommend the OpenSSL GUI "tinyca".  
#  
# ssl-ca=/etc/mysql/cacert.pem  
# ssl-cert=/etc/mysql/server-cert.pem  
# ssl-key=/etc/mysql/server-key.pem  
innodb_log_file_size=256M

<br />

\[mysqldump\]  
quick  
quote-names  
max_allowed_packet = 16M

\[mysql\]  
#no-auto-rehash # faster start of mysql but no tab completition

\[isamchk\]  
key_buffer = 16M

#  
# \* IMPORTANT: Additional settings that can override those from this file!  
# The files must end with '.cnf', otherwise they'll be ignored.  
#  
!includedir /etc/mysql/conf.d/


Tags: confluence-server

mysql

server