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Message #115327
[Bug 1437846] Re: akonadi mysql 5.6 crash with signal 11
1. Initially mysqld-akonadi could not start because of an error
described as:
"TIMESTAMP with implicit DEFAULT value is deprecated. Please
use --explicit_defaults_for_timestamp server option"
2. In order to prevent that error, I modified the MySQL server
configuration, adding the next lines to the file /etc/akonadi/mysql-
global.conf:
explicit_defaults_for_timestamp=1
3. After that, MySQL server starts correctly , but the problem is still
there: the Akonadi server does not start up and the control process is
not registered at D-Bus (errors in tests 10 and 11)
4. In fact, the akonadi server could not startup because of the next
error:
Sql error: Table 'akonadi.schemaversiontable' doesn't exist QMYSQL: Unable to execute query
Query: ALTER TABLE SchemaVersionTable ADD COLUMN version INTEGER NOT NULL DEFAULT 0"
Unable to initialize database.
5. Solutions #11 and #20 do not solve the problem for me.
6. Below you will find the Akonadi Server Self-Test Report:
Akonadi Server Self-Test Report
===============================
Test 1: SUCCESS
--------
Database driver found.
Details: The QtSQL driver 'QMYSQL' is required by your current Akonadi server configuration and was found on your system.
File content of '/home/angel/.config/akonadi/akonadiserverrc':
[%General]
Driver=QMYSQL
[QMYSQL]
Name=akonadi
Host=
Options="UNIX_SOCKET=/tmp/akonadi-angel.D28OlA/mysql.socket"
ServerPath=/usr/sbin/mysqld-akonadi
StartServer=true
[Debug]
Tracer=null
Test 2: SUCCESS
--------
Akonadi is not running as root
Details: Akonadi is not running as a root/administrator user, which is the recommended setup for a secure system.
Test 3: SUCCESS
--------
MySQL server found.
Details: You have currently configured Akonadi to use the MySQL server '/usr/sbin/mysqld-akonadi'.
Make sure you have the MySQL server installed, set the correct path and ensure you have the necessary read and execution rights on the server executable. The server executable is typically called 'mysqld'; its location varies depending on the distribution.
Test 4: SUCCESS
--------
MySQL server is executable.
Details: MySQL server found: /usr/sbin/mysqld Ver 5.6.24-0ubuntu2 for debian-linux-gnu on i686 ((Ubuntu))
Test 5: SUCCESS
--------
No current MySQL error log found.
Details: The MySQL server did not report any errors during this startup. The log can be found in '/home/angel/.local/share/akonadi/db_data/mysql.err'.
Test 6: SUCCESS
--------
MySQL server default configuration found.
Details: The default configuration for the MySQL server was found and is readable at <a href='/etc/akonadi/mysql-global.conf'>/etc/akonadi/mysql-global.conf</a>.
File content of '/etc/akonadi/mysql-global.conf':
#
# Global Akonadi MySQL server settings,
# These settings can be adjusted using $HOME/.config/akonadi/mysql-local.conf
#
# Based on advice by Kris Köhntopp <kris@xxxxxxxxx>
#
[mysqld]
# strict query parsing/interpretation
# TODO: make Akonadi work with those settings enabled
# sql_mode=strict_trans_tables,strict_all_tables,strict_error_for_division_by_zero,no_auto_create_user,no_auto_value_on_zero,no_engine_substitution,no_zero_date,no_zero_in_date,only_full_group_by,pipes_as_concat
# sql_mode=strict_trans_tables
#agregado por mi:
explicit_defaults_for_timestamp=1
# DEBUGGING:
# log all queries, useful for debugging but generates an enormous amount of data
# log=mysql.full
# log queries slower than n seconds, log file name relative to datadir (for debugging only)
# log_slow_queries=mysql.slow
# long_query_time=1
# log queries not using indices, debug only, disable for production use
# log_queries_not_using_indexes=1
#
# mesure database size and adjust innodb_buffer_pool_size
# SELECT sum(data_length) as bla, sum(index_length) as blub FROM information_schema.tables WHERE table_schema not in ("mysql", "information_schema");
# NOTES:
# Keep Innob_log_waits and keep Innodb_buffer_pool_wait_free small (see show global status like "inno%", show global variables)
#expire_logs_days=3
#sync_bin_log=0
# Use UTF-8 encoding for tables
character_set_server=utf8
collation_server=utf8_general_ci
# use InnoDB for transactions and better crash recovery
default_storage_engine=innodb
# memory pool InnoDB uses to store data dictionary information and other internal data structures (default:1M)
# Deprecated in MySQL >= 5.6.3
innodb_additional_mem_pool_size=1M
# memory buffer InnoDB uses to cache data and indexes of its tables (default:128M)
# Larger values means less I/O
innodb_buffer_pool_size=80M
# Create a .ibd file for each table (default:0)
innodb_file_per_table=1
# Write out the log buffer to the log file at each commit (default:1)
innodb_flush_log_at_trx_commit=2
# Buffer size used to write to the log files on disk (default:1M for builtin, 8M for plugin)
# larger values means less I/O
innodb_log_buffer_size=1M
# Size of each log file in a log group (default:5M) larger means less I/O but more time for recovery.
innodb_log_file_size=64M
# # error log file name, relative to datadir (default:hostname.err)
log_error=mysql.err
# print warnings and connection errors (default:1)
log_warnings=2
# Convert table named to lowercase
lower_case_table_names=1
# Maximum size of one packet or any generated/intermediate string. (default:1M)
max_allowed_packet=32M
# Maximum simultaneous connections allowed (default:100)
max_connections=256
# The two options below make no sense with prepared statements and/or transactions
# (make sense when having the same query multiple times)
# Memory allocated for caching query results (default:0 (disabled))
query_cache_size=0
# Do not cache results (default:1)
query_cache_type=0
# Do not use the privileges mechanisms
skip_grant_tables
# Do not listen for TCP/IP connections at all
skip_networking
# The number of open tables for all threads. (default:64)
table_open_cache=200
# How many threads the server should cache for reuse (default:0)
thread_cache_size=3
# wait 365d before dropping the DB connection (default:8h)
wait_timeout=31536000
# We use InnoDB, so don't let MyISAM eat up memory
key_buffer_size=16K
[client]
default-character-set=utf8
Test 7: SKIP
--------
MySQL server custom configuration not available.
Details: The custom configuration for the MySQL server was not found but is optional.
Test 8: SUCCESS
--------
MySQL server configuration is usable.
Details: The MySQL server configuration was found at <a href='/home/angel/.local/share/akonadi/mysql.conf'>/home/angel/.local/share/akonadi/mysql.conf</a> and is readable.
File content of '/home/angel/.local/share/akonadi/mysql.conf':
#
# Global Akonadi MySQL server settings,
# These settings can be adjusted using $HOME/.config/akonadi/mysql-local.conf
#
# Based on advice by Kris Köhntopp <kris@xxxxxxxxx>
#
[mysqld]
# strict query parsing/interpretation
# TODO: make Akonadi work with those settings enabled
# sql_mode=strict_trans_tables,strict_all_tables,strict_error_for_division_by_zero,no_auto_create_user,no_auto_value_on_zero,no_engine_substitution,no_zero_date,no_zero_in_date,only_full_group_by,pipes_as_concat
# sql_mode=strict_trans_tables
#agregado por mi:
explicit_defaults_for_timestamp=1
# DEBUGGING:
# log all queries, useful for debugging but generates an enormous amount of data
# log=mysql.full
# log queries slower than n seconds, log file name relative to datadir (for debugging only)
# log_slow_queries=mysql.slow
# long_query_time=1
# log queries not using indices, debug only, disable for production use
# log_queries_not_using_indexes=1
#
# mesure database size and adjust innodb_buffer_pool_size
# SELECT sum(data_length) as bla, sum(index_length) as blub FROM information_schema.tables WHERE table_schema not in ("mysql", "information_schema");
# NOTES:
# Keep Innob_log_waits and keep Innodb_buffer_pool_wait_free small (see show global status like "inno%", show global variables)
#expire_logs_days=3
#sync_bin_log=0
# Use UTF-8 encoding for tables
character_set_server=utf8
collation_server=utf8_general_ci
# use InnoDB for transactions and better crash recovery
default_storage_engine=innodb
# memory pool InnoDB uses to store data dictionary information and other internal data structures (default:1M)
# Deprecated in MySQL >= 5.6.3
innodb_additional_mem_pool_size=1M
# memory buffer InnoDB uses to cache data and indexes of its tables (default:128M)
# Larger values means less I/O
innodb_buffer_pool_size=80M
# Create a .ibd file for each table (default:0)
innodb_file_per_table=1
# Write out the log buffer to the log file at each commit (default:1)
innodb_flush_log_at_trx_commit=2
# Buffer size used to write to the log files on disk (default:1M for builtin, 8M for plugin)
# larger values means less I/O
innodb_log_buffer_size=1M
# Size of each log file in a log group (default:5M) larger means less I/O but more time for recovery.
innodb_log_file_size=64M
# # error log file name, relative to datadir (default:hostname.err)
log_error=mysql.err
# print warnings and connection errors (default:1)
log_warnings=2
# Convert table named to lowercase
lower_case_table_names=1
# Maximum size of one packet or any generated/intermediate string. (default:1M)
max_allowed_packet=32M
# Maximum simultaneous connections allowed (default:100)
max_connections=256
# The two options below make no sense with prepared statements and/or transactions
# (make sense when having the same query multiple times)
# Memory allocated for caching query results (default:0 (disabled))
query_cache_size=0
# Do not cache results (default:1)
query_cache_type=0
# Do not use the privileges mechanisms
skip_grant_tables
# Do not listen for TCP/IP connections at all
skip_networking
# The number of open tables for all threads. (default:64)
table_open_cache=200
# How many threads the server should cache for reuse (default:0)
thread_cache_size=3
# wait 365d before dropping the DB connection (default:8h)
wait_timeout=31536000
# We use InnoDB, so don't let MyISAM eat up memory
key_buffer_size=16K
[client]
default-character-set=utf8
Test 9: SUCCESS
--------
akonadictl found and usable
Details: The program '/usr/bin/akonadictl' to control the Akonadi server was found and could be executed successfully.
Result:
Akonadi 1.13.0
Test 10: ERROR
--------
Akonadi control process not registered at D-Bus.
Details: The Akonadi control process is not registered at D-Bus which typically means it was not started or encountered a fatal error during startup.
Test 11: ERROR
--------
Akonadi server process not registered at D-Bus.
Details: The Akonadi server process is not registered at D-Bus which typically means it was not started or encountered a fatal error during startup.
Test 12: SKIP
--------
Protocol version check not possible.
Details: Without a connection to the server it is not possible to check if the protocol version meets the requirements.
Test 13: ERROR
--------
No resource agents found.
Details: No resource agents have been found, Akonadi is not usable without at least one. This usually means that no resource agents are installed or that there is a setup problem. The following paths have been searched: '/usr/share/akonadi/agents'. The XDG_DATA_DIRS environment variable is set to '/usr/share/plasma:/usr/local/share/:/usr/share/'; make sure this includes all paths where Akonadi agents are installed.
Directory listing of '/usr/share/akonadi/agents':
akonadibalooindexingagent.desktop
akonadinepomukfeederagent.desktop
akonotesresource.desktop
archivemailagent.desktop
birthdaysresource.desktop
contactsresource.desktop
davgroupwareresource.desktop
facebookresource.desktop
folderarchiveagent.desktop
followupreminder.desktop
googlecalendarresource.desktop
googlecontactsresource.desktop
icaldirresource.desktop
icalresource.desktop
imapresource.desktop
invitationsagent.desktop
kabcresource.desktop
kalarmdirresource.desktop
kalarmresource.desktop
kcalresource.desktop
kdeaccountsresource.desktop
kolabproxyresource.desktop
kolabresource.desktop
localbookmarksresource.desktop
maildirresource.desktop
maildispatcheragent.desktop
mailfilteragent.desktop
mboxresource.desktop
migrationagent.desktop
mixedmaildirresource.desktop
mtdummyresource.desktop
newmailnotifieragent.desktop
nntpresource.desktop
notesagent.desktop
notesresource.desktop
openxchangeresource.desktop
pop3resource.desktop
sendlateragent.desktop
vcarddirresource.desktop
vcardresource.desktop
Environment variable XDG_DATA_DIRS is set to
'/usr/share/plasma:/usr/local/share/:/usr/share/'
Test 14: ERROR
--------
Current Akonadi server error log found.
Details: The Akonadi server reported errors during its current startup. The log can be found in <a href='/home/angel/.local/share/akonadi/akonadiserver.error'>/home/angel/.local/share/akonadi/akonadiserver.error</a>.
File content of '/home/angel/.local/share/akonadi/akonadiserver.error':
"
Sql error: Table 'akonadi.schemaversiontable' doesn't exist QMYSQL: Unable to execute query
Query: ALTER TABLE SchemaVersionTable ADD COLUMN version INTEGER NOT NULL DEFAULT 0"
Unable to initialize database.
"[
0: akonadiserver() [0x805c67b]
1: akonadiserver() [0x805c929]
2: [0xb77c1bbc]
3: [0xb77c1be0]
4: /lib/i386-linux-gnu/libc.so.6(gsignal+0x47) [0xb6eec057]
5: /lib/i386-linux-gnu/libc.so.6(abort+0x149) [0xb6eed699]
6: /usr/lib/i386-linux-gnu/libQtCore.so.4(_Z17qt_message_output9QtMsgTypePKc+0x124) [0xb74ed1d4]
7: akonadiserver() [0x805e672]
8: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN9QIODevice5writeEPKcx+0xab) [0xb75954bb]
9: /usr/lib/i386-linux-gnu/libQtCore.so.4(+0x1168cf) [0xb75a68cf]
10: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN11QTextStreamD1Ev+0x38) [0xb75afcd8]
11: akonadiserver() [0x8061fd5]
12: akonadiserver() [0x812a8b1]
13: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN14QMetaCallEvent13placeMetaCallEP7QObject+0x2a) [0xb7624aca]
14: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN7QObject5eventEP6QEvent+0x1b9) [0xb762cfb9]
15: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN23QCoreApplicationPrivate13notify_helperEP7QObjectP6QEvent+0x5c) [0xb76125bc]
16: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication6notifyEP7QObjectP6QEvent+0x4e) [0xb761261e]
17: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication14notifyInternalEP7QObjectP6QEvent+0x8a) [0xb76123ca]
18: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN23QCoreApplicationPrivate16sendPostedEventsEP7QObjectiP11QThreadData+0x211) [0xb7615f51]
19: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication16sendPostedEventsEP7QObjecti+0x25) [0xb76164a5]
20: /usr/lib/i386-linux-gnu/libQtCore.so.4(+0x1b44b1) [0xb76444b1]
21: /lib/i386-linux-gnu/libglib-2.0.so.0(g_main_context_dispatch+0x244) [0xb6da0d64]
22: /lib/i386-linux-gnu/libglib-2.0.so.0(+0x47089) [0xb6da1089]
23: /lib/i386-linux-gnu/libglib-2.0.so.0(g_main_context_iteration+0x36) [0xb6da1156]
24: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN20QEventDispatcherGlib13processEventsE6QFlagsIN10QEventLoop17ProcessEventsFlagEE+0x73) [0xb7644613]
25: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN10QEventLoop13processEventsE6QFlagsINS_17ProcessEventsFlagEE+0x4f) [0xb7610d4f]
26: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN10QEventLoop4execE6QFlagsINS_17ProcessEventsFlagEE+0x1ae) [0xb76110de]
27: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication4execEv+0x96) [0xb7617226]
28: akonadiserver() [0x8056ae4]
29: /lib/i386-linux-gnu/libc.so.6(__libc_start_main+0xde) [0xb6ed872e]
30: akonadiserver() [0x8057588]
]
"
Test 15: ERROR
--------
Previous Akonadi server error log found.
Details: The Akonadi server reported errors during its previous startup. The log can be found in <a href='/home/angel/.local/share/akonadi/akonadiserver.error.old'>/home/angel/.local/share/akonadi/akonadiserver.error.old</a>.
File content of '/home/angel/.local/share/akonadi/akonadiserver.error.old':
"
Sql error: Table 'akonadi.schemaversiontable' doesn't exist QMYSQL: Unable to execute query
Query: ALTER TABLE SchemaVersionTable ADD COLUMN version INTEGER NOT NULL DEFAULT 0"
Unable to initialize database.
"[
0: akonadiserver() [0x805c67b]
1: akonadiserver() [0x805c929]
2: [0xb76e2bbc]
3: [0xb76e2be0]
4: /lib/i386-linux-gnu/libc.so.6(gsignal+0x47) [0xb6e0d057]
5: /lib/i386-linux-gnu/libc.so.6(abort+0x149) [0xb6e0e699]
6: /usr/lib/i386-linux-gnu/libQtCore.so.4(_Z17qt_message_output9QtMsgTypePKc+0x124) [0xb740e1d4]
7: akonadiserver() [0x805e672]
8: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN9QIODevice5writeEPKcx+0xab) [0xb74b64bb]
9: /usr/lib/i386-linux-gnu/libQtCore.so.4(+0x1168cf) [0xb74c78cf]
10: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN11QTextStreamD1Ev+0x38) [0xb74d0cd8]
11: akonadiserver() [0x8061fd5]
12: akonadiserver() [0x812a8b1]
13: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN14QMetaCallEvent13placeMetaCallEP7QObject+0x2a) [0xb7545aca]
14: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN7QObject5eventEP6QEvent+0x1b9) [0xb754dfb9]
15: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN23QCoreApplicationPrivate13notify_helperEP7QObjectP6QEvent+0x5c) [0xb75335bc]
16: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication6notifyEP7QObjectP6QEvent+0x4e) [0xb753361e]
17: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication14notifyInternalEP7QObjectP6QEvent+0x8a) [0xb75333ca]
18: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN23QCoreApplicationPrivate16sendPostedEventsEP7QObjectiP11QThreadData+0x211) [0xb7536f51]
19: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication16sendPostedEventsEP7QObjecti+0x25) [0xb75374a5]
20: /usr/lib/i386-linux-gnu/libQtCore.so.4(+0x1b44b1) [0xb75654b1]
21: /lib/i386-linux-gnu/libglib-2.0.so.0(g_main_context_dispatch+0x244) [0xb6cc1d64]
22: /lib/i386-linux-gnu/libglib-2.0.so.0(+0x47089) [0xb6cc2089]
23: /lib/i386-linux-gnu/libglib-2.0.so.0(g_main_context_iteration+0x36) [0xb6cc2156]
24: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN20QEventDispatcherGlib13processEventsE6QFlagsIN10QEventLoop17ProcessEventsFlagEE+0x73) [0xb7565613]
25: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN10QEventLoop13processEventsE6QFlagsINS_17ProcessEventsFlagEE+0x4f) [0xb7531d4f]
26: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN10QEventLoop4execE6QFlagsINS_17ProcessEventsFlagEE+0x1ae) [0xb75320de]
27: /usr/lib/i386-linux-gnu/libQtCore.so.4(_ZN16QCoreApplication4execEv+0x96) [0xb7538226]
28: akonadiserver() [0x8056ae4]
29: /lib/i386-linux-gnu/libc.so.6(__libc_start_main+0xde) [0xb6df972e]
30: akonadiserver() [0x8057588]
]
"
Test 16: SUCCESS
--------
No current Akonadi control error log found.
Details: The Akonadi control process did not report any errors during its current startup.
Test 17: SUCCESS
--------
No previous Akonadi control error log found.
Details: The Akonadi control process did not report any errors during its previous startup.
--
You received this bug notification because you are a member of Desktop
Packages, which is subscribed to akonadi in Ubuntu.
https://bugs.launchpad.net/bugs/1437846
Title:
akonadi mysql 5.6 crash with signal 11
Status in akonadi package in Ubuntu:
Confirmed
Status in mysql-5.6 package in Ubuntu:
Incomplete
Bug description:
Vivid changed mysql version recently to 5.6. Akonadi won't start
anymore because mysql crash - log attached.
I wanted to install a mysql dbg package but couldn't find the right one.
I would like to provide more information but can't think of any valuable for now.
akonadi test log is all good
MySQL server is executable.
Details: MySQL server found: /usr/sbin/mysqld Ver 5.6.23-1~exp1~ubuntu4 for debian-linux-gnu on x86_64 ((Ubuntu))
To manage notifications about this bug go to:
https://bugs.launchpad.net/ubuntu/+source/akonadi/+bug/1437846/+subscriptions
References
