I fairly new to MySQL database. I am repeatedly seeing an error from MySQL saying the table is marked as crashed and should be repaired. However I am able to repair the crashed table by using the command myisamchk. By the way, I am using MYISAM database engine in MySQL.
I just wanted to know under what circumstances would a DB table crash and how I can prevent it from happening again?
I am connecting to MySQL(5.0) database from Tcl (8.5) script using mysqltcl library (3.0).
MyISAM tables are very easy to crash. There is header info in each table that keeps track of how many open file handles a MyISAM table has.
If mysqld crashes, any MyISAM table that had open file handles to it never had the opportunity to decrement the file handle count upon each file handle closing. Thus, if a new file handle opens a MyISAM table (.MYD file) and mysqld discovers a mismatch between the number of file handles a MyISAM table believes is open and the the number of file handles the MyISAM table actually has open, the table is declared crashed.
There are four(4) methods for handling this:
METHOD #1 : Setup automatic MyISAM repair
See my post https://dba.stackexchange.com/a/15079/877 on how to set this up upon a MySQL restart (Mar 15, 2012)
METHOD #2 : Use InnoDB instead of MyISAM
InnoDB has crash recovery built into the Storage Engine's initialization. MyISAM does not
METHOD #3 : Use Aria instead of MyISAM
Aria is MariaDB's drop-in replacement for MyISAM. It features crash recovery mechanisms for individual tables.
METHOD #4 : Don't kill -9 on mysqld
If mysqld crashes, deliberately or involuntarily, header info for all open MyISAM tables will get them into a crashed state. Avoid having to manually kill mysqld.
I noticed that when I attempt to do a LVM snapshot of my database volume, after running FLUSH TABLES WITH READ LOCK, then rsync that snapshot to a new system, the tables are marked as crashed and have to be repaired.
I suspect this has to do with there being a file handle on the original machine with the table open, and then I'm syncing the that status to the new machine and it sees a mismatch in the file handles and decides it needs to repair.
This repair is problematic because it takes hours (it is a giant table). So the only reliable way to actually get a snapshot that isn't crashed is to shutdown the database before taking the snapshot, but then I cannot get the SHOW MASTER STATUS to setup replication.
Related
I have a table that crashes often, but only seems to crash when the replica is running.
The table is MyISAM. The table has 2 mediumtext fields. The error I get when making a delete statement is this: "General error: 1194 Table 'outlook_emails' is marked as crashed and should be repaired".
I wonder if this has to do with the binary log. However, it doesn't seem to happen when the binary log is running but the replica is down.
Any idea what is happening or what I can do to solve it or investigate further?
Table '...' is marked as crashed and should be repaired".
That error occurs (usually) when the MySQL server as been rudely restarted, and the table is ENGINE=MyISAM.
The temporary fix is to run CHECK TABLE, which will then suggest that you run REPAIR TABLE. The tool myisamchk is a convenient way to do them, especially since there could be several tables so marked.
The Engine InnoDB has radically different internals. It avoids the specific issue that MyISAM has, and does a much more thorough job of recovering from crashes.
Switching to InnoDB requires ALTERing your tables. Here is more discussion: http://mysql.rjweb.org/doc.php/myisam2innodb
I have an AWS RDS MySQL 5.7 database with MyISAM tables that I would like to migrate to another RDS in a custom VPC, and once migrated, convert those MyISAM tables to InnoDB.
If I undertood correctly, the only way to create a correct automatic backup is using the following procedure explained here: "Automated Backups with Unsupported MySQL Storage Engines"
https://docs.aws.amazon.com/AmazonRDS/latest/UserGuide/USER_WorkingWithAutomatedBackups.html#Overview.BackupDeviceRestrictions
Stop all activity to your MyISAM tables (that is, close all sessions).
You can close all sessions by calling the mysql.rds_kill command for each process that is returned from the SHOW FULL PROCESSLIST command.
Lock and flush each of your MyISAM tables
Create a snapshot of your DB instance. When the snapshot has completed, release the locks and resume activity on the MyISAM tables
Has someone done this procedure before?
How is that the snapshots are being created successfully every night from the current RDS DBInstance, even though it contains MyISAM tables?
Thanks!
The problem isn't with snapshot creation. It's what can go wrong when you actually try to use one of the snapshots.
RDS snapshots work by capturing a snapshot if your RDS instance's underlying EBS volume (you can't see this volume, but it's there -- RDS runs on EC2, with "hidden" instances and volumes).
EBS snapshots capture the entire contents of the hard drive exactly as they happened to exist at the moment in time when the snapshot process starts.
What ends up on the snapshot is essentially the same thing that you would have on a MySQL Server if you executed sudo killall -9 mysqld -- it is as if the server had halted everything, immediately, without doing any of the things it normally does to clean up for a graceful shutdown. With RDS, things are not quite that dramatic, because RDS does take some precautions, but fundamentally, this is the nature of what is happening.
When you create an RDS instance from a snapshot, the first thing that happens when the instance starts up is the same thing your hypothetical server would do when you restarted the killed MySQL Server daemon: InnoDB Crash Recovery.
InnoDB Crash Recovery
To recover from a MySQL server crash, the only requirement is to restart the MySQL server. InnoDB automatically checks the logs and performs a roll-forward of the database to the present. InnoDB automatically rolls back uncommitted transactions that were present at the time of the crash.
https://dev.mysql.com/doc/refman/5.7/en/innodb-recovery.html#innodb-crash-recovery
Crash recovery is InnoDB's mechanism for bringing everything back into harmony in it internal data structures and ensure that all data is intact, exactly as your application left it. It's possible because InnoDB is a transactional storage engine. That means a lot of different things, but what it specifically means in this case is that InnoDB doesn't just change table data when you change a table. It goes through a process that can be simplified something like this:
store the proposed changes to disk¹
actually make the changes
mark the changes as complete
What this means is that until the changes are finalized, InnoDB can be interrupted and will subsequently be able to pick up where it left off, without corrupting or losing data.
MyISAM has no such mechanisms. It just writes to the data files, directly. Even if a MyISAM table isn't actively being used, it may still need to be repaired when the server comes up, to clean up its structures. In some circumstances, repairing the table can be impossible, and all or part of the data in the table will be lost.
If your MyISAM tables are flushed and locked when the snapshot occurs, they are in a quiescent state on the disk, as though the server had actually been gracefully shut down before the snapshot had occurred, so they will be stable on the snapshot.
But the snapshot process will always appear to succeed, because the snapshot is just duplicating whatever is on the disk, as it appears at the moment in time when the snapshot gets underway.
The problem is that what the snapshot captured may not be usable, and you have no way of knowing whether the snapshot will be fully viable.
¹ Note that the first step, "store the proposed changes to disk" is related to the system variable innodb_flush_log_at_trx_commit which makes the system slower if set to 1 but also is the safest setting, because your query doesn't actually succeed until that first step is done. A setting of 2 is still reasonably safe, because it still writes the changes but continues without requiring that the operating system confirm that they have actually been written to the hard drive before your query returns success... but in a crash, a transaction your application thinks was committed may or may not have survived.
I need to make working mysql replication from master to slave. (tried it once already)
The database is quite large (over 100GB) and it will take some hours to make it ready for new slave.
The database has MyIsam and innoDB engine and both are being written
I think my only choice is to copy the data files from master to a new slave? (or make a database dump which im referring later in the topic of ROUND 2)
Before that I have to run down all the services which uses the database and
make writelock for tables or should i shut down the whole database?
After data directory sync to the new replication server I started it up and the database with the tables was there. First error that I got rid off by changing bin.log to 007324 and position to 0.
Error 1:
140213 4:52:07 [ERROR] Got fatal error 1236: 'Could not find first log file name in binary log index file' from master when reading data from binary log
140213 4:52:07 [Note] Slave I/O thread exiting, read up to log 'bin-log.007323', position 46774422
After that I got new problems from database and this error came out from every table.
Error 2:
Error 'Incorrect information in file: './database/table.frm'' on query. Default database: 'database'.
Seems that something went wrong.
ROUND 2!
After this scene I started to think that can this be done without long service break.
Master database has been already configured and it works ok to another slave.
So i did some googling and this is what i came up with.
Making read lock to tables:
FLUSH TABLES WITH READ LOCK;
Taking dump:
mysqldump --skip-lock-tables --single-transaction --flush-logs --master-data=2 -A > dbdump.sql
Packaging and moving:
gzip (pigz) the the dbdump and moving it to slave server after that finding the MASTER_LOG_FILE and MASTER_LOG_POS from the dump.
After that i don't think that i want to import the dbdump.sql because its over 100GB and
will take time. So i think SOURCE would be ok option for it.
On SLAVE server:
CREATE DATABASE dbdump;
USE dbdump;
SOURCE dbdump.db;
CHANGE MASTER TO MASTER_HOST='x.x.x.x',MASTER_USER='replication',MASTER_PASSWORD='slavepass',
MASTER_LOG_FILE='mysql-bin.000001',MASTER_LOG_POS=X;
start slave;
SHOW SLAVE STATUS \G
I haven't tested this yet, am I on to something?
--bp
Realize that issuing a SOURCE command is the same as running an import of the dumped SQL from shell. Either way, it is going to take a long time. Outside of that, you have the steps correct - flush table with read lock on master, make a database dump of master, make sure you note master binlog coordinates, import dump on slave, set binlog coordinates, start replication. Do not work with the raw binaries unless you REALLY know what you are doing (especially for INNODB tables).
If you have a number of large tables (i.e. not just one big one), you could consider parallelizing your dumps/imports by table (or groups of tables) to speed things along. There are actually tools out there to help you do this.
You CAN work with the raw binaries, but it is not for the faint of heart. In the past, I have used rsync to differentially update the raw binaries between master and slave (you still must use flush table with read lock and gather master binlog coordinates before doing this). For MyISAM tables this works pretty well actually. For InnoDB, it can be more tricky. I prefer to use the option to set InnoDB to write index and data files per table. You would need to rsync the ibdata* files. You would delete ib_logfile* files from slave.
This whole thing is a bit of a high wire act, so I would not resort to doing this unless you have no other viable options. Absolutely take a traditional SQL dump before even thinking about attempting a binary file sync, and each time until you are VERY comfortable that you actually know what you are doing.
I have a ~80GB MySql DB.
I want to create a replication on that DB while having the current DB as master and setting up a slave for it.
My main question is how can i move the data (all 80GB) of it from the master to the new slave with as minimal downtime as possible, preferably none.
my initial thought was to stop the DB (after taking the log position), and then copy the files from the mysqldata lib, and then re start the server but just copying the files would take ~2 hours.
any thoughts?
On July 8, 2011 I addressed a similar question. I wrote scripts that would zap binary logs and starting performing an rsync.
On June 16, 2011, I wrote a post contrasting doing an rsync versus using XtraBackup.
On May 23, 2011, I discussed what considerations to make when doing this kind of backup.
Rather than reinvent the wheel and rewrite in the information I already wrote in those posts, I simply provided the links to my own posts that address this question.
Please read them carefully.
Give it a Try !!!
CAVEAT
The only downtime in my rsync algorithm is when after you have performed multiple rsyncs as specified, you shutdown mysql, perform one more rsync, and then start up mysql.
I would like to clarify the reason for the shutdown:
When you shutdown mysql:
All open MyISAM tables are closed, There is a header that marks how many file handles are open to the MyISAM table. That must be at zero(0) for the table to be OK. Otherwise, a closed MyISAM tables with a nonzero value in this header field marks the table as crashed and in need of a table repair. Shutting down mysql cleans all of that up.
All InnoDB tables that have either data pages or index pages in the Buffer Pool that are marked dirty needs to be flushed to disk. Performing a shutdown triggers a full flush of the Buffer Pool. Naturally, the bigger the pool and the higher the number of dirty pages, the longer the Buffer Pool flush time will be. To shorten this phase of the mysqld's shutdown, run SET GLOBAL innodb_max_dirty_pages_pct = 0; before performing any of the rsyncs. All transactions are completed (either commited or rolled back).
I think you have some misunderstanding.
before it start, you must enable binary log on the master
restart mysql on master
login to master
lock ALL tables from write
record the master binary position
copy binary data from master (DIRECTLY copy *.MYI, *.MYD...etc, you can copy to another location in master database)
after copy is completed, remove write lock
scp data to slave (depends on the network distance)
setup relevant master information into slave (binary log position, and remember to disable binary log)
start slave
After that, it should have huge delay on slave,
and slave will try to catch up with master automatically,
once it catch up, your slave is ready!
So, the down-time is only when you locking table and copy the binary data into another location in your master database.
docs:- http://dev.mysql.com/doc/refman/5.1/en/replication-howto.html
I've found the following tool to be of GREAT help and efficiency. The author currently works for facebook and used to work for dema in japan.
It's quite easy to set-up and you will reach 4 9's HA. ;-)
MHA tool for MySQL replication high availability
I have to say though that MySQL cluster is better, lol ;-)
An ARCHIVE table got corrupted in my production.
I tried
REPAIR TABLE TBL_NAME;
It wasn't able to repair the table. Does only MyISAM table support repairing?
I dropped the table, recreated it and then restored it from the dump I already had.
Q1: What could have been the better option to handle this scenario?
Q2: Why databases/tables getting corrupted so often?
Q3: What is the best that we could do to prevent tables from getting corrupt?
Q1: What could have been the better option to handle this scenario?
Given the circumstances I think that what you did was the best solution. There is an ARCHIVE engine recovery tool called archive_reader that might have been able to help you recover rows if you'd not had a backup
The fact that you had backups is good and saved you here. If you want to be able to perform a full recovery it could be worth enabling binary logging or adding a replicated slave server.
Q2: Why databases/tables getting corrupted so often?
In normal operation they shouldn't be. I would look in your MySQL error log to see if there are any error messages that corresponded to the time of the table crash. Disk or other problems on the server could make it more likely to corrupt tables. Perhaps you've found a bug in the ARCHIVE engine?
Q3: What is the best that we could do to prevent tables from getting corrupt?
As mentioned in Q2 have a good look for error messages. If you find that you can predictably replicate crashing a table be sure to file a MySQL bug report.
FOR MyISAM table:-
1) Identify all corrupted tables using myisamchk
2) Repair the corrupted table using myisamchk -r
If the tables are still getting used by your application and other tables.To avoid this error message, shutdown mysqld before performing the repair, if you can afford to shutdown the DB for a while. If not, use FLUSH TABLES to force mysqld to flush any table modification that are still in memory
You can also Perform check and repair together for entire MySQL database
Example :
myisamchk --silent --force --fast --update-state .....*.MYI