Mysql 5.6 headaches on Mac OSX

Question

Several of my colleagues and I have recently upgraded from MySQL 5.5 to MySQL 5.6 using homebrew on our Macs to test locally before upgrading our servers. Since this upgrade, we all have been experiencing intermittent MySQL errors when running our rails code:

Lost connection to MySQL server at 'sending authentication information', system error: 32

We have tried re-making our usernames and passwords in our database, and upping the connection timeout, but neither have fixed the problem. The error logs do not mention the issue. The only workaround we have found when we run into the problem is to kill mysql and restart it. I have even noticed this error more recently using mysql -u root -p on the command line. It seems that once I start getting this error, I cannot exceed my current number of connections no matter what username I use. If I close a connection, then I can re-open one.

We have the following environments:

• some of us: Rails 3.2, Ruby 2, mysql2 0.3.13, MySQL 5.6.12, Mac OSX 10.8.4
• others of us: Rails 3.2, Ruby 1.9, mysql2 0.3.13, MySQL 5.6.10, Mac OSX 10.8.4

Any ideas what might be causing this?

Thanks! Julie

Answer 1

None of the answers here helped me, but finally I got MySQL 5.6 to work.

THREE options to fix MySQL 5.6:

1. (confirmed) Edit /etc/my.cnf (create if not exists) and add:

    [mysqld] innodb_file_per_table = OFF

and restart MySQL. Then for this to work you'll need to dump your databases into SQL file (mysqldump), then drop and re-create the databases, then load the data back.

2. Change default ulimit value of OSX (suggested by Github user sodabrew ): https://superuser.com/questions/261023/how-to-change-default-ulimit-values-in-mac-os-x-10-6

3. Add the following option to [mysqld] section of my.cnf: table_open_cache = 250 . By default it is set to 2000, which is way above OSX's default ulimit. This solution is also not recommended, because it hurts the performance of your MySQL - it forces MySQL to re-open tables often, if you have more than 250 tables: https://mariadb.com/kb/en/optimizing-table_open_cache/

Why this error is happening?

Since MySQL 5.6 innodb_file_per_table option is ON by default, which means that each table's data is stored in its own file. OSX default limit of the number of the open files is 256 per process. Normally this isn't a problem, but in my case I'm running unit tests in parallel, which creates 8 databases with 405 tables each. OSX has a limit of the number of open file handles per process. This StackOverflow answer suggests that this limit is 256, which explains my problem perfectly: before MySQL 5.6 all data from all these 8 databases was in ONE file.

Thanks to my colleague Thomas L. who found a MySQL bug report which hinted this solution!

Answer 2

We had the same problem. This fixed it for us

project-root$ mysql.server stop
project-root$ gem uninstall mysql2
project-root$ bundle install
project-root$ mysql.server start

Answer 3

That's an issue with the latest mysql version that is installed via homebrew.

5.6.x creates the problem. downgrading to 5.5.x solved the issue for me.

You can install old formula versions pretty easily with homebrew:

brew versions mysql will give you the sha you have to checkout in /usr/local to be able to install an old version

   cd /usr/local
   git checkout 336c976
   brew info mysql

This will show you 5.5.29 as the mysql version. You can then uninstall mysql based on these instructions and reinstall simply by running

   brew install mysql

and running through the normal installation process with homebrew:

  unset TMPDIR
  mysql_install_db --verbose --user=`whoami` --basedir="$(brew --prefix mysql)" --datadir=/usr/local/var/mysql --tmpdir=/tmp

Hope that helps.

You can checkout master in /usr/local after installing the old version of mysql after that again. The brew versions command even gives you the command to just checkout the formula for mysql but I don't think that has any advantages over just checking out the whole repository for the sha and then going back to master after installing the old mysql version.

Answer 4

We found that using the following fixes this for us:

brew install mysql --use-llvm

This is on a rails 2.3 ontop of REE (1.8.7) in rbenv on OSX 10.8. YMMV

Answer 5

I'm having the same issue on same configuration (mysql 5.6.12). I've just upgraded mysql with homebrew to version 5.6.13 and the problem is gone.

Answer 6

I struck this problem with mysql 5.6.16, freshly installed via Homebrew on Mavericks, along with rbenv and rails etc.

Decided to reboot before working through the other solutions here. Problem solved!

So if you haven't rebooted since installing mysql etc, I'd recommend restarting before working through the answers here.

Answer 7

What I found worked, was setting table_open_cache to a value no higher than 1000

table_open_cache=1000

I found this on the bug page, very last comment https://bugs.mysql.com/bug.php?id=71960

Answer 8

On Mavericks, this worked for me:

mysql.server stop
brew install mysql
mysql.server start
gem remove mysql2
gem install mysql2

I reinstalled Homebrew after upgrading to Mavericks. Homebrew installed the bottled version of MySQL 5.6.13.