Mysql – “Automatically Start MySQL Server on Startup” not working on Mac OS X 10.8

Open a good text editor (I'd recommend TextMate, but the free TextWrangler or vi or nano will do too), and open:

/etc/apache2/httpd.conf

Find the line:

"#LoadModule php5_module        libexec/apache2/libphp5.so"

And uncomment it (remove the #).

Download and install the latest MySQL version from mysql.com. Choose the x86_64 version for Intel (unless your Intel Mac is the original Macbook Pro or Macbook, which are not 64 bit chips. In those cases, use the 32 bit x86 version).

Install all the MySQL components. Using the pref pane, start MySQL.

In the Sharing System Pref, turn on (or if it was already on, turn off/on) Web Sharing.

You should now have Apache/PHP/MySQL running.

In 10.4 and 10.5 it was necessary to modify the php.ini file to point to the correct location of mysql.sock. There are reports that this is fixed in 10.6, but that doesn't appear to be the case for all of us, given some of the comments below.

Use INSERT IGNORE INTO table.

There's also INSERT … ON DUPLICATE KEY UPDATE syntax, and you can find explanations in 13.2.6.2 INSERT ... ON DUPLICATE KEY UPDATE Statement.

Post from bogdan.org.ua according to Google's webcache:

18th October 2007

To start: as of the latest MySQL, syntax presented in the title is not possible. But there are several very easy ways to accomplish what is expected using existing functionality.

There are 3 possible solutions: using INSERT IGNORE, REPLACE, or INSERT … ON DUPLICATE KEY UPDATE.

Imagine we have a table:

CREATE TABLE `transcripts` (
`ensembl_transcript_id` varchar(20) NOT NULL,
`transcript_chrom_start` int(10) unsigned NOT NULL,
`transcript_chrom_end` int(10) unsigned NOT NULL,
PRIMARY KEY (`ensembl_transcript_id`)
) ENGINE=InnoDB DEFAULT CHARSET=latin1;

Now imagine that we have an automatic pipeline importing transcripts meta-data from Ensembl, and that due to various reasons the pipeline might be broken at any step of execution. Thus, we need to ensure two things:

1. repeated executions of the pipeline will not destroy our > database

2. repeated executions will not die due to ‘duplicate > primary key’ errors.

Method 1: using REPLACE

It’s very simple:

REPLACE INTO `transcripts`
SET `ensembl_transcript_id` = 'ENSORGT00000000001',
`transcript_chrom_start` = 12345,
`transcript_chrom_end` = 12678;

If the record exists, it will be overwritten; if it does not yet exist, it will be created. However, using this method isn’t efficient for our case: we do not need to overwrite existing records, it’s fine just to skip them.

Method 2: using INSERT IGNORE Also very simple:

INSERT IGNORE INTO `transcripts`
SET `ensembl_transcript_id` = 'ENSORGT00000000001',
`transcript_chrom_start` = 12345,
`transcript_chrom_end` = 12678;

Here, if the ‘ensembl_transcript_id’ is already present in the database, it will be silently skipped (ignored). (To be more precise, here’s a quote from MySQL reference manual: “If you use the IGNORE keyword, errors that occur while executing the INSERT statement are treated as warnings instead. For example, without IGNORE, a row that duplicates an existing UNIQUE index or PRIMARY KEY value in the table causes a duplicate-key error and the statement is aborted.”.) If the record doesn’t yet exist, it will be created.

This second method has several potential weaknesses, including non-abortion of the query in case any other problem occurs (see the manual). Thus it should be used if previously tested without the IGNORE keyword.

Method 3: using INSERT … ON DUPLICATE KEY UPDATE:

Third option is to use INSERT … ON DUPLICATE KEY UPDATE syntax, and in the UPDATE part just do nothing do some meaningless (empty) operation, like calculating 0+0 (Geoffray suggests doing the id=id assignment for the MySQL optimization engine to ignore this operation). Advantage of this method is that it only ignores duplicate key events, and still aborts on other errors.

As a final notice: this post was inspired by Xaprb. I’d also advise to consult his other post on writing flexible SQL queries.