Tag: python

Reading RBR binary logs with pt-query-digest

MySQL

For purposes of auditing anything that goes on our servers we’re looking to parse the binary logs of all servers (masters), as with “Anemomaster“. With Row Based Replication this is problematic since pt-query-digest does not support parsing RBR binary logs (true for 2.2.12, latest at this time).

I’ve written a simple script that translates RBR logs to SBR-like logs, with a little bit of cheating. My interest is that pt-query-digest is able to capture and count the queries, nothing else. By doing some minimal text manipulation on the binary log I’m able to now feed it to pt-query-digest which seems to be happy.

The script of course does not parse the binary log directly; furthermore, it requires the binary log to be extracted via:

mysqlbinlog --verbose --base64-output=DECODE-ROWS your-mysql-binlog-filemame.000001

The above adds the interpretation of the RBR entires in the form of (unconventional) statements, commented, and strips out the cryptic RBR text. All that is left is to do a little manipulation on entry headers and uncomment the interpreted queries.

The script can be found in my gist repositories. Current version is as follows: Continue reading » “Reading RBR binary logs with pt-query-digest”

common_schema over traditional scripts

MySQL

If you are familiar with both openark kit and common_schema, you’ll notice I’ve incorporated some functionality already working in openark kit into common_schema, essentially rewriting what used to be a Python script into SQL/QueryScript.

What was my reasoning for rewriting good code? I wish to explain that, and provide with a couple examples.

I’m generally interested in pushing as much functionality into the MySQL server. When using an external script, one:

  • Needs the right dependencies (OS, Perl/Python version, Perl/Python modules).
  • Needs to provide with connection params,
  • Needs to get acquainted with a lot of command line options,
  • Is limited by whatever command line options are provided.
  • Has to invoke that script (duh!) to get the work done.

This last bullet is not so trivial: it means you can’t work some operation with your favorite GUI client, because it has no notion of your Perl script; does not run on the same machine where your Python code resides; simply can’t run those scripts for you.

With server-side code, functionality is accessible via any client. You run your operation via a query (e.g. CALL some_procedure). That can be done from your GUI client, your command line client, your event scheduler, your cronjob, all equally. You only need access to your MySQL server, which is trivial.

Of course, server side scripting is limited. Some stuff simply can’t be written solely on server side. If you want to consult your replicating slave; gracefully take action on user’s Ctrl+C, send data over the web, you’ll have to do it with an external tool. There are actually a lot of surprising limitations to things one would assume are possible on server side. You may already know how frustrated I am by the fact one can hardly get info from SHOW commands.

But, when it works, it shines

Let’s review a couple examples. The first one is nearly trivial. The second less so. Continue reading » “common_schema over traditional scripts”

oak-hook-general-log: your poor man’s Query Analyzer

Development MySQL

The latest release of openark kit introduces oak-hook-general-log, a handy tool which allows for some analysis of executing queries.

Initially I just intended for the tool to be able to dump the general log to standard output, from any machine capable to connect to MySQL. Quick enough, I realized the power it brings.

With this tool, one can dump to standard output all queries using temporary tables; or using a specific index; or doing a full index scan; or just follow up on connections; or… For example, the following execution will only log queries which make for filesort:

oak-hook-general-log --user=root --host=localhost --password=123456 --filter-explain-filesort

The problem with using the standard logs

So you have the general log, which you don’t often enable, since it tends to grow huge within moments. You then have the slow log. Slow log is great, and is among the top tools for MySQL diagnosis.

The slow log allows for log-queries-not-using-indexes, which is yet another nice feature. Not only should you log any query running for over X seconds, but also log any query which does not use an index.

Wait. This logs all single-row tables (no single row table will use an index), as well as very small tables (a common 20 rows lookup table will most often be scanned). These are OK scans. This makes for some noise in the slow log.

And how about queries which do use an index, but do so poorly? They use an index, but retrieve some 12,500,000 rows, using temporary table & filesort?

What oak-hook-general-log does for you

This tool streams out the general log, and filters out queries based on their role or on their execution plan.

To work at all, it must enable the general log. Moreover, it directs the general log to log table. Mind that this makes for a performance impact, which is why the tool auto-terminates and restores original log settings (default is 1 minute, configurable). It’s really not a tool you should keep running for days. But during the few moments it runs, it will:

  • Routinely rotate the mysql.general_log table so that it doesn’t fill up
  • Examine entries found in the general log
  • Cross reference entries to the PROCESSLIST so as to deduce database context (bug #52554)
  • If required and appropriate, evaluate a query’s execution plan
  • Decide whether to dump each entry based on filtering rules

Filtering rules

Filtering rules are passed as command line options. At current, only one filtering rule applies (if more than one specified only one is used, so no point in passing more than one). Some of the rules are: Continue reading » “oak-hook-general-log: your poor man’s Query Analyzer”

openark-kit (rev. 170): new tools, new functionality

Development MySQL

I’m pleased to announce a new release of the openark kit. There’s a lot of new functionality inside; following is a brief overview.

The openark kit is a set of utilities for MySQL. They solve everyday maintenance tasks, which may be complicated or time consuming to work by hand.

It’s been a while since the last announced release. Most of my attention was on mycheckpoint, building new features, writing documentation etc. However my own use of openark kit has only increased in the past few months, and there’s new useful solutions to common problems that have been developed.

I’ve used and improved many tools over this time, but doing the final cut, along with proper documentation, took some time. Anyway, here are the highlights:

New tool: oak-hook-general-log

oak-hook-general-log hooks up a MySQL server and dumps the general log based on filtering rules, applying to query role or execution plan. It is possible to only dump connect/disconnect entries, queries which make a full table scan, or use temporary tables, or scan more than X number of rows, or…

I’ll write more on this tool shortly.

New tool: oak-prepare-shutdown

This tool makes for an orderly and faster shutdown by safely stopping replication, and flushing InnoDB pages to disk prior to shutting down (keeping server available for connections even while attempting to flush dirty pages to disk). A typical use case would be:

oak-prepare-shutdown --user=root --ask-pass --socket=/tmp/mysql.sock && /etc/init.d/mysql stop

New tool: oak-repeat query

oak-repeat-query repeats executing a given query until some condition holds. The condition can be:

  • Number of given iterations has been reached
  • Given time has elapsed
  • No rows have been affected by query

The tool comes in handy for cleanup jobs, warming up caches, etc. Continue reading » “openark-kit (rev. 170): new tools, new functionality”

mycheckpoint (rev 208): aggregation tables, enhanced charting, RPM distribution

MySQL

Revision 208 of mycheckpoint, a MySQL monitoring solution, has been released. New and updated in this revision:

  • Aggregation tables: aggregated data makes for fast reports on previously slow queries.
  • Enhanced charting: interactive charts now present time stamps dynamically (see demo); “Zoom in” charts are available (see demo) on mycheckpoint‘s HTTP server.
  • RPM distribution: a “noarch” RPM mycheckpoint build is now available.
  • Initial work on formalizing test environment

mycheckpoint celebrates one year of existence!

Aggregation tables

I really wanted to avoid using these: everything was so more beautiful with one single dataset and dozens of supporting views (OK, the views themselves are hardly “beautiful”).

However it was impossible (for my level of expertise) to optimize query performance what with all those views on per-hour and per-day aggregation. The GROUP BYs and the JOINs did not make it possible for condition pushdown (i.e. using MERGE algorithm) where desired.

As result, mycheckpoint now manages aggregation tables: per-hour and per-day. The impact on sample taking is neglect able (making for two additional fast queries), but the impact on reading aggregated data is overwhelming. Generating a HTML full report could take a few minutes to complete. It now returns in no time. This makes charting more attractive, and allows for enhanced charting, such as zooming in on charts, as described following.

Aggregation tables will automatically be created and retroactively populated upon using revision 208. There’s nothing special to do; be advised that for one single execution of mycheckpoint, many INSERT queries are going to be executed. Shouldn’t take more than a couple minutes on commodity hardware and a few months of history.

It is possible to disable aggregation tables, or make for a complete rebuild of tables; by default, though, aggregation is ON.

Enhanced charting

Two enhancements here: Continue reading » “mycheckpoint (rev 208): aggregation tables, enhanced charting, RPM distribution”

Thoughts and ideas for Online Schema Change

Development MySQL

Here’s a few thoughts on current status and further possibilities for Facebook’s Online Schema Change (OSC) tool. I’ve had these thoughts for months now, pondering over improving oak-online-alter-table but haven’t got around to implement them nor even write them down. Better late than never.

The tool has some limitations. Some cannot be lifted, some could. Quoting from the announcement and looking at the code, I add a few comments. I conclude with a general opinion on the tool’s abilities.

“The original table must have PK. Otherwise an error is returned.”

This restriction could be lifted: it’s enough that the table has a UNIQUE KEY. My original oak-online-alter-table handled that particular case. As far as I see from their code, the Facebook code would work just as well with any unique key.

However, this restriction is of no real interest. As we’re mostly interested in InnoDB tables, and since any InnoDB table should have a PRIMARY KEY, we shouldn’t care too much.

“No foreign keys should exist. Otherwise an error is returned.”

Tricky stuff. With oak-online-alter-table, changes to the original table were immediately reflected in the ghost table. With InnoDB tables, that meant same transaction. And although I never got to update the text and code, there shouldn’t be a reason for not using child-side foreign keys (the child-side is the table on which the FK constraint is defined).

The Facebook patch works differently: it captures changes and writes them to a delta table,  to be later (asynchronously) analyzed and make for a replay of actions on the ghost table. Continue reading » “Thoughts and ideas for Online Schema Change”

mycheckpoint (rev. 190): HTTP server; interactive charts

MySQL

Revision 190 of mycheckpoint, a MySQL monitoring solution, has been released. New and updated in this revision:

  • HTTP server: mycheckpoint can now act as a web server. Point your browser and start browsing through HTML reports. See mock up demo.
  • Interactive charts: HTML line charts are now interactive, presenting with accurate data as you move over them. See sample.
  • Enhanced auto-deploy: now auto-recognizing failed upgrades.
  • Reduced footprint: much code taken out of the views, leading to faster loading times.
  • Better configuration file use: now supporting all command line options in config file.
  • Remote host monitoring accessibility: now supporting complete configurable accessibility details.
  • Bug fixes: thanks to the bug reporters!

mycheckpoint is free, simple, easy to use (now easier with HTTP server) and useful. I encourage you to try it out: even compared with other existing and emerging monitoring tools, I believe you will find it a breeze; it’s low impact and lightness appealing; it’s alerts mechanism assuring; its geeky SQL-based nature with ability to drill down to fine details — geeky-kind-of-attractive.

</encouragement>

HTTP server

You can now run mycheckpoint in http mode:

bash$ mycheckpoint http

mycheckpoint will listen on port 12306, and will present you with easy browsing through the reports of your mycheckpoint databases. Continue reading » “mycheckpoint (rev. 190): HTTP server; interactive charts”

Another Python MySQL template

MySQL

Following up on Matt Reid’s simple python, mysql connection and iteration, I would like to share one of my own, which is the base for mycheckpoint & openark kit scripts.

It is oriented to provide with clean access to the data: the user is not expected to handle cursors and connections. Result sets are returned as python lists and dictionaries. It is also config file aware and comes with built in command line options.

I hope it comes to use: my.py

mycheckpoint (rev. 132): custom monitoring, custom charts, process list dump

MySQL

Revision 132 of mycheckpoint has been released. New and updated in this revision:

  • Custom monitoring: monitoring & charting for user defined queries
  • HTML reports for custom monitoring
  • Process list dump upon alert notifications

Custom monitoring & charts

Custom monitoring allows the user to supply with a query, the results of which will be monitored.

That is, mycheckpoint monitors the status variables, replication status, OS metrics. But it cannot by itself monitor one’s application. Which is why a user may supply with such query as:

SELECT COUNT(*) FROM shopping_cart WHERE is_pending=1

Such a query will tell an online store how many customers are in the midst of shopping. There is no argument that this number is worth monitoring for. Given the above query, mycheckpoint will execute it per sample, and store the query’s result along with all sampled data, to be then aggregated by complex views to answer for:

  • What was the value per given sample?
  • What is the value difference for each sample?
  • What is the change per second, i.e. the rate?

mycheckpoint goes one step forward, and explicity records another metric:

  • How much time did it take to take that sample?

Continue reading » “mycheckpoint (rev. 132): custom monitoring, custom charts, process list dump”

mycheckpoint (Rev. 118): alerts, email notifications and more

MySQL

Revision 118 of mycheckpoint has been released. New and updated in this revision:

  • Conditional alerts
  • Email notifications
  • Revised HTML reports, including 24/7 reports.
  • Updated documentation

With this new revision mycheckpoint turns into a monitoring solution for MySQL. One can now:

  • Store measure metrics
  • Query for raw, aggregated or digested metrics
  • Generate charts for selected metrics
  • View HTML reports for selecetd metrics
  • Define alerts conditions, query for pending alerts
  • Be notified via email on raised or resolved alerts.

Conditional alerts

mycheckpoint is SQL oriented. As such, it allows for creation of alert conditions, which are nothing more than SQL conditions.

Continue reading » “mycheckpoint (Rev. 118): alerts, email notifications and more”