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Success with OpenSolaris + ZFS + MySQL in production!

October 10, 2008 82 comments
Pimp My Drive by Richard and Barb

Pimp My Drive by Richard and Barb

There’s remarkably little information online about using MySQL on ZFS, successfully or not, so I did what any enterprising geek would do: Built a box, threw some data on it, and tossed it into production to see if it would sink or swim. ๐Ÿ™‚

I’m a Linux geek, have been since 1993 (Slackware!). All of SmugMug’s datacenters (and our EC2 images) are built on Linux. But the current state of filesystems on Linux is awful, and it’s been awful for at least 8 years. As a result, we’ve put our first OpenSolaris box into production at SmugMug and I’ve been pleasantly surprised with the performance (the userland portions of the OS, though, leave a lot to be desired). Why OpenSolaris?

ZFS.

ZFS is the most amazing filesystem I’ve ever come across. Integrated volume management. Copy-on-write. Transactional. End-to-end data integrity. On-the-fly corruption detection and repair. Robust checksums. No RAID-5 write hole. Snapshots. Clones (writable snapshots). Dynamic striping. Open source software. It’s not available on Linux. Ugh. Ok, that sucks. (GPL is a double-edged sword, and this is a perfect example). Since it’s open-source, it’s available on other OSes, like FreeBSD and Mac OS X, but Linux is a no go. *sigh* I have a feeling Sun is working towards GPL’ing ZFS, but these things take time and I’m sick of waiting.

The OpenSolaris project is working towards making Solaris resemble the Linux (GNU) userland plus the Solaris kernel. They’re not there yet, but the goal is commendable and the package management system has taken a few good steps in the right direction. It’s still frustrating, but massively less so. Despite all the rough edges, though, ZFS is just so compelling I basically have no choice. I need end-to-end data integrity. The rest of the stuff is just icing on an already delicious cake.

The obvious first place to use ZFS was for our database boxes, so that’s what I did. I didn’t have the time, knowledge of OpenSolaris, or inclination to do any synthetic benchmarking or attempt to create an apples-to-apples comparison with our current software setup, so I took the quickest route I could to have a MySQL box up and running. I had two immediate performance metrics I cared about:

  • Can a MySQL slave on OpenSolaris with ZFS keep up with the write load with no readers?
  • If yes, can the slave shoulder its fair share of the reads, too?

Simple and to the point. Here’s the system:

  • SunFire X2200 M2 w/64GB of RAM and 2 x dual-core 2.6GHz Opterons
  • Dell MD3000 w/15 x 15K SCSI disks and mirrored 512MB battery-backed write caches (these are really starting to piss us off, but that’s another post…)

The quickest path to getting the system up and running resulted in lots of variables in the equation changing:

  • Linux -> OpenSolaris (snv_95 currently)
  • MySQL 5.0 -> MySQL 5.1
  • LVM2 + ext3 -> ZFS
  • Hardware RAID -> Software RAID
  • No compression -> gzip9 volume compression

Whew! Lots of changes. Let me break them down one by one, skipping the obvious first one:

MySQLMySQL 5.1 is nearing GA, and has a couple of very important bug fixes for us that we’ve been working around for an awfully long time now. When I downloaded the MySQL 5.0 Enterprise Solaris packages and they wouldn’t install properly, that made the decision to dabble with 5.1 even easier – the CoolStack 5.1 binaries from Sun installed just fine. ๐Ÿ™‚

Going to MySQL 5.1 on a ~1TB DB is painful, though, I should warn you up front. It forced ‘REPAIR TABLE’ on lots of my tables, so this step took much longer than I expected. Also, we found that the query optimizer in some cases did a poor job of choosing which indexes to use for queries. A few “simple” SELECTs (no JOINs or anything) that would take a few milliseconds on our 5.0 boxes took seconds on our 5.1 boxes. A little bit of code solved the problem and resulted in better efficiency even for the 5.0 boxes, so it was a net win, but painful for a few hours while I tracked it down.

Finally, after running CoolStack for a few days, we switched (on advice from Sun) to the 5.1.28 Community Edition to fix some scalability issues. This made a huge difference so I highly recommend it. (On a side note, I wish MySQL provided Enterprise binaries for 5.1 for their paying customers to test with). The Google & Percona patches should make a monster difference, too.

Volume management and the filesystem – There’s some debate online as to whether ZFS is a “layering violation” or not. I could care less – it’s pure heaven to work with. This is how filesystems should have always been. The commands to create, manage, and extend pools are so simple and logical you basically don’t even need man pages (discovering disk names, on the other hand, isn’t easy. I finally used ‘format’ but even typing it gives me the shivers…). zpool create MYPOOL c0t0d0You just created a ZFS pool. Want a mirror? zpool create MYPOOL mirror c0t0d0 c0t0d1Want a striped mirror (RAID-1+0) w/spare? zpool create MYPOOL mirror c0t0d0 c0t0d1 mirror c0t0d2 c0t0d3 spare c0t0d4Want to add another mirror to an already striped mirror (RAID-1+0) pool? zpool add MYPOOL mirror c0t0d5 c0t0d6Get the idea? Super-easy. Massively easier than LVM2+ext3 where adding a mirror is at least 4 commands: pvcreate, vgextend, lvextend, resize2fs – usually with an fsck in there too.

Software RAID – This is something we’ve been itching for for quite some time. With modern system architectures and modern CPUs, there’s no real reason “storage” should be separate from “servers”. A storage device should be just a server with some open-source software and lots of disks. (The “open source” part is important. I’m sick of relying on closed-source RAID firmware). The amount of flexibility, performance, reliability and operational cost savings you can achieve with software RAID rather than hardware is enormous. With real datacenter-grade flash storage devices just around the corner, this becomes even more vital. ZFS makes all of this stuff Just Work, including properly adjusting the write caches on the disk, eliminating the RAID-5 write hole, etc. Our first box still has a battery-backed write-cache between the disks and the CPU for write performance, but all the disks are just exposed as JBOD and striped + mirrored using ZFS. It rocks.

Compression – Ok, so this is where the geek in me decided to get a little crazy. ZFS allows you to turn on (and off) a variety of compression mechanisms on-the-fly on your pool. This comes with some unknown (depends on lots of factors, including your workload, CPUs, etc) performance penalty (CPU is required to compress/decompress), but can have performance upsides too (smaller reads and writes = less busy disk).

InnoDB is notoriously bad at disk usage (we see 2X+ space usage using InnoDB) and while it’s not an enormous concern, it’d be something nice to curtail. On most of our DB boxes, we have idle CPU around (we’re not really I/O bound either – MySQL is a strange duck in that you can be concurrency bound without being either CPU or I/O bound fairly easily thanks to poor locking), so I figured I’d go wild and give it a shot.

Lo and behold, it worked! We’re getting a 2.12X compression ratio on our DB, and performance is keeping up just fine. I ran some quick performance tests on large linear reads/writes and we were measuring 45.6MB/s sustained uncompression and 39MB/s sustained compression on a single-threaded app on an Opteron CPU. We’ll probably continue to test compression stuff, and of course if we run into performance bottlenecks, we’ll turn it off immediately, but so far the mad science experiment is working.

Configuration

Configuring everything was relatively painless. I bounced a few questions off of Sun (imho, this is where Sun really shines – they listen to their customers and put technical people with real answers within arms reach) and read the Evil Tuning Guide to ZFS. In the end I really only ended up tweaking two things (plus setting compression to gzip-9):

  • I set the recordsize to match InnoDB’s – 16KB. zfs set recordsize=16K MYPOOL
  • I turned off file-level prefetching. See the Evil Tuning Guide. (I’m testing with this on, now, and so far it seems fine).

I believe since ZFS is fully checksummed and transactional (so partial writes never occur) I can disable InnoDB’s doublewrite buffer. I haven’t been brave enough to do this yet, but I plan to. I like performance. ๐Ÿ™‚

Performance

This box has been in production in our most important DB cluster for two weeks now. On the metrics I care about (replication lag, query performance, CPU utliization, etc) it’s pulling its fair share of the read load and keeping completely up on replication. Just eyeballing the stats (we haven’t had time to number crunch comparison stats, though we gave some to Sun that I’m hoping they crunch), I can’t tell a difference between this slave and any of the others in the cluster running Linux. I sure feel a lot better about the data integrity, though.

Why not [insert other OS here]?

We could have gone with Nexenta, FreeBSD, Mac OS X, or even *gulp* tried ZFS on FUSE/Linux. To be honest, Nexenta is the most interesting because it actually *is* the Solaris kernel plus Linux userland, exactly what I wanted. I’ve played with it a tiny bit, and plan to play with it more, but this is a mission-critical chunk of data we’re dealing with, so I need a company like Sun in my corner. I find myself wishing Sun had taken the Nexenta route (or offered support for it that I could buy or something). Instead, we’ll be buying software service & support from Sun for this and any other mission-critical OpenSolaris boxes.

FreeBSD also doesn’t have the support I need, Mac OS X wasn’t performant enough the last time I fiddled with it as a server, and most FUSE filesystems are slow so I didn’t even bother.

Gotchas

  • On my 64GB Linux boxes, I give InnoDB 54GB of buffer pool size. With otherwise exactly the same my.cnf settings, MySQL on OpenSolaris crashes with anything more than 40GB. 14GB, or 21.9% of my RAM, that I can’t seem to use effectively. Sun is looking into this, I’ll let you know if I find anything out.
  • For a Linux geek, OpenSolaris userland is still painful. Bear in mind that this is a single-purpose box, so all I really want to do is install and configure MySQL, then monitor the software and hardware. If this were a developer box, I would have already given up. OpenSolaris is still very early, so I’m still hopeful, but be prepared to invest some time. Some of my biggest peeves:
    • Common commands, like ‘ps’, have very different flags.
    • Some GNU bins are provided in /usr/gnu/bin – but a better ‘ps’ is missing, as is ‘top’ (no, ‘prstat’ is *not* the same!), ‘screen’, etc (Can anyone even use remote command-line Unix boxes without ‘screen’? If so, how?)
    • Packages are crazily named, making finding your stuff to install tough. Like instead of Apache being called ‘apache’ or ‘httpd’, it’s called ‘SUNWapch’. What?
    • After finally figuring out how to search for packages to get the names (‘pkg search -r Apache’ – which doesn’t provide pleasant results), I discovered that ‘top’ and ‘screen’ just simply aren’t provided (or they’re named even worse than I thought). Instead, I had to go to a 3rd party repository, BlastWave, to get them. And then, of course, the ‘top’ OpenSolaris package wouldn’t actually install and I had to manually break into the package and extract the binary. Ugh.

Whew! Big post, but there was a lot of ground to cover. I’m sure there are questions, so please post in the comments and I’ll try to do a follow-up. As I fiddle, tweak, and change things I’ll try to post updates, too – but no promises. ๐Ÿ™‚

UPDATE: One other gotcha I forgot to mention. When MySQL (or, presumably, anything else running on the box) gets really busy, user interactivity evaporates on OpenSolaris. Just hitting enter or any other key at a bash prompt over SSH can take many seconds to register. I remember when Linux had these sort of issues in the past, but had blissfully forgotten about them.

UPDATE: I went more in depth on ZFS compression testing and blogged the results. Enjoy!

MySQL and the Linux swap problem

Ever since Peter over at Percona wrote about MySQL and swap, I’ve been meaning to write this post. But after I saw Dathan Pattishall’s post on the subject, I knew I’d better actually do it. ๐Ÿ™‚

There’s a nasty problem with Linux 2.6 even when you have a ton of RAM. No matter what you do, including setting /proc/sys/vm/swappiness = 0, your OS is going to prefer swapping stuff out rather than freeing up system cache. On a single-use machine, where the application is better at utilizing RAM than the system is, this is incredibly stupid. Our MySQL boxes are a perfect example – they run only MySQL and we want InnoDB to have a lot of RAM (32-64GB … and we’re testing 128GB).

You can’t just not have any swap partitions, though, or kswapd will literally dominate one of your CPU cores doing who-knows-what. But you can’t have it swapping to disk, or your performance goes into the toilet. So what to do?

Our solution is to make swap partitions out of RAM disks. Yes, I realize how insane that sounds, but the Linux kernel’s insanity drove us to it. Best part? It works. Here’s how:

mkdir /mnt/ram0
mkfs.ext3 -m 0 /dev/ram0
mount /dev/ram0 /mnt/ram0
dd bs=1024 count=14634 if=/dev/zero of=/mnt/ram0/swapfile
mkswap /mnt/ram0/swapfile
swapon /mnt/ram0/swapfile

That’ll give you a 14MB swap partition that’s actually in RAM, so it’s super-fast. This assumes your kernel is creating 16MB ramdisk partitions, but you can adjust your kernel paramenters and/or the ‘dd’ line above to suit whatever size you want.

We’ve found that anywhere from 20MB-40MB tends to be enough (so use /dev/ram1, /dev/ram2, etc), depending on load of the box. kswapd no longer uses any noticeable CPU, there’s always a few MB of free “swap”, and life is back in the fast lane. Just add those lines to your relevant startup file, like /etc/rc.d/rc.local, and it’ll persist after reboots.

Some Linux purists will probably hate this approach, others may have more efficient ways of achieving the same thing, but this works for us. Give it a shot. ๐Ÿ™‚

Oh, and I hope it goes without saying, but make *darn* sure you know what you’re running on your box and what the maximum RAM footprint will be before you try running with only 20-40MB of swap. We’ve never OOMed (Out-Of-Memory) a production MySQL box – but that’s because we’re careful.

UPDATE: See what happens when I wait to blog? I forget that I read another related post over on Kevin Burton’s blog. Like Kevin, we’re using O_DIRECT, but unlike Kevin, this doesn’t solve the problem for us. Linux still swaps. We use the latest 2.6.18-53.1.14.el5 kernel from CentOS 5, btw. (Sorry, had posted 2.6.9 because I was dumb. We’re fully patched)

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