MySQL High Availability at GitHub

GitHub uses MySQL as its main datastore for all things non-git, and its availability is critical to GitHub’s operation. The site itself, GitHub’s API, authentication and more, all require database access. We run multiple MySQL clusters serving our different services and tasks. Our clusters use classic primary-replicas setup, where a single node in a cluster (the primary) is able to accept writes. The rest of the cluster nodes (the replicas) asynchronously replay changes from the primary and serve our read traffic.

The availability of primary nodes is particularly critical. With no primary, a cluster cannot accept writes: any writes that need to be persisted cannot be persisted. Any incoming changes such as commits, issues, user creation, reviews, new repositories, etc., would fail.

To support writes we clearly need to have an available writer node, a primary of a cluster. But just as important, we need to be able to identify, or discover, that node.

On a failure, say a primary box crash scenario, we must ensure the existence of a new primary, as well as be able to quickly advertise its identity. The time it takes to detect a failure, run the failover and advertise the new primary’s identity makes up the total outage time.

This post illustrates GitHub’s MySQL high availability and primary service discovery solution, which allows us to reliably run a cross-data-center operation, be tolerant of data center isolation, and achieve short outage times on a failure.

High availability objectives

The solution described in this post iterates on, and improves, previous high availability (HA) solutions implemented at GitHub. As we scale, our MySQL HA strategy must adapt to changes. We wish to have similar HA strategies for our MySQL and for other services within GitHub.

When considering high availability and service discovery, some questions can guide your path into an appropriate solution. An incomplete list may include:

• How much outage time can you tolerate?
• How reliable is crash detection? Can you tolerate false positives (premature failovers)?
• How reliable is failover? Where can it fail?
• How well does the solution work cross-data-center? On low and high latency networks?
• Will the solution tolerate a complete data center (DC) failure or network isolation?
• What mechanism, if any, prevents or mitigates split-brain scenarios (two servers claiming to be the primary of a given cluster, both independently and unknowingly to each other accepting writes)?
• Can you afford data loss? To what extent?

To illustrate some of the above, let’s first consider our previous HA iteration, and why we changed it.

Moving away from VIP and DNS based discovery

In our previous iteration, we used:

• orchestrator for detection and failover, and
• VIP and DNS for primary discovery.

In that iteration, clients discovered the writer node by using a name, e.g. mysql-writer-1.github.net. The name resolved to a Virtual IP address (VIP) which the primary host would acquire.

Thus, on a normal day, clients would just resolve the name, connect to the resolved IP, and find the primary listening on the other side.

Consider this replication topology, spanning three different data centers:

In the event of a primary failure, a new server, one of the replicas, must be promoted in its place.

orchestrator will detect a failure, promote a new primary, and then act to reassign the name/VIP. Clients don’t actually know the identity of the primary: all they have is a name, and that name must now resolve to the new primary. However, consider:

VIPs are cooperative: they are claimed and owned by the database servers themselves. To acquire or release a VIP, a server must send an ARP request. The server owning the VIP must first release it before the newly promoted primary acquires it. This has some undesired effects:

• An orderly failover operation will first contact the dead primary and request that it release the VIP, and then contact the newly promoted primary and request that it grab the VIP. What if the old primary cannot be reached or refuses to release the VIP? Given that there’s a failure scenario on that server in the first place, it is not unlikely that it would fail to respond in a timely manner, or indeed respond at all.
  • We can end up with a split-brain: two hosts claiming to have the same VIP. Different clients may connect to either of those servers, depending on the shortest network path.
  • The source of truth here depends on the cooperation of two independent servers, and this setup is unreliable.
• Even if the old primary does cooperate, the workflow wastes precious time: the switch to the new primary waits while we contact the old primary.
• And even as the VIP changes, existing client connections are not guaranteed to disconnect from the old server, and we may still experience a split-brain.

In parts of our setup VIPs are bound by physical location. They are owned by a switch or a router. Thus, we can only reassign the VIPs onto co-located servers. In particular, in some cases we cannot assign the VIP to a server promoted in a different data center, and must make a DNS change.

• DNS changes take longer to propagate. Clients cache DNS names for a preconfigured time. A cross-DC failover implies more outage time: it will take more time to make all clients aware of the identity of the new primary.

These limitations alone were enough to push us in search of a new solution, but for even more consideration were:

• primarys were self-injecting themselves with heartbeats via the pt-heartbeat service, for the purpose of lag measurement and throttling control. The service had to be kicked off on the newly promoted primary. If possible, the service would be shut down on the old primary.
• Likewise, Pseudo-GTID injection was self-managed by the primarys. It would need to kick off on the new primary, and preferably stop on the old primary.
• The new primary was set as writable. The old primary was to be set as read_only, if possible.

These extra steps were a contributing factor to the total outage time and introduced their own failures and friction.

The solution worked, and GitHub has had successful MySQL failovers that went well under the radar, but we wanted our HA to improve on the following:

• Be data center agnostic.
• Be tolerant of data center failure.
• Remove unreliable cooperative workflows.
• Reduce total outage time.
• As much as possible, have lossless failovers.

GitHub’s HA solution: orchestrator, Consul, GLB

Our new strategy, along with collateral improvements, solves or mitigates much of the concerns above. In today’s HA setup, we have:

• orchestrator to run detection and failovers. We use a cross-DC orchestrator/raft setup as depicted below.
• Hashicorp’s Consul for service discovery.
• GLB/HAProxy as a proxy layer between clients and writer nodes. Our GLB director is open sourced.
• anycast for network routing.

The new setup removes VIP and DNS changes altogether. And while we introduce more components, we are able to decouple the components and simplify the task, as well as be able to utilize solid and stable solutions. A breakdown follows.

A normal flow

On a normal day the apps connect to the write nodes through GLB/HAProxy.

The apps are never aware of the primary’s identity. As before, they use a name. For example, the primary for cluster1 would be mysql-writer-1.github.net. In our current setup, however, this name gets resolved to an anycast IP.

With anycast, the name resolves to the same IP everywhere, but traffic is routed differently based on a client’s location. In particular, in each of our data centers we have GLB, our highly available load balancer, deployed on multiple boxes. Traffic to mysql-writer-1.github.net always routes to the local data center’s GLB cluster. Thus, all clients are served by local proxies.

We run GLB on top of HAProxy. Our HAProxy has writer pools: one pool per MySQL cluster, where each pool has exactly one backend server: the cluster’s primary. All GLB/HAProxy boxes in all DCs have the exact same pools, and they all indicate the exact same backend servers in these pools. Thus, if an app wishes to write to mysql-writer-1.github.net, it matters not which GLB server it connects to. It will always get routed to the actual cluster1 primary node.

As far as the apps are concerned, discovery ends at GLB, and there is never a need for re-discovery. It’s all on GLB to route the traffic to the correct destination.

How does GLB know which servers to list as backends, and how do we propagate changes to GLB?

Discovery via Consul

Consul is well known as a service discovery solution, and also offers DNS services. In our solution, however, we utilize it as a highly available key-value (KV) store.

Within Consul’s KV store we write the identities of cluster primarys. For each cluster, there’s a set of KV entries indicating the cluster’s primary fqdn, port, ipv4, ipv6.

Each GLB/HAProxy node runs consul-template: a service that listens on changes to Consul data (in our case: changes to clusters primarys data). consul-template produces a valid config file and is able to reload HAProxy upon changes to the config.

Thus, a change in Consul to a primary’s identity is observed by each GLB/HAProxy box, which then reconfigures itself, sets the new primary as the single entity in a cluster’s backend pool, and reloads to reflect those changes.

At GitHub we have a Consul setup in each data center, and each setup is highly available. However, these setups are independent of each other. They do not replicate between each other and do not share any data.

How does Consul get told of changes, and how is the information distributed cross-DC?

orchestrator/raft

We run an orchestrator/raft setup: orchestrator nodes communicate to each other via raft consensus. We have one or two orchestrator nodes per data center.

orchestrator is charged with failure detection, with MySQL failover, and with communicating the change of primary to Consul. Failover is operated by the single orchestrator/raft leader node, but the change, the news that a cluster now has a new primary, is propagated to all orchestrator nodes through the raft mechanism.

As orchestrator nodes receive the news of a primary change, they each communicate to their local Consul setups: they each invoke a KV write. DCs with more than one orchestrator representative will have multiple (identical) writes to Consul.

Putting the flow together

In a primary crash scenario:

• The orchestrator nodes detect failures.
• The orchestrator/raft leader kicks off a recovery. A new primary gets promoted.
• orchestrator/raft advertises the primary change to all raft cluster nodes.
• Each orchestrator/raft member receives a leader change notification. They each update the local Consul’s KV store with the identity of the new primary.
• Each GLB/HAProxy has consul-template running, which observes the change in Consul’s KV store, and reconfigures and reloads HAProxy.
• Client traffic gets redirected to the new primary.

There is a clear ownership of responsibilities for each component, and the entire design is both decoupled as well as simplified. orchestrator doesn’t know about the load balancers. Consul doesn’t need to know where the information came from. Proxies only care about Consul. Clients only care about the proxy.

Furthermore:

• There are no DNS changes to propagate.
• There is no TTL.
• The flow does not need the dead primary’s cooperation. It is largely ignored.

Additional details

To further secure the flow, we also have the following:

• HAProxy is configured with a very short hard-stop-after. When it reloads with a new backend server in a writer-pool, it automatically terminates any existing connections to the old primary.
  • With hard-stop-after we don’t even require cooperation from the clients, and this mitigates a split-brain scenario. It’s noteworthy that this isn’t hermetic, and some time passes before we kill old connections. But there’s then a point in time after which we’re comfortable and expect no nasty surprises.
• We do not strictly require Consul to be available at all times. In fact, we only need it to be available at failover time. If Consul happens to be down, GLB continues to operate with the last known values and makes no drastic moves.
• GLB is set to validate the identity of the newly promoted primary. Similarly to our context-aware MySQL pools, a check is made on the backend server, to confirm it is indeed a writer node. If we happen to delete the primary’s identity in Consul, no problem; the empty entry is ignored. If we mistakenly write the name of a non-primary server in Consul, no problem; GLB will refuse to update it and keep running with last known state.

We further tackle concerns and pursue HA objectives in the following sections.

orchestrator/raft failure detection

orchestrator uses a holistic approach to detecting failure, and as such it is very reliable. We do not observe false positives: we do not have premature failovers, and thus do not suffer unnecessary outage time.

orchestrator/raft further tackles the case for a complete DC network isolation (aka DC fencing). A DC network isolation can cause confusion: servers within that DC can talk to each other. Is it they that are network isolated from other DCs, or is it other DCs that are being network isolated?

In an orchestrator/raft setup, the raft leader node is the one to run the failovers. A leader is a node that gets the support of the majority of the group (quorum). Our orchestrator node deployment is such that no single data center makes a majority, and any n-1 DCs do.

In the event of a complete DC network isolation, the orchestrator nodes in that DC get disconnected from their peers in other DCs. As a result, the orchestrator nodes in the isolated DC cannot be the leaders of the raft cluster. If any such node did happen to be the leader, it steps down. A new leader will be assigned from any of the other DCs. That leader will have the support of all the other DCs, which are capable of communicating between themselves.

Thus, the orchestrator node that calls the shots will be one that is outside the network isolated data center. Should there be a primary in an isolated DC, orchestrator will initiate the failover to replace it with a server in one of the available DCs. We mitigate DC isolation by delegating the decision making to the quorum in the non-isolated DCs.

Quicker advertisement

Total outage time can further be reduced by advertising the primary change sooner. How can that be achieved?

When orchestrator begins a failover, it observes the fleet of servers available to be promoted. Understanding replication rules and abiding by hints and limitations, it is able to make an educated decision on the best course of action.

It may recognize that a server available for promotion is also an ideal candidate, such that:

• There is nothing to prevent the promotion of the server (and potentially the user has hinted that such server is preferred for promotion), and
• The server is expected to be able to take all of its siblings as replicas.

In such a case orchestrator proceeds to first set the server as writable, and immediately advertises the promotion of the server (writes to Consul KV in our case), even while asynchronously beginning to fix the replication tree, an operation that will typically take a few more seconds.

It is likely that by the time our GLB servers have been fully reloaded, the replication tree is already intact, but it is not strictly required. The server is good to receive writes!

Semi-synchronous replication

In MySQL’s semi-synchronous replication a primary does not acknowledge a transaction commit until the change is known to have shipped to one or more replicas. It provides a way to achieve lossless failovers: any change applied on the primary is either applied or waiting to be applied on one of the replicas.

Consistency comes with a cost: a risk to availability. Should no replica acknowledge receipt of changes, the primary will block and writes will stall. Fortunately, there is a timeout configuration, after which the primary can revert back to asynchronous replication mode, making writes available again.

We have set our timeout at a reasonably low value: 500ms. It is more than enough to ship changes from the primary to local DC replicas, and typically also to remote DCs. With this timeout we observe perfect semi-sync behavior (no fallback to asynchronous replication), as well as feel comfortable with a very short blocking period in case of acknowledgement failure.

We enable semi-sync on local DC replicas, and in the event of a primary’s death, we expect (though do not strictly enforce) a lossless failover. Lossless failover on a complete DC failure is costly and we do not expect it.

While experimenting with semi-sync timeout, we also observed a behavior that plays to our advantage: we are able to influence the identity of the ideal candidate in the event of a primary failure. By enabling semi-sync on designated servers, and by marking them as candidates, we are able to reduce total outage time by affecting the outcome of a failure. In our experiments we observe that we typically end up with the ideal candidates, and hence run quick advertisements.

Heartbeat injection

Instead of managing the startup/shutdown of the pt-heartbeat service on promoted/demoted primarys, we opted to run it everywhere at all times. This required some patching so as to make pt-heartbeat comfortable with servers either changing their read_only state back and forth or completely crashing.

In our current setup pt-heartbeat services run on primarys and on replicas. On primarys, they generate the heartbeat events. On replicas, they identify that the servers are read-only and routinely recheck their status. As soon as a server is promoted as primary, pt-heartbeat on that server identifies the server as writable and begins injecting heartbeat events.

orchestrator ownership delegation

We further delegated to orchestrator:

• Pseudo-GTID injection,
• Setting the promoted primary as writable, clearing its replication state, and
• Setting the old primary as read_only, if possible.

On all things new-primary, this reduces friction. A primary that is just being promoted is clearly expected to be alive and accessible, or else we would not promote it. It makes sense, then, to let orchestrator apply changes directly to the promoted primary.

Limitations and drawbacks

The proxy layer makes the apps unaware of the primary’s identity, but it also masks the apps’ identities from the primary. All the primary sees are connections coming from the proxy layer, and we lose information about the actual source of the connection.

As distributed systems go, we are still left with unhandled scenarios.

Notably, on a data center isolation scenario, and assuming a primary is in the isolated DC, apps in that DC are still able to write to the primary. This may result in state inconsistency once network is brought back up. We are working to mitigate this split-brain by implementing a reliable STONITH from within the very isolated DC. As before, some time will pass before bringing down the primary, and there could be a short period of split-brain. The operational cost of avoiding split-brains altogether is very high.

More scenarios exist: the outage of Consul at the time of the failover; partial DC isolation; others. We understand that with distributed systems of this nature it is impossible to close all of the loopholes, so we focus on the most important cases.

The results

Our orchestrator/GLB/Consul setup provides us with:

• Reliable failure detection,
• Data center agnostic failovers,
• Typically lossless failovers,
• Data center network isolation support,
• Split-brain mitigation (more in the works),
• No cooperation dependency,
• Between 10 and 13 seconds of total outage time in most cases.
  • We see up to 20 seconds of total outage time in less frequent cases, and up to 25 seconds in extreme cases.

Conclusion

The orchestration/proxy/service-discovery paradigm uses well known and trusted components in a decoupled architecture, which makes it easier to deploy, operate and observe, and where each component can independently scale up or down. We continue to seek improvements as we continuously test our setup.

Written by

Shlomi Noach

@shlomi-noach