MongoDB 5.0 Initial Sync Progress Monitoring Improvements

Posted Nov 20, 2020 Updated Mar 28, 2021

By Alex Bevilacqua 10 min read

<SHAMELESS_PLUG>
My previous article about initial sync progress monitoring got some attention, and as I’m a Technical Services Engineer at MongoDB, I got to provide direct feedback during the design phase of SERVER-47863: Initial Sync Progress Metrics!.

You can be a part of this team and this awesome organization too! Head on over to MongoDB’s careers page to see what’s available, or feel free to ping me on LinkedIn if you have any questions.
</SHAMELESS_PLUG>

The goal of this post is to showcase a change that is coming in MongoDB 5.0 that will significantly improve the feedback loop regarding initial sync progress monitoring. With SERVER-47863 being completed, the results of the db.adminCommand({ replSetGetStatus: 1, initialSync: 1 }) now include additional metrics that can be used to help determine how long (approximately) an initial sync will be running for.

Though this feature is planned to be backported to versions 4.4.3 and 4.2.12, at the time of writing backports had not been completed.

If you want to test this yourself, my setup was as follows:

1) Build the server using the install-mongod SCons target. My version of the server was mongod-4.9.0-alpha-596-g4437864 as a result.
2) Start up a single node replicaset as follows:

  
mkdir data && build/install/bin/mongod --dbpath data --bind_ip_all --replSet rs0 --logpath data/mongod.log

3) Using the mongo shell, initialize the replica set:

mongo --eval 'rs.initiate()'

4) Seed the test.data namespace using the following mgeneratejs and mongoimport:

  
curl -s https://gist.githubusercontent.com/alexbevi/955c6675337107e16d637233f865b1e3/raw/0c48178e9c570b7594f207559744f07ecf87ac28/template.json | mgeneratejs -n 1000000 | mongoimport --collection data --numInsertionWorkers 4

5) Start another mongod and add it to the replica set

  
mkdir data2 && build/install/bin/mongod --port 27018 --dbpath data2 --bind_ip_all --replSet rs0 --logpath data2/mongod.log
mongo --eval 'rs.add("localhost:27018")'

The above steps will build the mongod and start up 2 nodes in a replica set with one in a STARTUP2 (initial sync) state.

By connecting to the secondary node directly and issuing a replSetGetStatus command we can now review the progress of the copy. Note that this will need to be done while the initial sync is in progress; once the node exits the STARTUP2 state and enters a SECONDARY state, the initialSyncStatus details will be unavailable.

For example:

db.adminCommand({ replSetGetStatus: 1, initialSync: 1 });

  
{
	"set" : "rs0",
	...
	"initialSyncStatus" : {
		"failedInitialSyncAttempts" : 0,
		"maxFailedInitialSyncAttempts" : 10,
		"initialSyncStart" : ISODate("2020-11-20T15:47:09.136Z"),
		"totalInitialSyncElapsedMillis" : 14925,               <-----------
		"initialSyncAttempts" : [ ],
		"approxTotalDataSize" : 311911892,                     <-----------
		"approxTotalBytesCopied" : 16811036,                   <-----------
		"remainingInitialSyncEstimatedMillis" : 0,             <-----------
		"appliedOps" : 0,
		"initialSyncOplogStart" : Timestamp(1605887228, 1),
		"totalTimeUnreachableMillis" : NumberLong(0),
		"databases" : {
			"databasesToClone" : 1,                              <-----------
			"databasesCloned" : 2,
			...
			},
			"test" : {
				"collections" : 1,
				"clonedCollections" : 0,
				"start" : ISODate("2020-11-20T15:47:13.968Z"),
				"test.data" : {
					"documentsToCopy" : 250000,
					"documentsCopied" : 13481,
					"indexes" : 1,
					"fetchedBatches" : 2,
					"bytesToCopy" : 311911663,                       <-----------
					"approxBytesCopied" : 16810807,                  <-----------
					"start" : ISODate("2020-11-20T15:47:13.968Z"),
					"receivedBatches" : 2
				}
			}
		}
	},
	...
}

The command output has been truncated to focus in on the new fields added to the initialSyncStatus document. The new metrics details are as follows:

totalInitialSyncElapsedMillis

Current Time - Start Time

remainingInitialSyncEstimatedMillis

(totalInitialSyncElapsedMillis / approxTotalBytesCopied) * (approxTotalDataSize - approxTotalBytesCopied)
If (approxBytesCopied == 0), this field will not be shown

I’ve opened SERVER-53017 to review this particular entry as the value did not appear to be properly updated throughout the initial sync process. As MongoDB 5.0 is not expected to be GA until mid 2021, this will likely be addressed before then.

Update 2021-01-26: SERVER-53017 has been fixed.

<collection>.bytesToCopy

= collStats.size

<collection>.approxBytesCopied

= collStats.avgObjSize * documentsCopied

databasesToClone

= length of listDatabases response

approxTotalDataSize

= Sum (dbStats.dataSize for all databases)

approxTotalBytesCopied

= Sum (<collection>.approxBytesCopied for all collections)

What can we do with all this useful information you ask? Well I’ve written the following script that can be used to poll a secondary replica set member in STARTUP2 to provide details regarding the progress of the initial sync. This script will also provide estimated throughput and a calculated ETA based on data transfer rates.

The output will appear similar to:

  
# start monitoring the initial sync (default refresh interval is 5 seconds)
mongo --host $SECONDARY_HOST --port $SECONDARY_PORT --quiet --eval "load('measureInitialSyncProgress.js'); measureInitialSyncProgress();"
# to use a custom refresh interval, the value is in milliseconds, so for a 1 second refresh
# pass 1000 to measureInitialSyncProgress as follows:
# mongo --host $SECONDARY_HOST --port $SECONDARY_PORT --quiet --eval "load('measureInitialSyncProgress.js'); measureInitialSyncProgress(1000);"

Initial Sync running for 00:18:05.2 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:54.2 to go!
Initial Sync running for 00:18:10.8 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:17.9 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:22.9 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:27.9 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:33.1 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:38.4 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:49.1 to go!
Initial Sync running for 00:18:43.5 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:48.5 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:53.9 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:18:59.5 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:44.2 to go!
Initial Sync running for 00:19:05.3 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:39.2 to go!
Initial Sync running for 00:19:11.0 (remainingInitialSyncEstimatedMillis 0). Cloned 1.1 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:34.2 to go!
Initial Sync running for 00:19:16.6 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:29.2 to go!
Initial Sync running for 00:19:22.3 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:19:28.4 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:24.2 to go!
Initial Sync running for 00:19:34.5 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:19.2 to go!
Initial Sync running for 00:19:39.6 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:14.2 to go!
Initial Sync running for 00:19:45.3 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:19:54.6 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:09.2 to go!
Initial Sync running for 00:20:01.9 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:20:10.1 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (15.9 MB in past 5 second(s)) at a rate of 3.2 MB/second - 00:00:04.2 to go!
Initial Sync running for 00:20:15.7 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (No progress in past 5 second(s))
Initial Sync running for 00:20:20.7 (remainingInitialSyncEstimatedMillis 0). Cloned 1.2 GB of 1.2 GB (11.6 MB in past 5 second(s)) at a rate of 2.3 MB/second - 00:00:00.7 to go!
Node not currently performing an initial sync

~~Once SERVER-53017 has been addressed I will update this script so that the remainingInitialSyncEstimatedMillis values can be used consistently.~~

Update 2021-01-26: SERVER-53017 was addressed and the script has been modified to use the remainingInitialSyncEstimatedMillis value directly!

/* * measureInitialSyncProgress * @author Alex Bevilacqua <alex@alexbevi.com> * @updated 2021-02-23 * * Can be run against a MongoDB 4.2.12+ mongod that is in STARTUP2 (intitial sync) state to gain some * insight into how the sync is progressing based on the improvements introduced with SERVER-47863. * For versions of MongoDB < 4.2.12, see https://www.alexbevi.com/blog/2020/02/13/mongodb-initial-sync-progress-monitoring * * usage: * mongo --quiet --eval "load('measureInitialSyncProgress.js'); measureInitialSyncProgress();" * // pass a value in milliseconds to measureInitialSyncProgress to override the refresh interval * // default: 5000 (5 seconds) * mongo --quiet --eval "load('measureInitialSyncProgress.js'); measureInitialSyncProgress(1000);" */ function msToTime(duration) { var milliseconds = parseInt((duration % 1000) / 100), seconds = Math.floor((duration / 1000) % 60), minutes = Math.floor((duration / (1000 * 60)) % 60), hours = Math.floor((duration / (1000 * 60 * 60)) % 24); hours = (hours < 10) ? "0" + hours : hours; minutes = (minutes < 10) ? "0" + minutes : minutes; seconds = (seconds < 10) ? "0" + seconds : seconds; return hours + ":" + minutes + ":" + seconds + "." + milliseconds; } var getReadableFileSizeString = function (fileSizeInBytes) { var i = -1; var byteUnits = [' kB', ' MB', ' GB', ' TB', 'PB', 'EB', 'ZB', 'YB']; do { fileSizeInBytes = fileSizeInBytes / 1024; i++; } while (fileSizeInBytes > 1024); return Math.max(fileSizeInBytes, 0.1).toFixed(1) + byteUnits[i]; }; function measureSyncProgress(previousResults) { var cmd = db.adminCommand({ replSetGetStatus: 1, initialSync: 1 }); if (!cmd.hasOwnProperty("initialSyncStatus")) { print("Node not currently performing an initial sync"); return { exit: true }; } var status = cmd.initialSyncStatus; db.adminCommand({ replSetGetStatus: 1, initialSync: 1 }).initialSyncStatus.approxTotalBytesCopied var now = new Date(); var started = status.initialSyncStart; var approxTotal = status.approxTotalDataSize; var approxCopied = status.approxTotalBytesCopied; var message = "Cloned " + getReadableFileSizeString(approxCopied) + " of " + getReadableFileSizeString(approxTotal) + " in " + msToTime(now - started); if (previousResults !== undefined && previousResults.hasOwnProperty("refreshIntervalMS") !== null && previousResults.hasOwnProperty("copied")) { var refreshInterval = previousResults.refreshIntervalMS / 1000; var intervalProgress = approxCopied - previousResults.copied; if (intervalProgress == 0) { message += " (No progress in past " + refreshInterval + " second(s))"; } else { var rate = intervalProgress / refreshInterval; // We no longer have to calculate remaining ourselves as SERVER-53017 has fixed remainingInitialSyncEstimatedMillis // var remaining = msToTime(((approxTotal - approxCopied) / rate) * 1000); message += " (" + getReadableFileSizeString(intervalProgress) + " in past " + refreshInterval; message += " second(s)) at a rate of " + getReadableFileSizeString(rate) + "/second - "; message += msToTime(status.remainingInitialSyncEstimatedMillis) + " to go!"; } } print(message); return { copied: approxCopied }; } function measureInitialSyncProgress(refreshIntervalMS) { var dbver = db.version().split('-')[0]; if (dbver < "4.2.12") { print("MongoDB 4.2.12 or greater required but found MongoDB " + dbver); print("For previous versions see https://www.alexbevi.com/blog/2020/02/13/mongodb-initial-sync-progress-monitoring/"); return; } if (refreshIntervalMS === undefined || refreshIntervalMS === null) { refreshIntervalMS = 5000; } var result = measureSyncProgress(result); result["refreshIntervalMS"] = refreshIntervalMS; while (!result.exit) { sleep(refreshIntervalMS); result = measureSyncProgress(result); result["refreshIntervalMS"] = refreshIntervalMS; } }

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This post is licensed under CC BY 4.0 by the author.

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