Update from 4.2.4 -> 4.5

Configuration/Setup
1

Hey guys,

updating my instance from 4.2.4 to 4.5 I get this error:

-------------------------------------------------------- Import task(s) — Importing from smw.vocab.json … … MediaWiki:Smw import schema …[2024-11-26T17:23:09.823172+01:00] exception.ERROR: [bc7a8df58af1e31e9d1f5531] [no req] Wikimedia\Rdbms\DBUnexpectedError: Cannot execute Wikimedia\Rdbms\Database::runOnTransactionIdleCallbacks critical section while session state is out of sync. A critical section from Wikimedia\Rdbms\Database::runOnTransactionIdleCallbacks has failed #0 /var/www/extdata/html/bluespice/w/vendor/wikimedia/request-timeout/src/CriticalSectionScope.php(44): Wikimedia\Rdbms\Database->Wikimedia\Rdbms{closure}() #1 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/Database.php(2412): Wikimedia\RequestTimeout\CriticalSectionScope->__destruct() #2 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/DBConnRef.php(103): Wikimedia\Rdbms\Database->onTransactionCommitOrIdle() #3 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/DBConnRef.php(628): Wikimedia\Rdbms\DBConnRef->__call() #4 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Connection/Database.php(784): Wikimedia\Rdbms\DBConnRef->onTransactionCommitOrIdle() #5 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/ContentCreators/TextContentCreator.php(143): SMW\MediaWiki\Connection\Database->onTransactionCommitOrIdle() #6 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/ContentCreators/DispatchingContentCreator.php(75): SMW\Importer\ContentCreators\TextContentCreator->create() #7 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/Importer.php(142): SMW\Importer\ContentCreators\DispatchingContentCreator->create() #8 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/Importer.php(120): SMW\Importer\Importer->doImport() #9 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Hooks.php(1510): SMW\Importer\Importer->runImport() #10 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(338): SMW\MediaWiki\Hooks->onAfterCreateTablesComplete() #11 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(137): MediaWiki\HookContainer\HookContainer->callLegacyHook() #12 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/HookDispatcher.php(308): MediaWiki\HookContainer\HookContainer->run() #13 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/SQLStore/Installer.php(279): SMW\MediaWiki\HookDispatcher->onInstallerAfterCreateTablesComplete() #14 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/SQLStore/SQLStore.php(456): SMW\SQLStore\Installer->install() #15 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Store.php(490): SMW\SQLStore\SQLStore->setup() #16 /var/www/extdata/html/bluespice/w/includes/installer/DatabaseUpdater.php(547): SMW\Store::setupStore() #17 /var/www/extdata/html/bluespice/w/includes/installer/DatabaseUpdater.php(515): DatabaseUpdater->runUpdates() #18 /var/www/extdata/html/bluespice/w/maintenance/update.php(209): DatabaseUpdater->doUpdates() #19 /var/www/extdata/html/bluespice/w/maintenance/includes/MaintenanceRunner.php(309): UpdateMediaWiki->execute() #20 /var/www/extdata/html/bluespice/w/maintenance/doMaintenance.php(85): MediaWiki\Maintenance\MaintenanceRunner->run() #21 /var/www/extdata/html/bluespice/w/maintenance/update.php(319): require_once(‘…’) #22 {main} {“exception”:“[object] (Wikimedia\Rdbms\DBUnexpectedError(code: 0): Cannot execute Wikimedia\Rdbms\Database::runOnTransactionIdleCallbacks critical section while session state is out of sync.\n\nA critical section from Wikimedia\Rdbms\Database::runOnTransactionIdleCallbacks has failed\n#0 /var/www/extdata/html/bluespice/w/vendor/wikimedia/request-timeout/src/CriticalSectionScope.php(44): Wikimedia\Rdbms\Database->Wikimedia\Rdbms\{closure}()\n#1 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/Database.php(2412): Wikimedia\RequestTimeout\CriticalSectionScope->__destruct()\n#2 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/DBConnRef.php(103): Wikimedia\Rdbms\Database->onTransactionCommitOrIdle()\n#3 /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/DBConnRef.php(628): Wikimedia\Rdbms\DBConnRef->__call()\n#4 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Connection/Database.php(784): Wikimedia\Rdbms\DBConnRef->onTransactionCommitOrIdle()\n#5 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/ContentCreators/TextContentCreator.php(143): SMW\MediaWiki\Connection\Database->onTransactionCommitOrIdle()\n#6 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/ContentCreators/DispatchingContentCreator.php(75): SMW\Importer\ContentCreators\TextContentCreator->create()\n#7 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/Importer.php(142): SMW\Importer\ContentCreators\DispatchingContentCreator->create()\n#8 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Importer/Importer.php(120): SMW\Importer\Importer->doImport()\n#9 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Hooks.php(1510): SMW\Importer\Importer->runImport()\n#10 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(338): SMW\MediaWiki\Hooks->onAfterCreateTablesComplete()\n#11 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(137): MediaWiki\HookContainer\HookContainer->callLegacyHook()\n#12 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/HookDispatcher.php(308): MediaWiki\HookContainer\HookContainer->run()\n#13 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/SQLStore/Installer.php(279): SMW\MediaWiki\HookDispatcher->onInstallerAfterCreateTablesComplete()\n#14 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/SQLStore/SQLStore.php(456): SMW\SQLStore\Installer->install()\n#15 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Store.php(490): SMW\SQLStore\SQLStore->setup()\n#16 /var/www/extdata/html/bluespice/w/includes/installer/DatabaseUpdater.php(547): SMW\Store::setupStore()\n#17 /var/www/extdata/html/bluespice/w/includes/installer/DatabaseUpdater.php(515): DatabaseUpdater->runUpdates()\n#18 /var/www/extdata/html/bluespice/w/maintenance/update.php(209): DatabaseUpdater->doUpdates()\n#19 /var/www/extdata/html/bluespice/w/maintenance/includes/MaintenanceRunner.php(309): UpdateMediaWiki->execute()\n#20 /var/www/extdata/html/bluespice/w/maintenance/doMaintenance.php(85): MediaWiki\Maintenance\MaintenanceRunner->run()\n#21 /var/www/extdata/html/bluespice/w/maintenance/update.php(319): require_once(‘…’)\n#22 {main} at /var/www/extdata/html/bluespice/w/includes/libs/rdbms/database/Database.php:3622)”,“exception_url”:“[no req]”,“reqId”:“bc7a8df58af1e31e9d1f5531”,“caught_by”:“mwe_handler”} {“host”:“srvcsirtappt0006”,“wiki”:“wdbprod”,“mwversion”:“1.39.8”,“reqId”:“bc7a8df58af1e31e9d1f5531”,“cli_argv”:“maintenance/update.php”}

I am on Ubuntu 22 with php 8.0

Can someone help me with this?

regards
Daniel

2

Hi Daniel,
a bit more details on your update steps might help, especially the update package you are using. Here you have an error when working with semantic mediawiki related databases, hence I think there are two directions to try:
1, restart your web server and php services, try to get rid of potential cache issues or stuck transactions;
2, manually run the semantic mediawiki maintenance scripts:

php extensions/SemanticMediaWiki/maintenance/setupStore.php
php extensions/SemanticMediaWiki/maintenance/rebuildData.php -v

then retry php maintenance/update.php. Hope you can get your BlueSpice 4.5.x running soon = )

3

Hi @huaj1ng

Thanks for your steps. On the second step, rebuilding the data I get this error now:

Rebuilding semantic data … … selecting 1 to 1256 IDs … PHP Warning: Undefined array key “implicit” in /var/www/extdata/html/bluespice/w/includes/user/UserGroupManager.php on line 271 [fe7f361bcd8f7be99f0685d2] [no req] TypeError from line 271 of /var/www/extdata/html/bluespice/w/includes/user/UserGroupManager.php: MediaWiki\User\UserGroupManager::getUserImplicitGroups(): Return value must be of type array, null returned Backtrace: #0 /var/www/extdata/html/bluespice/w/includes/user/UserGroupManager.php(303): MediaWiki\User\UserGroupManager->getUserImplicitGroups() #1 /var/www/extdata/html/bluespice/w/includes/user/User.php(2973): MediaWiki\User\UserGroupManager->getUserEffectiveGroups() #2 /var/www/extdata/html/bluespice/w/includes/Permissions/PermissionManager.php(1295): User->getEffectiveGroups() #3 /var/www/extdata/html/bluespice/w/includes/Permissions/PermissionManager.php(1244): MediaWiki\Permissions\PermissionManager->getUserPermissions() #4 /var/www/extdata/html/bluespice/w/includes/Permissions/PermissionManager.php(817): MediaWiki\Permissions\PermissionManager->userHasRight() #5 /var/www/extdata/html/bluespice/w/includes/Permissions/PermissionManager.php(409): MediaWiki\Permissions\PermissionManager->checkQuickPermissions() #6 /var/www/extdata/html/bluespice/w/includes/Permissions/PermissionManager.php(243): MediaWiki\Permissions\PermissionManager->getPermissionErrorsInternal() #7 /var/www/extdata/html/bluespice/w/extensions/BlueSpicePageAssignments/src/Assignment/Group.php(57): MediaWiki\Permissions\PermissionManager->userCan() #8 /var/www/extdata/html/bluespice/w/extensions/BlueSpicePageAssignments/src/TitleTarget.php(99): BlueSpice\PageAssignments\Assignment\Group->getUserIds() #9 /var/www/extdata/html/bluespice/w/extensions/BlueSpicePageAssignments/src/PageAssignmentsPropertyValueProvider.php(102): BlueSpice\PageAssignments\TitleTarget->getAssignedUserIDs() #10 [internal function]: BlueSpice\PageAssignments\PageAssignmentsPropertyValueProvider->addAnnotation() #11 /var/www/extdata/html/bluespice/w/extensions/SemanticExtraSpecialProperties/src/PropertyAnnotators/LocalPropertyAnnotator.php(75): call_user_func_array() #12 /var/www/extdata/html/bluespice/w/extensions/SemanticExtraSpecialProperties/src/PropertyAnnotators/LocalPropertyAnnotator.php(58): SESP\PropertyAnnotators\LocalPropertyAnnotator->callOnLocalDef() #13 /var/www/extdata/html/bluespice/w/extensions/SemanticExtraSpecialProperties/src/ExtraPropertyAnnotator.php(70): SESP\PropertyAnnotators\LocalPropertyAnnotator->addAnnotation() #14 /var/www/extdata/html/bluespice/w/extensions/SemanticExtraSpecialProperties/src/HookRegistry.php(178): SESP\ExtraPropertyAnnotator->addAnnotation() #15 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(329): SESP\HookRegistry->SESP{closure}() #16 /var/www/extdata/html/bluespice/w/includes/HookContainer/HookContainer.php(132): MediaWiki\HookContainer\HookContainer->callLegacyHook() #17 /var/www/extdata/html/bluespice/w/includes/Hooks.php(137): MediaWiki\HookContainer\HookContainer->run() #18 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Store.php(230): Hooks::run() #19 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/DataUpdater.php(418): SMW\Store->updateData() #20 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/DataUpdater.php(297): SMW\DataUpdater->updateData() #21 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/DataUpdater.php(197): SMW\DataUpdater->runUpdate() #22 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/ParserData.php(469): SMW\DataUpdater->doUpdate() #23 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Jobs/UpdateJob.php(303): SMW\ParserData->updateStore() #24 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Jobs/UpdateJob.php(216): SMW\MediaWiki\Jobs\UpdateJob->updateStore() #25 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Jobs/UpdateJob.php(137): SMW\MediaWiki\Jobs\UpdateJob->parse_content() #26 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/MediaWiki/Jobs/UpdateJob.php(94): SMW\MediaWiki\Jobs\UpdateJob->doUpdate() #27 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/SQLStore/Rebuilder/Rebuilder.php(239): SMW\MediaWiki\Jobs\UpdateJob->run() #28 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Maintenance/DataRebuilder.php(466): SMW\SQLStore\Rebuilder\Rebuilder->rebuild() #29 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Maintenance/DataRebuilder.php(383): SMW\Maintenance\DataRebuilder->doUpdateById() #30 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/src/Maintenance/DataRebuilder.php(222): SMW\Maintenance\DataRebuilder->rebuildAll() #31 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/maintenance/rebuildData.php(198): SMW\Maintenance\DataRebuilder->rebuild() #32 /var/www/extdata/html/bluespice/w/maintenance/doMaintenance.php(107): SMW\Maintenance\rebuildData->execute() #33 /var/www/extdata/html/bluespice/w/extensions/SemanticMediaWiki/maintenance/rebuildData.php(294): require_once(string) #34 {main}

seemes to be any user or permission problem. Any ideas?

4

Hello Daniel,

I would like to confirm whether line 316, 358, 403 of the script /var/www/extdata/html/bluespice/w/includes/user/UserGroupManager.php ends with ?? [];, for example line 316 should be

return $this->userGroupCache[$userKey][self::CACHE_IMPLICIT] ?? [];

The error in your recent feedback MediaWiki\User\UserGroupManager::getUserImplicitGroups(): Return value must be of type array, null returned
is a known one, which should be fixed by the bluespice patch /var/www/extdata/html/bluespice/w/_bluespice/patches/includes/user/UserGroupManager.php.diff

If you find that your code is not yet patched, please run script /var/www/extdata/html/bluespice/w/_bluespice/pre-autoload-dump.sh to apply the patches.

Please let me know if this helps to make rebuildData.php work = )

5

Hi @huaj1ng

thanks, I did these pre-autoload patches but I still get the same error on the rebuild script and also on the Update script.

another idea? Or can I give you more infos?

and yes, the lines 316, 358 and 403 are correct

6

I found that the function “isLoggedIn” is deprecated since MediaWiki 1.35.1.
Am I doing something wrong during update? I copied the Update files into the existing bluespice folder like in the docu.

7

Hi @danieljonas

please excuse my late reply. According to your error message, the “return” line of method getUserImplicitGroups() happens on line 271 of your current version of /var/www/extdata/html/bluespice/w/includes/user/UserGroupManager.php.

Comparing the line number of this line in different BlueSpice versions, I found out that you are using the UserGroupManager.php from BlueSpice version 4.2.4, rather than from any higher version. Then it is very likely that the files in your includes/ directory are not fully upgraded.

Please backup your currently running 4.2.4 code base and database, then follow Setup:Installation Guide/Patch Update - BlueSpice Wiki to upgrade the code base and re-apply your settings and configurations.

I would suggest that you upgrade to 4.4.3 first, because from 4.4 BlueSpice dropped support for Elasticsearch and switched to Opensearch instead (and you will need to install Opensearch of course). Finishing that step, you can continue upgrade to the latest 4.5.4 (at the time of this message).

The released code packages come with patches already, where in the includes/user directory you can see the original UserGroupManager.php.orig before patch as well as the UserGroupManager.php after patch.

By the way, GitHub - hallowelt/bluespice-deploy: Easy setup and deployment of BlueSpice MediaWiki would be an alternative way of using BlueSpice. Running upon a set of docker containers, this approach needs less efforts of manually setting up the environment.