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Type: Bug
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Resolution: Unresolved
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Priority: Major - P3
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None
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Affects Version/s: 6.0.9, 7.0.0
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Component/s: None
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StorEng - Defined Pipeline
I am running mongodb with Docker Compose and the service definition looks like this
db.selfmade.ninja: container_name: "db.selfmade.ninja" image: "mongo:latest" restart: "unless-stopped" ports: - "127.0.0.1:27017:27017" volumes: - "mongodb:/data/db" networks: - backend labels: - "traefik.enable=false"
I updated to MongoDB 7.0 recently and before that I was on 6.0. But I felt this issues were there in 6.0 also.
The server is running good for a while, them this happens 2-3 times every hour. If I restart the server it is good for sometime. But then this error happens and server crashes. Then the container restarts.
What could be the root cause of this error ?
{"t":\{"$date":"2023-09-04T06:22:05.513+00:00"},"s":"I", "c":"NETWORK", "id":22943, "ctx":"listener","msg":"Connection accepted","attr":\{"remote":"10.100.0.13:56080","uuid":{"uuid":{"$uuid":"09c2c7ca-63b9-491b-a006-45c57e8a057d"}},"connectionId":375,"connectionCount":32}} {"t":\{"$date":"2023-09-04T06:22:05.513+00:00"},"s":"I", "c":"NETWORK", "id":51800, "ctx":"conn375","msg":"client metadata","attr":\{"remote":"10.100.0.13:56080","client":"conn375","doc":{"driver":{"name":"mongoc / ext-mongodb:PHP / PHPLIB ","version":"1.24.1 / 1.16.1 / 1.16.0 "},"os":\{"type":"Linux","name":"Ubuntu","version":"22.04","architecture":"x86_64"},"platform":"PHP 8.1.2-1ubuntu2.13 cfg=0x03515620c9 posix=200809 stdc=201710 CC=GCC 11.3.0 CFLAGS=\"\" LDFLAGS=\"\""}}} {"t":\{"$date":"2023-09-04T06:22:05.514+00:00"},"s":"I", "c":"NETWORK", "id":6788700, "ctx":"conn375","msg":"Received first command on ingress connection since session start or auth handshake","attr":\{"elapsedMillis":0}} {"t":\{"$date":"2023-09-04T06:22:05.569+00:00"},"s":"I", "c":"NETWORK", "id":22944, "ctx":"conn374","msg":"Connection ended","attr":\{"remote":"10.100.0.13:56078","uuid":{"uuid":{"$uuid":"c309384d-51fe-4dd5-8ca5-755e40098aaf"}},"connectionId":374,"connectionCount":31}} {"t":\{"$date":"2023-09-04T06:22:05.837+00:00"},"s":"I", "c":"NETWORK", "id":22943, "ctx":"listener","msg":"Connection accepted","attr":\{"remote":"10.100.0.13:56092","uuid":{"uuid":{"$uuid":"ff59fcb5-221e-4b2c-bc6b-47d0b5fcd98e"}},"connectionId":376,"connectionCount":32}} {"t":\{"$date":"2023-09-04T06:22:05.837+00:00"},"s":"I", "c":"NETWORK", "id":51800, "ctx":"conn376","msg":"client metadata","attr":\{"remote":"10.100.0.13:56092","client":"conn376","doc":{"driver":{"name":"mongoc / ext-mongodb:PHP / PHPLIB ","version":"1.24.1 / 1.16.1 / 1.16.0 "},"os":\{"type":"Linux","name":"Ubuntu","version":"22.04","architecture":"x86_64"},"platform":"PHP 8.1.2-1ubuntu2.13 cfg=0x03515620c9 posix=200809 stdc=201710 CC=GCC 11.3.0 CFLAGS=\"\" LDFLAGS=\"\""}}} {"t":\{"$date":"2023-09-04T06:22:05.840+00:00"},"s":"I", "c":"NETWORK", "id":6788700, "ctx":"conn376","msg":"Received first command on ingress connection since session start or auth handshake","attr":\{"elapsedMillis":2}} {"t":\{"$date":"2023-09-04T06:22:05.892+00:00"},"s":"I", "c":"NETWORK", "id":22944, "ctx":"conn376","msg":"Connection ended","attr":\{"remote":"10.100.0.13:56092","uuid":{"uuid":{"$uuid":"ff59fcb5-221e-4b2c-bc6b-47d0b5fcd98e"}},"connectionId":376,"connectionCount":31}} {"t":\{"$date":"2023-09-04T06:22:05.892+00:00"},"s":"I", "c":"NETWORK", "id":22944, "ctx":"conn375","msg":"Connection ended","attr":\{"remote":"10.100.0.13:56080","uuid":{"uuid":{"$uuid":"09c2c7ca-63b9-491b-a006-45c57e8a057d"}},"connectionId":375,"connectionCount":30}} {"t":\{"$date":"2023-09-04T06:22:07.788+00:00"},"s":"I", "c":"COMMAND", "id":51803, "ctx":"conn34","msg":"Slow query","attr":\{"type":"command","ns":"selfmadelabs.$cmd","command":{"update":"labstats","ordered":true,"lsid":{"id":{"$uuid":"fa5453b3-980c-4e17-a8c6-46ae49513c04"}},"$db":"selfmadelabs"},"numYields":1372,"reslen":60,"locks":\{"ParallelBatchWriterMode":{"acquireCount":{"r":5096}},"FeatureCompatibilityVersion":\{"acquireCount":{"w":5096}},"ReplicationStateTransition":\{"acquireCount":{"w":5096}},"Global":\{"acquireCount":{"w":5096}},"Database":\{"acquireCount":{"w":5096}},"Collection":\{"acquireCount":{"w":5096}}},"flowControl":\{"acquireCount":5096},"storage":{},"cpuNanos":3069647525,"remote":"10.100.0.12:59344","protocol":"op_msg","durationMillis":3115}} {"t":\{"$date":"2023-09-04T06:22:10.145+00:00"},"s":"E", "c":"WT", "id":22435, "ctx":"conn27","msg":"WiredTiger error message","attr":\{"error":22,"message":{"ts_sec":1693808530,"ts_usec":145725,"thread":"1:0x7f2df5821640","session_name":"WT_SESSION.get_value","category":"WT_VERB_DEFAULT","category_id":9,"verbose_level":"ERROR","verbose_level_id":-3,"msg":"__wt_txn_context_prepare_check:19:not permitted in a prepared transaction","error_str":"Invalid argument","error_code":22}}} {"t":\{"$date":"2023-09-04T06:22:10.145+00:00"},"s":"F", "c":"ASSERT", "id":23083, "ctx":"conn27","msg":"Invariant failure","attr":\{"expr":"c->get_value(c, &value)","error":"BadValue: 22: Invalid argument","file":"src/mongo/db/storage/wiredtiger/wiredtiger_record_store.cpp","line":1975}} {"t":\{"$date":"2023-09-04T06:22:10.145+00:00"},"s":"F", "c":"ASSERT", "id":23084, "ctx":"conn27","msg":"\n\n***aborting after invariant() failure\n\n"} {"t":\{"$date":"2023-09-04T06:22:10.145+00:00"},"s":"F", "c":"CONTROL", "id":6384300, "ctx":"conn27","msg":"Writing fatal message","attr":\{"message":"\n"}} {"t":\{"$date":"2023-09-04T06:22:10.145+00:00"},"s":"F", "c":"CONTROL", "id":6384300, "ctx":"conn27","msg":"Writing fatal message","attr":\{"message":"Got signal: 6 (Aborted).\n"}} {"t":\{"$date":"2023-09-04T06:22:10.280+00:00"},"s":"I", "c":"CONTROL", "id":31380, "ctx":"conn27","msg":"BACKTRACE","attr":\{"bt":{"backtrace":[{"a":"5633C7E1AFB4","b":"5633C03FE000","o":"7A1CFB4","s":"_ZN5mongo18stack_trace_detail12_GLOBAL__N_117getStackTraceImplERKNS1_7OptionsE.constprop.0","C":"mongo::stack_trace_detail::(anonymous namespace)::getStackTraceImpl(mongo::stack_trace_detail::(anonymous namespace)::Options const&) [clone 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mongo::transport::SessionWorkflow::Impl::_doOneIteration()::{lambda(auto:1)#1}>(mongo::CleanupFuturePolicy<false>, mongo::transport::SessionWorkflow::Impl::_doOneIteration()::\{lambda(auto:1)#1}&&) &&::\{lambda(std::unique_ptr<mongo::transport::SessionWorkflow::Impl::WorkItem, std::default_delete<mongo::transport::SessionWorkflow::Impl::WorkItem> >&&)#1}::operator()(std::unique_ptr<mongo::transport::SessionWorkflow::Impl::WorkItem, std::default_delete<mongo::transport::SessionWorkflow::Impl::WorkItem> >&&) const [clone .isra.0]","s+":"47"},\{"a":"5633C53806E5","b":"5633C03FE000","o":"4F826E5","s":"_ZN5mongo9transport15SessionWorkflow4Impl15_doOneIterationEv","C":"mongo::transport::SessionWorkflow::Impl::_doOneIteration()","s+":"535"},\{"a":"5633C5380FCD","b":"5633C03FE000","o":"4F82FCD","s":"_ZZN5mongo15unique_functionIFvNS_6StatusEEE8makeImplIZNS_9transport15SessionWorkflow4Impl18_scheduleIterationEvEUlS1_E_EEDaOT_EN12SpecificImpl4callEOS1_","C":"mongo::unique_function<void (mongo::Status)>::makeImpl<mongo::transport::SessionWorkflow::Impl::_scheduleIteration()::{lambda(mongo::Status)#1}>(mongo::transport::SessionWorkflow::Impl::_scheduleIteration()::\{lambda(mongo::Status)#1}&&)::SpecificImpl::call(mongo::Status&&)","s+":"5D"},\{"a":"5633C5382E24","b":"5633C03FE000","o":"4F84E24","s":"_ZZN5mongo15unique_functionIFvNS_6StatusEEE8makeImplIZNS_9transport15SessionWorkflow4Impl15_captureContextES3_EUlS1_E_EEDaOT_EN12SpecificImpl4callEOS1_","C":"mongo::unique_function<void (mongo::Status)>::makeImpl<mongo::transport::SessionWorkflow::Impl::_captureContext(mongo::unique_function<void (mongo::Status)>)::{lambda(mongo::Status)#1}>(mongo::transport::SessionWorkflow::Impl::_captureContext(mongo::unique_function<void (mongo::Status)>)::\{lambda(mongo::Status)#1}&&)::SpecificImpl::call(mongo::Status&&)","s+":"94"},\{"a":"5633C74D5C24","b":"5633C03FE000","o":"70D7C24","s":"_ZZN5mongo15unique_functionIFvvEE8makeImplIZNS_9transport26ServiceExecutorSynchronous11SharedState8scheduleENS0_IFvNS_6StatusEEEEEUlvE0_EEDaOT_EN12SpecificImpl4callEv","C":"mongo::unique_function<void ()>::makeImpl<mongo::transport::ServiceExecutorSynchronous::SharedState::schedule(mongo::unique_function<void (mongo::Status)>)::{lambda()#2}>(mongo::transport::ServiceExecutorSynchronous::SharedState::schedule(mongo::unique_function<void (mongo::Status)>)::\{lambda()#2}&&)::SpecificImpl::call()","s+":"C4"},\{"a":"5633C74D8CDD","b":"5633C03FE000","o":"70DACDD","s":"_ZN5mongo9transport12_GLOBAL__N_17runFuncEPv","C":"mongo::transport::(anonymous namespace)::runFunc(void*)","s+":"3DD"},\{"a":"7F2E09AFAB43","b":"7F2E09A66000","o":"94B43","s":"pthread_condattr_setpshared","s+":"513"},\{"a":"7F2E09B8BBB4","b":"7F2E09A66000","o":"125BB4","s":"clone","s+":"44"}],"processInfo":\{"mongodbVersion":"7.0.0","gitVersion":"37d84072b5c5b9fd723db5fa133fb202ad2317f1","compiledModules":[],"uname":{"sysname":"Linux","release":"5.15.0-82-generic","version":"#91-Ubuntu SMP Mon Aug 14 14:14:14 UTC 2023","machine":"x86_64"},"somap":[\{"b":"5633C03FE000","elfType":3,"buildId":"36667979E9E7865B"},\{"b":"7F2E09A66000","path":"/lib/x86_64-linux-gnu/libc.so.6","elfType":3,"buildId":"69389D485A9793DBE873F0EA2C93E02EFAA9AA3D"}]}}},"tags":[]}
What could be the root cause of this error ?
In another cause, I was able to trace back the connection context to a connection opened 20 mins ago.
db.selfmade.ninja | {"t":{"$date":"2023-09-04T07:54:55.867+00:00"},"s":"I", "c":"NETWORK", "id":51800, "ctx":"conn214","msg":"client metadata","attr":{"remote":"172.18.0.1:38568","client":"conn214","doc":{"driver":{"name":"mongoc / ext-mongodb:PHP / PHPLIB ","version":"1.24.1 / 1.16.1 / 1.16.0 "},"os":{"type":"Linux","name":"Ubuntu","version":"22.04","architecture":"x86_64"},"platform":"PHP 8.1.2-1ubuntu2.13 cfg=0x03515620c9 posix=200809 stdc=201710 CC=GCC 11.3.0 CFLAGS=\"\" LDFLAGS=\"\""}}}
the context connection conn214 threw the error after over 20 mins from its first occurrence in log and then after 20 mins, it threw this followed by the stacktrace.
db.selfmade.ninja | {"t":{"$date":"2023-09-04T08:13:20.370+00:00"},"s":"E", "c":"WT", "id":22435, "ctx":"conn214","msg":"WiredTiger error message","attr":{"error":22,"message":{"ts_sec":1693815200,"ts_usec":370599,"thread":"1:0x7f380caf0640","session_name":"WT_SESSION.get_value","category":"WT_VERB_DEFAULT","category_id":9,"verbose_level":"ERROR","verbose_level_id":-3,"msg":"__wt_txn_context_prepare_check:19:not permitted in a prepared transaction","error_str":"Invalid argument","error_code":22}}} db.selfmade.ninja | {"t":{"$date":"2023-09-04T08:13:20.370+00:00"},"s":"F", "c":"ASSERT", "id":23083, "ctx":"conn214","msg":"Invariant failure","attr":{"expr":"c->get_value(c, &value)","error":"BadValue: 22: Invalid argument","file":"src/mongo/db/storage/wiredtiger/wiredtiger_record_store.cpp","line":1975}} db.selfmade.ninja | {"t":{"$date":"2023-09-04T08:13:20.370+00:00"},"s":"F", "c":"ASSERT", "id":23084, "ctx":"conn214","msg":"\n\n***aborting after invariant() failure\n\n"} db.selfmade.ninja | {"t":{"$date":"2023-09-04T08:13:20.370+00:00"},"s":"F", "c":"CONTROL", "id":6384300, "ctx":"conn214","msg":"Writing fatal message","attr":{"message":"\n"}} db.selfmade.ninja | {"t":{"$date":"2023-09-04T08:13:20.370+00:00"},"s":"F", "c":"CONTROL", "id":6384300, "ctx":"conn214","msg":"Writing fatal message","attr":{"message":"Got signal: 6 (Aborted).\n"}}