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MongoDB crashes after maxing out HD
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MKN Web Solutions  
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 More options Aug 15 2012, 1:13 pm
From: MKN Web Solutions <mich...@mknwebsolutions.com>
Date: Wed, 15 Aug 2012 10:13:33 -0700 (PDT)
Local: Wed, Aug 15 2012 1:13 pm
Subject: MongoDB crashes after maxing out HD

I'm sure this is an easy fix by removing something, but I want to come here
before I spend any time going through documentation.

MongoDB running on VBox, I maxed the space and memory (Created a new table)
from the VM causing everything to come to a halt.  I ended up doing a
forced reboot.  I set up a new virtual HD with double the space and moved
all MongoDB files into it.  I set up the new path in the config; still
wouldn't work so I ran a repair, which seemed to pick up all my dbs
correcty, but every time I try to init mongod I get the following:

root@WebOS:/media/mongo/mongodb# mongod --config /etc/mongodb.conf -vvvv
Wed Aug 15 13:08:58 isInRangeTest passed
Wed Aug 15 13:08:58 shardKeyTest passed
Wed Aug 15 13:08:58 shardObjTest passed
Wed Aug 15 13:08:58 BackgroundJob starting: DataFileSync
Wed Aug 15 13:08:58 versionCmpTest passed
Wed Aug 15 13:08:58 versionArrayTest passed
Wed Aug 15 13:08:58 [initandlisten] MongoDB starting : pid=1823 port=27017
dbpath=/media/mongo/mongodb master=1 64-bit host=WebOS
Wed Aug 15 13:08:58 [initandlisten] db version v2.0.7, pdfile version 4.5
Wed Aug 15 13:08:58 [initandlisten] git version:
875033920e8869d284f32119413543fa475227bf
Wed Aug 15 13:08:58 [initandlisten] build info: Linux ip-XXX SMP Fri Nov 20
17:48:28 EST 2009 x86_64 BOOST_LIB_VERSION=1_41
Wed Aug 15 13:08:58 [initandlisten] options: { config: "/etc/mongodb.conf",
dbpath: "/media/mongo/mongodb", master: "true", vvvv: true }
Wed Aug 15 13:08:58 [initandlisten] flushing directory /media/mongo/mongodb
Wed Aug 15 13:08:58 [initandlisten] journal dir=/media/mongo/mongodb/journal
Wed Aug 15 13:08:58 [initandlisten] recover : no journal files present, no
recovery needed
Wed Aug 15 13:08:58 [initandlisten] flushing directory
/media/mongo/mongodb/journal
Wed Aug 15 13:08:58 [initandlisten] flushing directory
/media/mongo/mongodb/journal
Wed Aug 15 13:08:58 [initandlisten] runQuery called local.system.namespaces
{ name: /^local.temp./ }
Wed Aug 15 13:08:58 [initandlisten] Accessing: local for the first time
Wed Aug 15 13:08:58 [initandlisten] query local.system.namespaces query: {
name: /^local.temp./ } reslen:20 0ms
Wed Aug 15 13:08:58 [initandlisten] enter repairDatabases (to check pdfile
version #)
Wed Aug 15 13:08:58 [initandlisten] xx
Wed Aug 15 13:08:58 [initandlisten] Accessing: xx for the first time
Wed Aug 15 13:08:58 [initandlisten] local
Wed Aug 15 13:08:58 [initandlisten] xx
Wed Aug 15 13:08:58 [initandlisten] Accessing: xx for the first time
Wed Aug 15 13:08:58 [initandlisten] it
Wed Aug 15 13:08:58 [initandlisten] Accessing: it for the first time
Wed Aug 15 13:08:58 [initandlisten] xx
Wed Aug 15 13:08:58 [initandlisten] Accessing: xx for the first time
Wed Aug 15 13:08:58 [initandlisten] xx
Wed Aug 15 13:08:58 [initandlisten] Accessing: xx for the first time
Wed Aug 15 13:08:58 [initandlisten] xx
Wed Aug 15 13:08:58 [initandlisten] Accessing: xx for the first time
Wed Aug 15 13:08:58 [initandlisten] done repairDatabases
Wed Aug 15 13:08:58 [initandlisten] master=true
Wed Aug 15 13:08:58 [initandlisten] Accessing: local for the first time
Wed Aug 15 13:08:58 [initandlisten] runQuery called local.oplog.$main {
query: {}, orderby: { $natural: -1 } }
Wed Aug 15 13:08:58 [initandlisten]  local.oplog.$main Assertion failure
isOk() db/pdfile.h 300
0x57a616 0x58515b 0x85ed70 0x8c3e95 0x8a760a 0x8cba8e 0x94d7d0 0x8ce7ea
0x8cec03 0x8cf10c 0x8d9b1e 0x8dd81e 0x8df045 0x8e03f7 0x944455 0x888fd7
0x88dbb9 0x88f4c1 0x5e380d 0x5b70ec
 mongod(_ZN5mongo12sayDbContextEPKc+0x96) [0x57a616]
 mongod(_ZN5mongo8assertedEPKcS1_j+0xfb) [0x58515b]
 mongod(_ZNK5mongo16NamespaceDetails10lastRecordERKNS_7DiskLocE+0x140)
[0x85ed70]
 mongod(_ZN5mongo19ReverseCappedCursorC1EPNS_16NamespaceDetailsERKNS_7DiskLo cE+0xf5)
[0x8c3e95]
 mongod(_ZN5mongo13findTableScanEPKcRKNS_7BSONObjERKNS_7DiskLocE+0x57a)
[0x8a760a]
 mongod(_ZNK5mongo9QueryPlan9newCursorERKNS_7DiskLocEi+0x29e) [0x8cba8e]
 mongod(_ZN5mongo11UserQueryOp5_initEv+0x780) [0x94d7d0]
 mongod(_ZN5mongo7QueryOp4initEv+0x11a) [0x8ce7ea]
 mongod(_ZN5mongo12QueryPlanSet6Runner6initOpERNS_7QueryOpE+0x23) [0x8cec03]
 mongod(_ZN5mongo12QueryPlanSet6Runner4initEv+0x2ec) [0x8cf10c]
 mongod(_ZN5mongo12QueryPlanSet6Runner22runUntilFirstCompletesEv+0x1e)
[0x8d9b1e]
 mongod(_ZN5mongo12QueryPlanSet5runOpERNS_7QueryOpE+0x11e) [0x8dd81e]
 mongod(_ZN5mongo16MultiPlanScanner9runOpOnceERNS_7QueryOpE+0x525)
[0x8df045]
 mongod(_ZN5mongo16MultiPlanScanner5runOpERNS_7QueryOpE+0x17) [0x8e03f7]
Wed Aug 15 13:08:58 BackgroundJob starting: PeriodicTask::Runner
Wed Aug 15 13:08:58 BackgroundJob starting: ClientCursorMonitor
Wed Aug 15 13:08:58 BackgroundJob starting: snapshot
 mongod(_ZN5mongo8runQueryERNS_7MessageERNS_12QueryMessageERNS_5CurOpES1_+0x fa5)
[0x944455]
 mongod() [0x888fd7]
 mongod(_ZN5mongo16assembleResponseERNS_7MessageERNS_10DbResponseERKNS_11Hos tAndPortE+0x559)
[0x88dbb9]
 mongod(_ZN5mongo14DBDirectClient4callERNS_7MessageES2_bPSs+0x81) [0x88f4c1]
 mongod(_ZN5mongo14DBClientCursor4initEv+0xad) [0x5e380d]
 mongod(_ZN5mongo12DBClientBase5queryERKSsNS_5QueryEiiPKNS_7BSONObjEii+0x3ac )
[0x5b70ec]
Wed Aug 15 13:08:58 [initandlisten] assertion 0 assertion db/pdfile.h:300
ns:local.oplog.$main query:{ query: {}, orderby: { $natural: -1 } }
Wed Aug 15 13:08:58 [initandlisten]  ntoskip:0 ntoreturn:1
Wed Aug 15 13:08:58 [initandlisten] query local.oplog.$main query: { query:
{}, orderby: { $natural: -1 } } ntoreturn:1 exception: assertion
db/pdfile.h:300 reslen:61 3ms
Wed Aug 15 13:08:58 [initandlisten] User Assertion: 13106:nextSafe(): {
$err: "assertion db/pdfile.h:300" }
Wed Aug 15 13:08:58 [initandlisten] exception in initAndListen: 13106
nextSafe(): { $err: "assertion db/pdfile.h:300" }, terminating
Wed Aug 15 13:08:58 dbexit:
Wed Aug 15 13:08:58 [initandlisten] shutdown: going to close listening
sockets...
Wed Aug 15 13:08:58 [initandlisten] shutdown: going to flush diaglog...
Wed Aug 15 13:08:58 [initandlisten] shutdown: going to close sockets...
Wed Aug 15 13:08:58 [initandlisten] shutdown: waiting for fs preallocator...
Wed Aug 15 13:08:58 [initandlisten] shutdown: lock for final commit...
Wed Aug 15 13:08:58 [initandlisten] shutdown: final commit...
Wed Aug 15 13:08:58 [initandlisten] shutdown: closing all files...
Wed Aug 15 13:08:58 [initandlisten] closeAllFiles() finished
Wed Aug 15 13:08:58 [initandlisten] journalCleanup...
Wed Aug 15 13:08:58 [initandlisten] removeJournalFiles
Wed Aug 15 13:08:58 [initandlisten] flushing directory
/media/mongo/mongodb/journal
Wed Aug 15 13:08:58 [initandlisten] removeJournalFiles end
Wed Aug 15 13:08:58 [initandlisten] shutdown: removing fs lock...
Wed Aug 15 13:08:58 dbexit: really exiting now


 
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MKN Web Solutions  
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 More options Aug 15 2012, 1:17 pm
From: MKN Web Solutions <mich...@mknwebsolutions.com>
Date: Wed, 15 Aug 2012 10:17:19 -0700 (PDT)
Local: Wed, Aug 15 2012 1:17 pm
Subject: Re: MongoDB crashes after maxing out HD

You're all too slow! Just kidding of course.. I fixed the issue by just
removing the "master" option.  I'm assuming it cleared the oplog - which I
don't mind at all since this is a dev instance.

Thanks,
Mike


 
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