Neo4j 2.2.2 on Ubuntu 14.04, server fails to start, database readable by neo4j-shell

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Jay Pedersen

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Jun 17, 2015, 4:13:11 PM6/17/15

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Hi,

I installed Neo4j 2.2.2 on an Ubuntu 14.04 server, from

'deb http://debian.neo4j.org/repo stable' as my apt-get repository,

and using apt-get install neo4j.

Ubuntu "uname -a" report:

Linux <machine> 3.13.0-55-generic #92~precise1-Ubuntu SMP Sun Jun 14 18:32:23 UTC 2015 x86_64 x86_64 x86_64 GNU/Linux

THE GOOD:

I am able to use neo4j-shell to build a neo4j database,

by giving it a script of CYPHER commands to execute

which creates a database.

I can then use neo4j-shell to process that database and

use the Cypher MATCH command to count nodes

(there are approximately 1.5 million nodes).

I have modified the /etc/neo4j/neo4j-server.properties

to set the database location.

THE BAD:

When I try to start the neo4j-service, it fails to start ==>

"""

sudo service neo4j-service start

[sudo] password for <me>

Starting Neo4j Server...WARNING: not changing user

process [18836]... waiting for server to be ready.... Failed to start within 120 seconds.

Neo4j Server may have failed to start, please check the logs.

"""

THE LOG FILES:

The console.log looks like this:

2015-06-17 18:35:30.017+0000 INFO [API] Setting startup timeout to: 120000ms based on 120000

2015-06-17 18:35:31.143+0000 INFO [API] Successfully shutdown Neo4j Server.

the neo4j.0.0 log looks like:

Jun 17, 2015 12:21:54 PM com.sun.jersey.server.impl.application.WebApplicationImpl _initiate

INFO: Initiating Jersey application, version 'Jersey: 1.18.1 02/19/2014 03:28 AM'

My server config non-commented lines:

org.neo4j.server.database.location=/sno/neo/intl_20150131

org.neo4j.server.db.tuning.properties=conf/neo4j.properties

org.neo4j.server.webserver.address=0.0.0.0

org.neo4j.server.webserver.port=7474

org.neo4j.server.webserver.https.enabled=true

org.neo4j.server.webserver.https.port=7473

org.neo4j.server.webserver.https.cert.location=conf/ssl/snakeoil.cert

org.neo4j.server.webserver.https.key.location=conf/ssl/snakeoil.key

org.neo4j.server.webserver.https.keystore.location=data/keystore

org.neo4j.server.http.log.enabled=false

org.neo4j.server.http.log.config=conf/neo4j-http-logging.xml

org.neo4j.server.webadmin.rrdb.location=data/rrd

The messages.log in the database directory appears a lot more interesting. It is relatively large

and I append and example below (same behavior appears to repeat each restart attempt):

Any clue as to what might be going on or how to debug it? Thanks!

-Jay Pedersen

messages.log example (long):

2015-06-17 18:14:50.889+0000 INFO [org.neo4j]: No locking implementation specified, defaulting to 'community'

2015-06-17 18:14:51.065+0000 INFO [org.neo4j]: --- INITIALIZED diagnostics START ---

2015-06-17 18:14:51.067+0000 INFO [org.neo4j]: Neo4j Kernel properties:

read_only=false

store_dir=/sno/neo/intl_20150131/

ephemeral=false

2015-06-17 18:14:51.075+0000 INFO [org.neo4j]: Diagnostics providers:

org.neo4j.kernel.configuration.Config

org.neo4j.kernel.info.DiagnosticsManager

SYSTEM_MEMORY

JAVA_MEMORY

OPERATING_SYSTEM

JAVA_VIRTUAL_MACHINE

CLASSPATH

LIBRARY_PATH

SYSTEM_PROPERTIES

LINUX_SCHEDULERS

NETWORK

2015-06-17 18:14:51.076+0000 INFO [org.neo4j]: System memory information:

Total Physical memory: 31.42 GB

Free Physical memory: 23.02 GB

Committed virtual memory: 9.29 GB

Total swap space: 3.81 GB

Free swap space: 3.81 GB

2015-06-17 18:14:51.084+0000 INFO [org.neo4j]: JVM memory information:

Free memory: 296.42 MB

Total memory: 482.00 MB

Max memory: 6.98 GB

Garbage Collector: PS Scavenge: [PS Eden Space, PS Survivor Space]

Garbage Collector: PS MarkSweep: [PS Eden Space, PS Survivor Space, PS Old Gen, PS Perm Gen]

Memory Pool: Code Cache (Non-heap memory): committed=2.44 MB, used=592.69 kB, max=48.00 MB, threshold=0.00 B

Memory Pool: PS Eden Space (Heap memory): committed=126.00 MB, used=70.03 MB, max=2.58 GB, threshold=?

Memory Pool: PS Survivor Space (Heap memory): committed=21.00 MB, used=20.98 MB, max=21.00 MB, threshold=?

Memory Pool: PS Old Gen (Heap memory): committed=335.00 MB, used=94.57 MB, max=5.24 GB, threshold=0.00 B

Memory Pool: PS Perm Gen (Non-heap memory): committed=21.00 MB, used=7.46 MB, max=166.00 MB, threshold=0.00 B

2015-06-17 18:14:51.092+0000 INFO [org.neo4j]: Operating system information:

Operating System: Linux; version: 3.13.0-55-generic; arch: amd64; cpus: 4

Max number of file descriptors: 40000

Number of open file descriptors: 38

Process id: 18509@wcampbel-02

Byte order: LITTLE_ENDIAN

Local timezone: America/Chicago

2015-06-17 18:14:51.104+0000 INFO [org.neo4j]: JVM information:

VM Name: OpenJDK 64-Bit Server VM

VM Vendor: Oracle Corporation

VM Version: 24.79-b02

JIT compiler: HotSpot 64-Bit Tiered Compilers

VM Arguments: [-Dapp.name=neo4j-shell, -Dapp.pid=18509, -Dapp.repo=/var/lib/neo4j/lib, -Dbasedir=/var/lib/neo4j, -Dfile.encoding=UTF-8]

2015-06-17 18:14:51.106+0000 INFO [org.neo4j]: Java classpath:

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/libatk-wrapper.so

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-io-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-graph-matching-2.2.2.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/jce.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/dnsns.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-import-tool-2.2.2.jar

[classpath + loader.0] file:/d01/Snomed_G_Code/Build_SNOMED_G/

[classpath + loader.0] file:/usr/share/neo4j/lib/server-api-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-graph-algo-2.2.2.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/charsets.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/parboiled-core-1.1.7.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-primitive-collections-2.2.2.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/jsse.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-cypher-2.2.2.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/sunrsasign.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-lucene-index-2.2.2.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/rhino.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/zipfs.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-shell-2.2.2.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/sunpkcs11.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-cypher-compiler-2.2-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-udc-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-cypher-compiler-1.9-2.0.4.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-jmx-2.2.2.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/java-atk-wrapper.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-kernel-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-cypher-compiler-2.1-2.1.8.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/classes

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/jfr.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/parboiled-scala_2.10-1.1.7.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-consistency-check-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/scala-library-2.10.5.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/rt.jar

[bootstrap] /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/resources.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/org.apache.servicemix.bundles.jline-0.9.94_1.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/opencsv-2.3.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-csv-2.2.2.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/concurrentlinkedhashmap-lru-1.4.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/icedtea-sound.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-cypher-compiler-2.0-2.0.4.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/lucene-core-3.6.2.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/sunjce_provider.jar

[classpath + loader.0] file:/usr/share/neo4j/lib/neo4j-unsafe-2.2.2.jar

[loader.1] file:/usr/lib/jvm/java-7-openjdk-amd64/jre/lib/ext/localedata.jar

2015-06-17 18:14:51.111+0000 INFO [org.neo4j]: Library path:

/usr/java/packages/lib/amd64

/usr/lib/x86_64-linux-gnu/jni

/lib/x86_64-linux-gnu

/usr/lib/x86_64-linux-gnu

/usr/lib/jni

/lib

/usr/lib

2015-06-17 18:14:51.111+0000 INFO [org.neo4j]: System.properties:

sun.boot.library.path = /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/amd64

path.separator = :

file.encoding.pkg = sun.io

user.country = US

sun.java.launcher = SUN_STANDARD

sun.os.patch.level = unknown

user.dir = /d01/Snomed_G_Code/Build_SNOMED_G

basedir = /var/lib/neo4j

app.name = neo4j-shell

sun.jnu.encoding = UTF-8

app.repo = /var/lib/neo4j/lib

sun.management.compiler = HotSpot 64-Bit Tiered Compilers

user.home = /home/jpedersen

user.timezone = America/Chicago

file.encoding = UTF-8

user.name = jpedersen

sun.java.command = org.neo4j.shell.StartClient -path /sno/neo/intl_20150131/

sun.arch.data.model = 64

user.language = en

awt.toolkit = sun.awt.X11.XToolkit

file.separator = /

sun.io.unicode.encoding = UnicodeLittle

sun.cpu.endian = little

app.pid = 18509

sun.cpu.isalist =

2015-06-17 18:14:51.113+0000 INFO [org.neo4j]: Linux scheduler information:

noop [deadline] cfq

none

2015-06-17 18:14:51.120+0000 INFO [org.neo4j]: Network information:

Interface eth0:

address: fe80:0:0:0:20c:29ff:fedb:2ec0%2

address: 137.197.247.163

Interface lo:

address: 0:0:0:0:0:0:0:1%1

address: 127.0.0.1

2015-06-17 18:14:51.122+0000 INFO [org.neo4j]: --- INITIALIZED diagnostics END ---

2015-06-17 18:14:51.758+0000 INFO [org.neo4j]: IndexingService.init: index 1 on :label[0](property[0]) is ONLINE

2015-06-17 18:14:51.832+0000 INFO [org.neo4j]: IndexingService.init: index 3 on :label[0](property[1]) is ONLINE

2015-06-17 18:14:51.962+0000 INFO [org.neo4j]: IndexingService.init: index 5 on :label[1](property[0]) is ONLINE

2015-06-17 18:14:52.109+0000 INFO [org.neo4j]: IndexingService.init: index 7 on :label[1](property[1]) is ONLINE

2015-06-17 18:14:52.179+0000 INFO [org.neo4j]: IndexingService.init: index 9 on :label[1](property[2]) is ONLINE

2015-06-17 18:14:52.222+0000 INFO [org.neo4j]: IndexingService.init: index 11 on :label[2](property[0]) is ONLINE

2015-06-17 18:14:52.298+0000 INFO [org.neo4j]: IndexingService.init: index 13 on :label[2](property[1]) is ONLINE

2015-06-17 18:14:52.394+0000 INFO [org.neo4j]: IndexingService.init: index 14 on :label[3](property[1]) is ONLINE

2015-06-17 18:14:52.432+0000 INFO [org.neo4j]: Opened logical log [/sno/neo/intl_20150131/neostore.transaction.db.11] version=11, lastTxId=7043 (clean)

2015-06-17 18:14:52.441+0000 INFO [org.neo4j]: IndexingService.start: index 1 on :RelationshipConcept(id) is ONLINE

2015-06-17 18:14:52.442+0000 INFO [org.neo4j]: IndexingService.start: index 3 on :RelationshipConcept(sctid) is ONLINE

2015-06-17 18:14:52.442+0000 INFO [org.neo4j]: IndexingService.start: index 5 on :ObjectConcept(id) is ONLINE

2015-06-17 18:14:52.442+0000 INFO [org.neo4j]: IndexingService.start: index 7 on :ObjectConcept(sctid) is ONLINE

2015-06-17 18:14:52.442+0000 INFO [org.neo4j]: IndexingService.start: index 9 on :ObjectConcept(FSN) is ONLINE

2015-06-17 18:14:52.442+0000 INFO [org.neo4j]: IndexingService.start: index 11 on :Description(id) is ONLINE

2015-06-17 18:14:52.443+0000 INFO [org.neo4j]: IndexingService.start: index 13 on :Description(sctid) is ONLINE

2015-06-17 18:14:52.443+0000 INFO [org.neo4j]: IndexingService.start: index 14 on :RoleGroup(sctid) is ONLINE

2015-06-17 18:14:52.446+0000 INFO [org.neo4j]: Recovering index sampling for index :Description(id)

2015-06-17 18:14:52.451+0000 INFO [org.neo4j]: Sampled index :Description(id) with 0 unique values in sample of avg size 0 taken from index containing 0 entries

2015-06-17 18:14:52.459+0000 INFO [org.neo4j]: Kernel health set to OK

2015-06-17 18:14:52.905+0000 INFO [org.neo4j]: --- STARTED diagnostics for KernelDiagnostics:Versions START ---

2015-06-17 18:14:52.905+0000 INFO [org.neo4j]: Graph Database: org.neo4j.kernel.EmbeddedGraphDatabase StoreId{creationTime=1434560987606, randomId=3179857117467023344, storeVersion=14969031248344582, upgradeTime=1434560987606, upgradeId=1}

2015-06-17 18:14:52.905+0000 INFO [org.neo4j]: Kernel version: Neo4j - Graph Database Kernel (neo4j-kernel), version: 2.2.2

2015-06-17 18:14:52.905+0000 INFO [org.neo4j]: Neo4j component versions:

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Lucene Index (neo4j-lucene-index), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - JMX support (neo4j-jmx), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Graph Matching (neo4j-graph-matching), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Cypher Compiler 2.1 (neo4j-cypher-compiler-2.1), version: 2.1.8; revision: 2.1.8:2.1-maint:687/5c83ce3a5ddf33259593f719153ce71a6fe89fc7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Server API (server-api), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Import Command Line Tool (neo4j-import-tool), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Graph Database Kernel (neo4j-kernel), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Cypher (neo4j-cypher), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Graph Algorithms (neo4j-graph-algo), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Cypher Compiler 2.2 (neo4j-cypher-compiler-2.2), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Cypher Compiler 2.0 (neo4j-cypher-compiler-2.0), version: 2.0.4; revision: 2.0.4:2.0-maint:130/4a7d10bc274a5d26a180bbe9df25100e8a694748

2015-06-17 18:14:52.911+0000 INFO [org.neo4j]: Neo4j - Consistency Checker (neo4j-consistency-check), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.912+0000 INFO [org.neo4j]: Neo4j - Generic shell (neo4j-shell), version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.912+0000 INFO [org.neo4j]: Neo4j - Cypher Compiler 1.9 (neo4j-cypher-compiler-1.9), version: 2.0.4; revision: 2.0.4:2.0-maint:130/4a7d10bc274a5d26a180bbe9df25100e8a694748

2015-06-17 18:14:52.912+0000 INFO [org.neo4j]: neo4j-udc, version: 2.2.2; revision: 2.2.2:2.2:973/0ee8628da67da8c582a299d6aa109768be6886d7

2015-06-17 18:14:52.912+0000 INFO [org.neo4j]: --- STARTED diagnostics for KernelDiagnostics:Versions END ---

2015-06-17 18:14:52.913+0000 INFO [org.neo4j]: --- STARTED diagnostics for NEO_STORE_VERSIONS START ---

2015-06-17 18:14:52.914+0000 INFO [org.neo4j]: Store versions:

Store versions:

NeoStore v0.A.5

SchemaStore v0.A.5

NodeStore v0.A.5

RelationshipStore v0.A.5

RelationshipTypeStore v0.A.5

LabelTokenStore v0.A.5

PropertyStore v0.A.5

PropertyIndexStore v0.A.5

StringPropertyStore v0.A.5

ArrayPropertyStore v0.A.5

RelationshipGroupStore v0.A.5

2015-06-17 18:14:52.914+0000 INFO [org.neo4j]: --- STARTED diagnostics for NEO_STORE_VERSIONS END ---

2015-06-17 18:14:52.914+0000 INFO [org.neo4j]: --- STARTED diagnostics for NEO_STORE_ID_USAGE START ---

2015-06-17 18:14:52.914+0000 INFO [org.neo4j]: Id usage:

Id usage:

SchemaStore: used=15 high=14

NodeStore: used=1575316 high=1575315

RelationshipStore: used=2413730 high=2413729

RelationshipTypeStore: used=61 high=60

LabelTokenStore: used=4 high=3

PropertyStore: used=15088866 high=15088865

PropertyIndexStore: used=23 high=22

StringPropertyStore: used=821720 high=821719

ArrayPropertyStore: used=1 high=0

RelationshipGroupStore: used=17700 high=17699

2015-06-17 18:14:52.915+0000 INFO [org.neo4j]: --- STARTED diagnostics for NEO_STORE_ID_USAGE END ---

2015-06-17 18:14:52.915+0000 INFO [org.neo4j]: --- STARTED diagnostics for KernelDiagnostics:StoreFiles START ---

2015-06-17 18:14:52.915+0000 INFO [org.neo4j]: Disk space on partition (Total / Free / Free %): 203398725632 / 196506501120 / 96

Storage files: (filename : modification date - size)

index:

- Total: 2015-06-17T12:09:47-0500 - 0.00 B

lock: 2015-06-17T13:14:51-0500 - 0.00 B

messages.log: 2015-06-17T13:14:52-0500 - 95.89 kB

neostore: 2015-06-17T13:14:51-0500 - 99.00 B

neostore.counts.db.a: 2015-06-17T12:20:49-0500 - 6.77 kB

neostore.counts.db.b: 2015-06-17T13:12:34-0500 - 6.77 kB

neostore.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.labeltokenstore.db: 2015-06-17T13:14:51-0500 - 20.00 B

neostore.labeltokenstore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.labeltokenstore.db.names: 2015-06-17T13:14:51-0500 - 190.00 B

neostore.labeltokenstore.db.names.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.nodestore.db: 2015-06-17T13:14:51-0500 - 22.54 MB

neostore.nodestore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.nodestore.db.labels: 2015-06-17T13:14:51-0500 - 68.00 B

neostore.nodestore.db.labels.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.propertystore.db: 2015-06-17T13:14:51-0500 - 589.98 MB

neostore.propertystore.db.arrays: 2015-06-17T13:14:51-0500 - 128.00 B

neostore.propertystore.db.arrays.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.propertystore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.propertystore.db.index: 2015-06-17T13:14:51-0500 - 207.00 B

neostore.propertystore.db.index.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.propertystore.db.index.keys: 2015-06-17T13:14:51-0500 - 912.00 B

neostore.propertystore.db.index.keys.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.propertystore.db.strings: 2015-06-17T13:14:51-0500 - 100.31 MB

neostore.propertystore.db.strings.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.relationshipgroupstore.db: 2015-06-17T13:14:51-0500 - 432.13 kB

neostore.relationshipgroupstore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.relationshipstore.db: 2015-06-17T13:14:51-0500 - 78.27 MB

neostore.relationshipstore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.relationshiptypestore.db: 2015-06-17T13:14:51-0500 - 305.00 B

neostore.relationshiptypestore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.relationshiptypestore.db.names: 2015-06-17T13:14:51-0500 - 2.30 kB

neostore.relationshiptypestore.db.names.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.schemastore.db: 2015-06-17T13:14:51-0500 - 960.00 B

neostore.schemastore.db.id: 2015-06-17T13:14:51-0500 - 9.00 B

neostore.transaction.db.0: 2015-06-17T12:11:09-0500 - 250.26 MB

neostore.transaction.db.1: 2015-06-17T12:11:39-0500 - 250.25 MB

neostore.transaction.db.10: 2015-06-17T13:11:47-0500 - 16.00 B

neostore.transaction.db.11: 2015-06-17T13:14:52-0500 - 16.00 B

neostore.transaction.db.2: 2015-06-17T12:12:07-0500 - 250.55 MB

neostore.transaction.db.3: 2015-06-17T12:12:36-0500 - 250.90 MB

neostore.transaction.db.4: 2015-06-17T12:13:49-0500 - 250.07 MB

neostore.transaction.db.5: 2015-06-17T12:15:14-0500 - 250.05 MB

neostore.transaction.db.6: 2015-06-17T12:16:33-0500 - 250.22 MB

neostore.transaction.db.7: 2015-06-17T12:17:42-0500 - 250.12 MB

neostore.transaction.db.8: 2015-06-17T12:18:40-0500 - 203.45 MB

neostore.transaction.db.9: 2015-06-17T12:20:27-0500 - 16.00 B

schema:

index:

lucene:

_2.cfs: 2015-06-17T12:10:58-0500 - 63.87 kB

failure-message: 2015-06-17T12:09:49-0500 - 16.00 kB

segments.gen: 2015-06-17T12:11:09-0500 - 20.00 B

segments_2: 2015-06-17T12:11:09-0500 - 301.00 B

write.lock: 2015-06-17T13:14:51-0500 - 0.00 B

- Total: 2015-06-17T13:14:51-0500 - 80.19 kB

11:

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:09:50-0500 - 20.00 B

segments_1: 2015-06-17T12:09:50-0500 - 46.00 B

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 16.06 kB

13:

_177.cfs: 2015-06-17T12:12:21-0500 - 27.91 MB

_1he.cfs: 2015-06-17T12:12:40-0500 - 8.16 MB

_1jw.cfs: 2015-06-17T12:12:44-0500 - 2.02 MB

_1l7.cfs: 2015-06-17T12:12:47-0500 - 990.10 kB

_1l8.cfs: 2015-06-17T12:12:47-0500 - 18.58 kB

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:13:49-0500 - 20.00 B

segments_6: 2015-06-17T12:13:49-0500 - 1.26 kB

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 39.09 MB

14:

_le.cfs: 2015-06-17T12:15:15-0500 - 7.79 MB

_nm.cfs: 2015-06-17T12:15:16-0500 - 943.49 kB

_ou.cfs: 2015-06-17T12:15:16-0500 - 467.68 kB

_p5.cfs: 2015-06-17T12:15:17-0500 - 122.14 kB

_pe.cfs: 2015-06-17T12:15:17-0500 - 95.91 kB

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:16:33-0500 - 20.00 B

segments_3: 2015-06-17T12:16:33-0500 - 1.29 kB

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 9.40 MB

_2.cfs: 2015-06-17T12:10:58-0500 - 63.87 kB

failure-message: 2015-06-17T12:09:49-0500 - 16.00 kB

segments.gen: 2015-06-17T12:11:09-0500 - 20.00 B

segments_2: 2015-06-17T12:11:09-0500 - 301.00 B

write.lock: 2015-06-17T13:14:51-0500 - 0.00 B

- Total: 2015-06-17T13:14:51-0500 - 80.19 kB

_an.cfs: 2015-06-17T12:10:34-0500 - 8.02 MB

_fx.cfs: 2015-06-17T12:10:53-0500 - 4.04 MB

_h8.cfs: 2015-06-17T12:10:57-0500 - 995.18 kB

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:15:14-0500 - 20.00 B

segments_3: 2015-06-17T12:15:14-0500 - 814.00 B

write.lock: 2015-06-17T13:14:51-0500 - 0.00 B

- Total: 2015-06-17T13:14:51-0500 - 13.04 MB

_an.cfs: 2015-06-17T12:10:34-0500 - 8.02 MB

_fx.cfs: 2015-06-17T12:10:53-0500 - 4.04 MB

_h8.cfs: 2015-06-17T12:10:57-0500 - 995.18 kB

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:15:14-0500 - 20.00 B

segments_3: 2015-06-17T12:15:14-0500 - 814.00 B

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 13.04 MB

_e1.cfs: 2015-06-17T12:10:47-0500 - 16.41 MB

_fp.cfs: 2015-06-17T12:10:52-0500 - 2.17 MB

_gk.cfs: 2015-06-17T12:10:55-0500 - 1.06 MB

_gz.cfs: 2015-06-17T12:10:56-0500 - 543.77 kB

_h8.cfs: 2015-06-17T12:10:58-0500 - 277.86 kB

_h8_1.del: 2015-06-17T12:15:14-0500 - 587.00 B

failure-message: 2015-06-17T12:09:50-0500 - 16.00 kB

segments.gen: 2015-06-17T12:15:14-0500 - 20.00 B

segments_3: 2015-06-17T12:15:14-0500 - 1.29 kB

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 20.46 MB

- Total: 2015-06-17T12:09:50-0500 - 95.20 MB

- Total: 2015-06-17T12:09:49-0500 - 95.20 MB

label:

lucene:

_18m.cfs: 2015-06-17T12:11:50-0500 - 827.88 kB

_18m_2.del: 2015-06-17T12:15:14-0500 - 52.00 B

_1ul.cfs: 2015-06-17T12:12:31-0500 - 410.76 kB

_1ul_1.del: 2015-06-17T12:12:36-0500 - 37.00 B

_28c.cfs: 2015-06-17T12:15:07-0500 - 205.51 kB

_28c_1.del: 2015-06-17T12:15:14-0500 - 37.00 B

_2jb.cfs: 2015-06-17T12:15:12-0500 - 102.74 kB

_2jb_1.del: 2015-06-17T12:15:14-0500 - 37.00 B

_2sa.cfs: 2015-06-17T12:15:17-0500 - 83.95 kB

segments.gen: 2015-06-17T12:16:33-0500 - 20.00 B

segments_7: 2015-06-17T12:16:33-0500 - 1.29 kB

write.lock: 2015-06-17T13:14:52-0500 - 0.00 B

- Total: 2015-06-17T13:14:52-0500 - 1.59 MB

- Total: 2015-06-17T12:09:47-0500 - 1.59 MB

- Total: 2015-06-17T12:09:49-0500 - 96.80 MB

store_lock: 2015-06-17T12:09:47-0500 - 0.00 B

2015-06-17 18:14:52.942+0000 INFO [org.neo4j]: --- STARTED diagnostics for KernelDiagnostics:StoreFiles END ---

2015-06-17 18:14:52.978+0000 INFO [org.neo4j]: Database is now ready

2015-06-17 18:15:08.999+0000 INFO [org.neo4j]: Shutdown started

2015-06-17 18:15:09.000+0000 INFO [org.neo4j]: Database is now unavailable

2015-06-17 18:15:09.010+0000 INFO [org.neo4j]: About to rotate counts store at transaction 7043 to [/sno/neo/intl_20150131/neostore.counts.db.a], from [/sno/neo/intl_20150131/neostore.counts.db.b].

2015-06-17 18:15:09.024+0000 INFO [org.neo4j]: Successfully rotated counts store at transaction 7043 to [/sno/neo/intl_20150131/neostore.counts.db.a], from [/sno/neo/intl_20150131/neostore.counts.db.b].

2015-06-17 18:15:09.071+0000 INFO [org.neo4j]: NeoStore closed

2015-06-17 18:15:09.071+0000 INFO [org.neo4j]: --- STOPPING diagnostics START ---

2015-06-17 18:15:09.071+0000 INFO [org.neo4j]: --- STOPPING diagnostics END ---

Michael Hunger

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Jun 17, 2015, 4:43:40 PM6/17/15

to ne...@googlegroups.com

Is there any exception in messages.log ?

what happens if you start "neo4j console"

You must not have the shell running when you start the server

but when the server is running you can start shell without -path to connect to the running server.

Michael

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Jay Pedersen

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Jun 17, 2015, 6:01:28 PM6/17/15

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Notes:

The neo4j-console has been existed before the server is attempted to be started.

The server is attempted to be started via the following command:

sudo service neo4j-service start

That command finishes in about 5 seconds, saying that the server failed to start ... yet ...

messages.log seems to indicate the server runs for about 17 seconds before

it stops. So, maybe there is something around the 5 second mark in the log that I

haven't figured out that indicates the real problem.

I don't see it though. I just see "Database is now ready" after about 2 seconds,

and then about 6 seconds later "Shutdown started" and no error in-between.

I am looking at messages.log, console.log, and neo4j.0.0.log.

Is there anything else I should be looking at?

Question: I don't know from the "neo4j" command, I know about

neo4j-shell and "sudo service neo4j-service {start/stop/restart}".

To use the neo4j shell -- I use the -path and -command options.

neo4j-shell -path /sno/neo/intl_20150131

I didn't know about, and don't see a "neo4j" command.

-Jay

Jay Pedersen

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Jun 17, 2015, 8:59:28 PM6/17/15

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Notes:

The server comes up fine with the graph.db database that was installed with the neo4j,

it can be accessed from the web browser.

So, it seems to relate to the database that was created using neo4j-shell, at least,

that is my best guess at this point.

-Jay

Jay Pedersen

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Jun 17, 2015, 9:19:54 PM6/17/15

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Notes:

Perhaps it might be a Java memory issue?

Any suggestions on how to configure the application to give it enough memory? I have not done anything special in that regard yet.

The following made me wonder about that:

http://stackoverflow.com/questions/17446653/how-to-start-neo4j-service-from-debian-package

I also think I know where "neo4j" command is now, in $NEO4J_HOME/bin, is my guess, which would

be a sibling directory to the "/lib" directory which should exist and hold all the jar files for neo4j.

I just need to determine where $NEO4J_HOME is. :)

-Jay

Michael Hunger

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Jun 18, 2015, 1:48:43 AM6/18/15

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/var/lib/neo4j/

There is also a data/logs

Can you share all config files?

And check permissions recursively on your new graphdb folder to the neo4j user?

Von meinem iPhone gesendet

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Jay Pedersen

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Jun 19, 2015, 11:27:38 AM6/19/15

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Hi,

I appeared to be able to start the server with the command "sudo neo4j start" after I established

the following in .bashrc:

NEO4J_HOME=/var/lib/neo4j
export NEO4J_HOME
PATH="$PATH:${NEO4J_HOME}/bin"
export PATH

Once this was in place, then the neo4j command was visible, and it appeared to be able to

start the server just fine. Somehow this appears to differ from "sudo service neo4j-service start".

That's how it looks at the moment.

-Jay

Michael Hunger

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Jun 19, 2015, 2:32:49 PM6/19/15

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It should work out of the box I haven't seen any issue so far, I can only imagine that it is a permission issue.

--

Jay Pedersen

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Jul 2, 2015, 3:18:27 PM7/2/15

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What I found, after installation, was that the "neo4j" command did not appear to exist. This is why I was using the "service" command to try to start and stop the server -- and the server would not start.

Bottom line -- I installed the "neo4j" command, and then the "neo4j start" command ... successfully started the server.

How did I install the command?

I added the symbolic link

/usr/local/sbin/neo4j

to point to

/var/lib/neo4j/bin/neo4j

Note: I believe the neo4j-shell command was already in that location, which is why I installed the neo4j link.

It appears to me, perhaps incorrectly, that the installation did not install the neo4j command properly.

I documented the steps that I took to install neo4j on the ubuntu 14.04 box previously in the thread

(ending in sudo apt-get install neo4j, I think, after adding the location of the repository).

I don't believe there were any errors reported, and all said and done, a user would have neo4j-shell

but not "neo4j" as commands.

This was neo4j 2.2.x, I can provide the x if it is of importance (would have to investigate).