I'm assuming the pause you saw was at the following line?
connect(11, {sa_family=AF_INET6, sin6_port=htons(48669),
inet_pton(AF_INET6, "::1", &sin6_addr), sin6_flowinfo=0, sin6_scope_id=0},
28) = -1 ETIMEDOUT (Connection timed out)
That looks like a connect attempt to the IPv6 loopback address (?) which
times out, but the corresponding line from the "no-pause" box seems to do
the same without delay. Do you have IPv6 enabled on both boxes, i.e. does
the output from "/sbin/ifconfig -a" look similar?
On Thu, May 22, 2008 at 8:52 AM, Adam Hardy <[EMAIL PROTECTED]>
wrote:
> I think this is the equivalent part of the strace log from another machine
> on the LAN:
>
> socket(PF_INET6, SOCK_STREAM, IPPROTO_IP) = 10
> listen(10, 1) = 0
> getsockname(10, {sa_family=AF_INET6, sin6_port=htons(54792),
> inet_pton(AF_INET6, "::", &sin6_addr), sin6_flowinfo=0, sin6_scope_id=0},
> [28]) = 0
> socket(PF_INET6, SOCK_STREAM, IPPROTO_IP) = 11
> connect(11, {sa_family=AF_INET6, sin6_port=htons(54792),
> inet_pton(AF_INET6, "::1", &sin6_addr), sin6_flowinfo=0, sin6_scope_id=0},
> 28) = 0
> fcntl64(10, F_GETFL) = 0x2 (flags O_RDWR)
> fcntl64(10, F_SETFL, O_RDWR|O_NONBLOCK) = 0
> accept(10, {sa_family=AF_INET6, sin6_port=htons(51175), inet_pton(AF_INET6,
> "::1", &sin6_addr), sin6_flowinfo=0, sin6_scope_id=0}, [28]) = 12
> shutdown(11, 2 /* send and receive */) = 0
>
>
>
> Jim Cox on 22/05/08 13:38, wrote:
>
>> Can you compare that output to a capture from the box where you don't see
>> the pause? I wonder if it's a difference in IPv4/IPv6 configuration
>> between
>> the boxes...
>>
>> On Thu, May 22, 2008 at 8:24 AM, Adam Hardy <[EMAIL PROTECTED]>
>> wrote:
>>
>> Found it! But I think my knowledge of linux system calls and kernel
>>> functions is letting me down now. Presumably that is port 48669, which
>>> should be open - but is it a DNS call? If it is a DNS call, then the DNS
>>> server on the same machine should serve it - piping it out to the net,
>>> presumably. But with my DNS server running, which up to now has worked
>>> fine,
>>> and with the gateway open to allow internet access, tomcat still freezes.
>>>
>>> So I guess it doesn't matter what the DNS call is for, the problem is
>>> that
>>> my DNS server is not serving it? I guess that means its config needs
>>> tweaking to tell it to serve DNS requests on the loopback interface.
>>>
>>>
>>> socket(PF_INET6, SOCK_STREAM, IPPROTO_IP) = 10
>>> listen(10, 1) = 0
>>> getsockname(10, {sa_family=AF_INET6, sin6_port=htons(48669),
>>> inet_pton(AF_INET6, "::", &sin6_addr), sin6_flowinfo=0, sin6_scope_id=0},
>>> [28]) = 0
>>> socket(PF_INET6, SOCK_STREAM, IPPROTO_IP) = 11
>>> connect(11, {sa_family=AF_INET6, sin6_port=htons(48669),
>>> inet_pton(AF_INET6, "::1", &sin6_addr), sin6_flowinfo=0,
>>> sin6_scope_id=0},
>>> 28) = -1 ETIMEDOUT (Connection timed out)
>>> close(10) = 0
>>> close(11) = 0
>>>
>>>
>>>
>>>
>>>
>>> Jim Cox on 22/05/08 11:23, wrote:
>>>
>>> I'd think it's more likely to be timing out while resolving a hostname
>>>> via
>>>> DNS, but starting tomcat via strace should show you exactly where it is
>>>> pausing.
>>>>
>>>> On Thu, May 22, 2008 at 5:08 AM, Adam Hardy <
>>>> [EMAIL PROTECTED]>
>>>> wrote:
>>>>
>>>> I'm still frustrated by this freeze. Looking at this thread dump, I can
>>>>
>>>>> see
>>>>> it must be the "main" thread that's hanging - but how can I work out
>>>>> anything more regarding the problem?
>>>>>
>>>>> I've done all I can think of to open up the machine it's running on -
>>>>> stopping all other unnecessary processes such as the firewall, apache,
>>>>> the
>>>>> DNS server etc.
>>>>>
>>>>> Could tomcat be waiting in vain for a port? As far as I can tell, it
>>>>> should
>>>>> be using 8080 and 8005 - nothing else is set up in server.xml. Yet
>>>>> these
>>>>> ports are free on the machine. Is there a linux tool I can use to check
>>>>> those ports?
>>>>>
>>>>> Thanks
>>>>> Adam
>>>>>
>>>>> -------- Original Message --------
>>>>> Date: Mon, 19 May 2008 23:13:02 +0100
>>>>>
>>>>> 19-May-2008 23:04:32 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>> preRegister
>>>>> FINE: preRegister [EMAIL PROTECTED]
>>>>> Catalina:type=Connector,port=8080
>>>>> Full thread dump Java HotSpot(TM) Client VM (1.5.0_12-b04 mixed mode,
>>>>> sharing):
>>>>>
>>>>> "Low Memory Detector" daemon prio=1 tid=0x0809e1a8 nid=0xe39 runnable
>>>>> [0x00000000..0x00000000]
>>>>>
>>>>> "CompilerThread0" daemon prio=1 tid=0x0809cc40 nid=0xe38 waiting on
>>>>> condition
>>>>> [0x00000000..0xb2176828]
>>>>>
>>>>> "Signal Dispatcher" daemon prio=1 tid=0x0809bd60 nid=0xe37 runnable
>>>>> [0x00000000..0x00000000]
>>>>>
>>>>> "Finalizer" daemon prio=1 tid=0x08094f38 nid=0xe36 in Object.wait()
>>>>> [0xb23a0000..0xb23a1140]
>>>>> at java.lang.Object.wait(Native Method)
>>>>> - waiting on <0x88e609e8> (a java.lang.ref.ReferenceQueue$Lock)
>>>>> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:116)
>>>>> - locked <0x88e609e8> (a java.lang.ref.ReferenceQueue$Lock)
>>>>> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:132)
>>>>> at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:159)
>>>>>
>>>>> "Reference Handler" daemon prio=1 tid=0x08094240 nid=0xe35 in
>>>>> Object.wait()
>>>>> [0xb2421000..0xb24220c0]
>>>>> at java.lang.Object.wait(Native Method)
>>>>> - waiting on <0x88e60910> (a java.lang.ref.Reference$Lock)
>>>>> at java.lang.Object.wait(Object.java:474)
>>>>> at
>>>>> java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116)
>>>>> - locked <0x88e60910> (a java.lang.ref.Reference$Lock)
>>>>>
>>>>> "main" prio=1 tid=0x080557c8 nid=0xe33 runnable
>>>>> [0xbf8d6000..0xbf8d8078]
>>>>> at java.net.PlainSocketImpl.initProto(Native Method)
>>>>> at java.net.PlainSocketImpl.<clinit>(PlainSocketImpl.java:84)
>>>>> at java.net.ServerSocket.setImpl(ServerSocket.java:236)
>>>>> at java.net.ServerSocket.<init>(ServerSocket.java:178)
>>>>> at java.net.ServerSocket.<init>(ServerSocket.java:141)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> org.apache.tomcat.util.net.DefaultServerSocketFactory.createSocket(DefaultServerSocketFactory.java:50)
>>>>> at
>>>>> org.apache.tomcat.util.net.JIoEndpoint.init(JIoEndpoint.java:496)
>>>>> at
>>>>> org.apache.coyote.http11.Http11Protocol.init(Http11Protocol.java:177)
>>>>> at
>>>>> org.apache.catalina.connector.Connector.initialize(Connector.java:1059)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> org.apache.catalina.core.StandardService.initialize(StandardService.java:677)
>>>>> - locked <0x88f6e690> (a
>>>>> [Lorg.apache.catalina.connector.Connector;)
>>>>> at
>>>>>
>>>>>
>>>>> org.apache.catalina.core.StandardServer.initialize(StandardServer.java:792)
>>>>> at org.apache.catalina.startup.Catalina.load(Catalina.java:518)
>>>>> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>>>> at java.lang.reflect.Method.invoke(Method.java:585)
>>>>> at org.apache.catalina.startup.Bootstrap.load(Bootstrap.java:260)
>>>>> at org.apache.catalina.startup.Bootstrap.init(Bootstrap.java:275)
>>>>> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>>>> at java.lang.reflect.Method.invoke(Method.java:585)
>>>>> at
>>>>>
>>>>>
>>>>> org.apache.commons.daemon.support.DaemonLoader.load(DaemonLoader.java:160)
>>>>>
>>>>> "VM Thread" prio=1 tid=0x08092e48 nid=0xe34 runnable
>>>>>
>>>>> "VM Periodic Task Thread" prio=1 tid=0x0809f650 nid=0xe3a waiting on
>>>>> condition
>>>>>
>>>>> Full thread dump Java HotSpot(TM) Client VM (1.5.0_12-b04 mixed mode,
>>>>> sharing):
>>>>>
>>>>> "Low Memory Detector" daemon prio=1 tid=0x0809e1a8 nid=0xe39 runnable
>>>>> [0x00000000..0x00000000]
>>>>>
>>>>> "CompilerThread0" daemon prio=1 tid=0x0809cc40 nid=0xe38 waiting on
>>>>> condition
>>>>> [0x00000000..0xb2176828]
>>>>>
>>>>> "Signal Dispatcher" daemon prio=1 tid=0x0809bd60 nid=0xe37 runnable
>>>>> [0x00000000..0x00000000]
>>>>>
>>>>> "Finalizer" daemon prio=1 tid=0x08094f38 nid=0xe36 in Object.wait()
>>>>> [0xb23a0000..0xb23a1140]
>>>>> at java.lang.Object.wait(Native Method)
>>>>> - waiting on <0x88e609e8> (a java.lang.ref.ReferenceQueue$Lock)
>>>>> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:116)
>>>>> - locked <0x88e609e8> (a java.lang.ref.ReferenceQueue$Lock)
>>>>> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:132)
>>>>> at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:159)
>>>>>
>>>>> "Reference Handler" daemon prio=1 tid=0x08094240 nid=0xe35 in
>>>>> Object.wait()
>>>>> [0xb2421000..0xb24220c0]
>>>>> at java.lang.Object.wait(Native Method)
>>>>> - waiting on <0x88e60910> (a java.lang.ref.Reference$Lock)
>>>>> at java.lang.Object.wait(Object.java:474)
>>>>> at
>>>>> java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116)
>>>>> - locked <0x88e60910> (a java.lang.ref.Reference$Lock)
>>>>>
>>>>> "main" prio=1 tid=0x080557c8 nid=0xe33 runnable
>>>>> [0xbf8d6000..0xbf8d8078]
>>>>> at java.net.PlainSocketImpl.initProto(Native Method)
>>>>> at java.net.PlainSocketImpl.<clinit>(PlainSocketImpl.java:84)
>>>>> at java.net.ServerSocket.setImpl(ServerSocket.java:236)
>>>>> at java.net.ServerSocket.<init>(ServerSocket.java:178)
>>>>> at java.net.ServerSocket.<init>(ServerSocket.java:141)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> org.apache.tomcat.util.net.DefaultServerSocketFactory.createSocket(DefaultServerSocketFactory.java:50)
>>>>> at
>>>>> org.apache.tomcat.util.net.JIoEndpoint.init(JIoEndpoint.java:496)
>>>>> at
>>>>> org.apache.coyote.http11.Http11Protocol.init(Http11Protocol.java:177)
>>>>> at
>>>>> org.apache.catalina.connector.Connector.initialize(Connector.java:1059)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> org.apache.catalina.core.StandardService.initialize(StandardService.java:677)
>>>>> - locked <0x88f6e690> (a
>>>>> [Lorg.apache.catalina.connector.Connector;)
>>>>> at
>>>>>
>>>>>
>>>>> org.apache.catalina.core.StandardServer.initialize(StandardServer.java:792)
>>>>> at org.apache.catalina.startup.Catalina.load(Catalina.java:518)
>>>>> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>>>> at java.lang.reflect.Method.invoke(Method.java:585)
>>>>> at org.apache.catalina.startup.Bootstrap.load(Bootstrap.java:260)
>>>>> at org.apache.catalina.startup.Bootstrap.init(Bootstrap.java:275)
>>>>> at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
>>>>> at
>>>>>
>>>>>
>>>>>
>>>>> sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
>>>>> at java.lang.reflect.Method.invoke(Method.java:585)
>>>>> at
>>>>>
>>>>>
>>>>> org.apache.commons.daemon.support.DaemonLoader.load(DaemonLoader.java:160)
>>>>>
>>>>> "VM Thread" prio=1 tid=0x08092e48 nid=0xe34 runnable
>>>>>
>>>>> "VM Periodic Task Thread" prio=1 tid=0x0809f650 nid=0xe3a waiting on
>>>>> condition
>>>>>
>>>>>
>>>>>
>>>>> Filip Hanik - Dev Lists on 19/05/08 22:17, wrote:
>>>>>
>>>>> just do two thread dumps during the freeze
>>>>>
>>>>>> kill -3 <tomcat process id>
>>>>>> sleep 5
>>>>>> kill -3 <tomcat process id>
>>>>>>
>>>>>> the thread dump will identify where it is hanging, and it gets output
>>>>>> to
>>>>>> std.out, by default to catalina.out
>>>>>>
>>>>>> Filip
>>>>>>
>>>>>> Adam Hardy wrote:
>>>>>>
>>>>>> I've been trying to solve this problem for a couple of hours now and
>>>>>> I
>>>>>>
>>>>>>> can't see any solution on google or in the archives.
>>>>>>>
>>>>>>> I have tomcat 6.0.13 and java 1.5.0_12 running on debian linux 2.6,
>>>>>>> my
>>>>>>> own installation, not the debian packages.
>>>>>>>
>>>>>>> I stripped the tomcat config down to the bare minimum, no webapps,
>>>>>>> and
>>>>>>> just the one connector configured:
>>>>>>>
>>>>>>> <Connector port="8080" protocol="HTTP/1.1"
>>>>>>> connectionTimeout="20000"
>>>>>>> redirectPort="8443" />
>>>>>>>
>>>>>>> It takes about 3 mins to start, as you can see from the logging below
>>>>>>> at
>>>>>>> the point where BaseModelMBean tries to preregister.
>>>>>>>
>>>>>>> The config works fine on my linux workstation, but not on this
>>>>>>> machine.
>>>>>>> The machine is a gateway and DNS server also running Apache on port
>>>>>>> 80,
>>>>>>> but
>>>>>>> even with the firewall and the servers down, I can't get around this
>>>>>>> problem.
>>>>>>>
>>>>>>> Can anybody help?
>>>>>>>
>>>>>>>
>>>>>>> FINE: preRegister
>>>>>>> [EMAIL PROTECTED]
>>>>>>> :type=StringCache
>>>>>>> 19-May-2008 17:22:58 org.apache.tomcat.util.modeler.Registry
>>>>>>> registerComponent
>>>>>>> FINE: Managed= Catalina:type=Service,serviceName=Catalina
>>>>>>> 19-May-2008 17:22:58 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>>>> preRegister
>>>>>>> FINE: preRegister StandardService[Catalina]
>>>>>>> Catalina:type=Service,serviceName=Catalina
>>>>>>> 19-May-2008 17:22:58 org.apache.tomcat.util.modeler.Registry
>>>>>>> registerComponent
>>>>>>> FINE: Managed= Catalina:type=Connector,port=8080
>>>>>>> 19-May-2008 17:22:58 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>>>> preRegister
>>>>>>> FINE: preRegister
>>>>>>> [EMAIL PROTECTED]
>>>>>>> :type=Connector,port=8080
>>>>>>> 19-May-2008 17:26:07 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>>>> preRegister
>>>>>>> FINE: preRegister BaseModelMbean[null] Catalina:type=MBeanFactory
>>>>>>> 19-May-2008 17:26:07 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>>>> preRegister
>>>>>>> FINE: preRegister null Catalina:type=MBeanFactory
>>>>>>> 19-May-2008 17:26:07 org.apache.tomcat.util.modeler.BaseModelMBean
>>>>>>> preRegister
>>>>>>> FINE: preRegister
>>>>>>> [EMAIL PROTECTED]
>>>>>>> :type=NamingResources,resourcetype=Global
>>>>>>>
>>>>>>
>
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