[StarCluster] "connection closed" when running "starcluster ssmaster"

Fri Jan 17 10:56:55 EST 2014

Did you overwrite your SSH private key
(/home/rsignell/.ssh/mykey2.rsa) with a new one?

Also, can you run the SSH client directly from the command line with
verbose (-v) on and see if that gives you anything?

Example:

% ssh -v -i /home/rsignell/.ssh/mykey2.rsa
root at ec2-54-196-2-68.compute-1.amazonaws.com

Rayson

==================================================
Open Grid Scheduler - The Official Open Source Grid Engine
http://gridscheduler.sourceforge.net/
http://gridscheduler.sourceforge.net/GridEngine/GridEngineCloud.html

On Fri, Jan 17, 2014 at 8:03 AM, Signell, Richard <rsignell at usgs.gov> wrote:
> Rayson,
>
> I tried ssh'ing into node001 as you suggested, but the process just
> seems to hang.  I waited 5 minutes, tried to ctrl-c, ctrl-z, nothing
> worked.   Finally killed terminal.
>
> What should I try next?
>
> rsignell at gam:~$ starcluster -d sshnode rps_cluster node001
> StarCluster - (http://star.mit.edu/cluster) (v. 0.94.3)
> Software Tools for Academics and Researchers (STAR)
> Please submit bug reports to starcluster at mit.edu
>
> 2014-01-17 07:59:34,900 config.py:567 - DEBUG - Loading config
> 2014-01-17 07:59:34,900 config.py:138 - DEBUG - Loading file:
> /home/rsignell/.starcluster/config
> ...
>
> 2014-01-17 07:59:34,935 awsutils.py:74 - DEBUG - creating self._conn
> w/ connection_authenticator kwargs = {'proxy_user': None,
> 'proxy_pass': None, 'proxy_port': None, 'proxy': None, 'is_secure':
> True, 'path': '/', 'region': None, 'validate_certs': True, 'port':
> None}
> 2014-01-17 07:59:35,797 cluster.py:711 - DEBUG - existing nodes: {}
> 2014-01-17 07:59:35,797 cluster.py:719 - DEBUG - adding node
> i-7a50f654 to self._nodes list
> 2014-01-17 07:59:35,797 cluster.py:719 - DEBUG - adding node
> i-7950f657 to self._nodes list
> 2014-01-17 07:59:35,798 cluster.py:727 - DEBUG - returning self._nodes
> = [<Node: master (i-7950f657)>, <Node: node001 (i-7a50f654)>]
> 2014-01-17 07:59:35,905 cluster.py:711 - DEBUG - existing nodes:
> {u'i-7a50f654': <Node: node001 (i-7a50f654)>, u'i-7950f657': <Node:
> master (i-7950f657)>}
> 2014-01-17 07:59:35,906 cluster.py:714 - DEBUG - updating existing
> node i-7a50f654 in self._nodes
> 2014-01-17 07:59:35,906 cluster.py:714 - DEBUG - updating existing
> node i-7950f657 in self._nodes
> 2014-01-17 07:59:35,906 cluster.py:727 - DEBUG - returning self._nodes
> = [<Node: master (i-7950f657)>, <Node: node001 (i-7a50f654)>]
> 2014-01-17 07:59:36,119 node.py:1039 - DEBUG - Using native OpenSSH client
> 2014-01-17 07:59:36,119 node.py:1050 - DEBUG - ssh_cmd: ssh -i
> /home/rsignell/.ssh/mykey2.rsa
> root at ec2-54-196-2-68.compute-1.amazonaws.com
> [wait, wait.... nothing....]
>
>
> On Thu, Jan 16, 2014 at 5:24 PM, Rayson Ho <raysonlogin at gmail.com> wrote:
>> The SSH daemon is responding (and the EC2 security group is not
>> blocking traffic), which is good.
>>
>> However, logging onto the master was working a few hours ago and not
>> anymore, then try to log onto the Grid Engine execution node by using,
>> for example, "starcluster sshnode rps_cluster node001". If SSHing into
>> the execution node works, then it is likely to be an issue with the
>> StarCluster master instance.
>>
>> Rayson
>>
>> ==================================================
>> Open Grid Scheduler - The Official Open Source Grid Engine
>> http://gridscheduler.sourceforge.net/
>> http://gridscheduler.sourceforge.net/GridEngine/GridEngineCloud.html
>>
>>
>> On Thu, Jan 16, 2014 at 4:55 PM, Signell, Richard <rsignell at usgs.gov> wrote:
>>> I set up a machine this morning and
>>> starcluster sshmaster rps_cluster
>>> was working fine to ssh in.
>>>
>>> But now I'm getting "Connection closed by 54.204.55.67"
>>>
>>> It seem that the cluster is running:
>>>
>>> rsignell at gam:~$ starcluster listclusters
>>> StarCluster - (http://star.mit.edu/cluster) (v. 0.94.3)
>>> Software Tools for Academics and Researchers (STAR)
>>> Please submit bug reports to starcluster at mit.edu
>>>
>>> ---------------------------------------------
>>> rps_cluster (security group: @sc-rps_cluster)
>>> ---------------------------------------------
>>> Launch time: 2014-01-16 08:18:09
>>> Uptime: 0 days, 08:34:07
>>> Zone: us-east-1a
>>> Keypair: mykey2
>>> EBS volumes: N/A
>>> Cluster nodes:
>>>      master running i-7950f657 ec2-54-204-55-67.compute-1.amazonaws.com
>>>     node001 running i-7a50f654 ec2-54-196-2-68.compute-1.amazonaws.com
>>> Total nodes: 2
>>>
>>> And I don't see anything obvious in the verbose debug output:
>>>
>>> rsignell at gam:~$ starcluster -d sshmaster rps_cluster
>>> StarCluster - (http://star.mit.edu/cluster) (v. 0.94.3)
>>> Software Tools for Academics and Researchers (STAR)
>>> Please submit bug reports to starcluster at mit.edu
>>>
>>> 2014-01-16 16:53:13,515 config.py:567 - DEBUG - Loading config
>>> 2014-01-16 16:53:13,515 config.py:138 - DEBUG - Loading file:
>>> /home/rsignell/.starcluster/config
>>> 2014-01-16 16:53:13,517 config.py:322 - DEBUG - include setting not
>>> specified. Defaulting to []
>>> 2014-01-16 16:53:13,518 config.py:322 - DEBUG - web_browser setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,518 config.py:322 - DEBUG - refresh_interval
>>> setting not specified. Defaulting to 30
>>> 2014-01-16 16:53:13,518 config.py:322 - DEBUG - include setting not
>>> specified. Defaulting to []
>>> 2014-01-16 16:53:13,518 config.py:322 - DEBUG - web_browser setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,519 config.py:322 - DEBUG - refresh_interval
>>> setting not specified. Defaulting to 30
>>> 2014-01-16 16:53:13,519 config.py:322 - DEBUG - aws_proxy_pass setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,519 config.py:322 - DEBUG - aws_validate_certs
>>> setting not specified. Defaulting to True
>>> 2014-01-16 16:53:13,520 config.py:322 - DEBUG - aws_ec2_path setting
>>> not specified. Defaulting to /
>>> 2014-01-16 16:53:13,520 config.py:322 - DEBUG - aws_region_name
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,521 config.py:322 - DEBUG - aws_region_host
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,521 config.py:322 - DEBUG - aws_s3_path setting
>>> not specified. Defaulting to /
>>> 2014-01-16 16:53:13,521 config.py:322 - DEBUG - aws_proxy_user setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,521 config.py:322 - DEBUG - aws_is_secure setting
>>> not specified. Defaulting to True
>>> 2014-01-16 16:53:13,522 config.py:322 - DEBUG - aws_s3_host setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,522 config.py:322 - DEBUG - aws_port setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,522 config.py:322 - DEBUG - ec2_private_key
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,522 config.py:322 - DEBUG - ec2_cert setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,523 config.py:322 - DEBUG - aws_proxy setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,523 config.py:322 - DEBUG - aws_proxy_port setting
>>> not specified. Defaulting to None
>>> 2014-01-16 16:53:13,523 config.py:322 - DEBUG - device setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,523 config.py:322 - DEBUG - partition setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,524 config.py:322 - DEBUG - device setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,524 config.py:322 - DEBUG - partition setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,525 config.py:322 - DEBUG - disable_queue setting
>>> not specified. Defaulting to False
>>> 2014-01-16 16:53:13,525 config.py:322 - DEBUG - volumes setting not
>>> specified. Defaulting to []
>>> 2014-01-16 16:53:13,525 config.py:322 - DEBUG - availability_zone
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - spot_bid setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - master_instance_type
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - disable_cloudinit
>>> setting not specified. Defaulting to False
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - force_spot_master
>>> setting not specified. Defaulting to False
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - extends setting not
>>> specified. Defaulting to None
>>> 2014-01-16 16:53:13,526 config.py:322 - DEBUG - master_image_id
>>> setting not specified. Defaulting to None
>>> 2014-01-16 16:53:13,527 config.py:322 - DEBUG - userdata_scripts
>>> setting not specified. Defaulting to []
>>> 2014-01-16 16:53:13,527 config.py:322 - DEBUG - permissions setting
>>> not specified. Defaulting to []
>>> 2014-01-16 16:53:13,529 awsutils.py:74 - DEBUG - creating self._conn
>>> w/ connection_authenticator kwargs = {'proxy_user': None,
>>> 'proxy_pass': None, 'proxy_port': None, 'proxy': None, 'is_secure':
>>> True, 'path': '/', 'region': None, 'validate_certs': True, 'port':
>>> None}
>>> 2014-01-16 16:53:13,872 cluster.py:711 - DEBUG - existing nodes: {}
>>> 2014-01-16 16:53:13,872 cluster.py:719 - DEBUG - adding node
>>> i-7a50f654 to self._nodes list
>>> 2014-01-16 16:53:13,873 cluster.py:719 - DEBUG - adding node
>>> i-7950f657 to self._nodes list
>>> 2014-01-16 16:53:13,873 cluster.py:727 - DEBUG - returning self._nodes
>>> = [<Node: master (i-7950f657)>, <Node: node001 (i-7a50f654)>]
>>> 2014-01-16 16:53:14,063 cluster.py:711 - DEBUG - existing nodes:
>>> {u'i-7a50f654': <Node: node001 (i-7a50f654)>, u'i-7950f657': <Node:
>>> master (i-7950f657)>}
>>> 2014-01-16 16:53:14,064 cluster.py:714 - DEBUG - updating existing
>>> node i-7a50f654 in self._nodes
>>> 2014-01-16 16:53:14,064 cluster.py:714 - DEBUG - updating existing
>>> node i-7950f657 in self._nodes
>>> 2014-01-16 16:53:14,064 cluster.py:727 - DEBUG - returning self._nodes
>>> = [<Node: master (i-7950f657)>, <Node: node001 (i-7a50f654)>]
>>> 2014-01-16 16:53:14,168 node.py:1039 - DEBUG - Using native OpenSSH client
>>> 2014-01-16 16:53:14,169 node.py:1050 - DEBUG - ssh_cmd: ssh -i
>>> /home/rsignell/.ssh/mykey2.rsa
>>> root at ec2-54-204-55-67.compute-1.amazonaws.com
>>> Connection closed by 54.204.55.67
>>>
>>>
>>> I didn't see any "common problems" or "troubleshooting" sections in
>>> the starcluster documentation, and I checked the FAQ and the mailing
>>> list archives, but I probably overlooked something, as this certainly
>>> seems like a newbie question (which I am).
>>>
>>> Thanks,
>>> Rich
>>> --
>>> Dr. Richard P. Signell   (508) 457-2229
>>> USGS, 384 Woods Hole Rd.
>>> Woods Hole, MA 02543-1598
>>> _______________________________________________
>>> StarCluster mailing list
>>> StarCluster at mit.edu
>>> http://mailman.mit.edu/mailman/listinfo/starcluster
>
>
>
> --
> Dr. Richard P. Signell   (508) 457-2229
> USGS, 384 Woods Hole Rd.
> Woods Hole, MA 02543-1598