[Swift-user] Swift on local resources

Allan Espinosa aespinosa at cs.uchicago.edu
Fri Jun 12 15:53:52 CDT 2009 

2009/6/12 Andriy Fedorov <fedorov at cs.wm.edu>:
> My ~/.ssh/auth.defaults is this:
>
> george.bwh.harvard.edu.type=key
> george.bwh.harvard.edu.username=fedorov
> george.bwh.harvard.edu.key=/home/fedorov/.ssh/identity.pub

is identity.pub your public key?  This entry should refer to your private key.

> george.bwh.harvard.edu.passphrase=****
>
> But what I am saying is that passphrase login is not working even when
> I do plain ssh -- it is asking me to enter the password.

I see. is your public key on the ~/.ssh/authorized_keys file of the remote host?
>
> Here are the error messages I am getting trying to run a simple test:
>
> Swift 0.9 swift-r2860 cog-r2388
>
> RunID: 20090612-1643-tlksdhh5
> Progress:
> Progress:  Initializing site shared directory:1
> Progress:  Initializing site shared directory:1
> Progress:  Initializing site shared directory:1
> Execution failed:
>        Could not initialize shared directory on spl_george
> Caused by:
>        org.globus.cog.abstraction.impl.file.FileResourceException:
> Error while communicating with the SSH server on
> george.bwh.harvard.edu:22
> Caused by:
>        java.lang.NullPointerException
> Caused by:
>        java.lang.NullPointerException
>        at java.lang.StringBuffer.<init>(StringBuffer.java:104)
>        at com.sshtools.j2ssh.openssh.PEMReader.read(PEMReader.java:117)
>        at com.sshtools.j2ssh.openssh.PEMReader.<init>(PEMReader.java:61)
>        at com.sshtools.j2ssh.openssh.OpenSSHPrivateKeyFormat.isFormatted(OpenSSHPrivateKeyFormat.java:205)
>        at com.sshtools.j2ssh.transport.publickey.SshPrivateKeyFile.parse(SshPrivateKeyFile.java:132)
>        at com.sshtools.j2ssh.transport.publickey.SshPrivateKeyFile.parse(SshPrivateKeyFile.java:171)
>        at org.globus.cog.abstraction.impl.ssh.Ssh.connect(Ssh.java:254)
>        at org.globus.cog.abstraction.impl.ssh.SSHConnectionBundle$Connection.ensureConnected(SSHConnectionBundle.java:234)
>        at org.globus.cog.abstraction.impl.ssh.SSHConnectionBundle.allocateChannel(SSHConnectionBundle.java:76)
>        at org.globus.cog.abstraction.impl.ssh.SSHChannelManager.getChannel(SSHChannelManager.java:71)
>        at org.globus.cog.abstraction.impl.ssh.file.FileResourceImpl.start(FileResourceImpl.java:81)
>        at org.globus.cog.abstraction.impl.file.FileResourceCache.getResource(FileResourceCache.java:98)
>        at org.globus.cog.abstraction.impl.file.CachingDelegatedFileOperationHandler.getResource(CachingDelegatedFileOperationHandler.java:75)
>        at org.globus.cog.abstraction.impl.file.CachingDelegatedFileOperationHandler.submit(CachingDelegatedFileOperationHandler.java:40)
>        at org.globus.cog.abstraction.impl.common.task.CachingFileOperationTaskHandler.submit(CachingFileOperationTaskHandler.java:28)
>        at org.globus.cog.karajan.scheduler.submitQueue.NonBlockingSubmit.run(NonBlockingSubmit.java:86)
>        at edu.emory.mathcs.backport.java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:431)
>        at edu.emory.mathcs.backport.java.util.concurrent.FutureTask.run(FutureTask.java:166)
>        at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:643)
>        at edu.emory.mathcs.backport.java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:668)
>        at java.lang.Thread.run(Thread.java:595)
>
>
> On Fri, Jun 12, 2009 at 4:17 PM, Andriy Fedorov<fedorov at cs.wm.edu> wrote:
>> Allan,
>>
>> Thank you for the example.
>>
>> I have exactly same setup, but it doesn't work for me. I suspect the
>> reason is that I am unable to set up my environment to work with
>> passphrase. I can only log in with password. I wonder if there is any
>> workaround...
>>
>> AF
>>
>>
>>
>> On Fri, Jun 12, 2009 at 4:04 PM, Allan
>> Espinosa<aespinosa at cs.uchicago.edu> wrote:
>>> Hi Andriy and Mike,
>>>
>>> here is my example ~/.ssh/auth.defaults for executing jobs on
>>> tp-login1.ci.uchicago.edu:
>>>
>>> [aespinosa at tp-login2 ~]$ cat .ssh/auth.defaults
>>> tp-login1.ci.uchicago.edu.type=key
>>> tp-login1.ci.uchicago.edu.username=aespinosa
>>> tp-login1.ci.uchicago.edu.key=/home/aespinosa/.ssh/id_dsa
>>> tp-login1.ci.uchicago.edu.passphrase=XXXXXXXX
>>>
>>> We have used falkon and coasters before for multi-core configurations.
>>>  but for a single multi-core machine, i believe you can get away with
>>> having multiple entries of the same host in the sites.xml file using
>>> the ssh-provider.
>>>
>>> ie:
>>>
>>> <config>
>>> <pool handle="CORE0">
>>>   <execution provider="ssh"... />
>>>   ...
>>> </pool>
>>> <pool handle="CORE1">
>>>   ...
>>> </pool>
>>> </config>
>>>
>>> 2009/6/12 Michael Wilde <wilde at mcs.anl.gov>:
>>>> Ah, very cool. Im eager to get more user experience feedback on multicore
>>>> use.
>>>>
>>>> So I will try to hunt down my examples of .ssh configs.
>>>>
>>>> Also, Allan Espinosa used this recently. Allan, can you post details and
>>>> examples?
>>>>
>>>> Thanks!
>>>>
>>>> Mike
>>>>
>>>> On 6/12/09 2:06 PM, Andriy Fedorov wrote:
>>>>>
>>>>> Michael,
>>>>>
>>>>> Thank you for the advice, I will look into this. This is very helpful.
>>>>> I had an impression Lava is not included in the list of schedulers
>>>>> supported out of the box, but wanted to check.
>>>>>
>>>>> Just a clarification -- I need to access two different types of local
>>>>> resources. Cluster (via Lava or Condor) is one, but for the multicore
>>>>> nodes we have on the network, which are not part of cluster, the only
>>>>> option is to use ssh.
>>>>>
>>>>> AF
>>>>>
>>>>>
>>>>>
>>>>> On Fri, Jun 12, 2009 at 2:52 PM, Michael Wilde<wilde at mcs.anl.gov> wrote:
>>>>>>
>>>>>> Andriy,
>>>>>>
>>>>>> Ben or Mihael may have better ideas, but I offer my thoughts below.
>>>>>>
>>>>>> On 6/12/09 1:18 PM, Andriy Fedorov wrote:
>>>>>>>
>>>>>>> Hi,
>>>>>>>
>>>>>>> I am trying to set up Swift with the local cluster and non-cluster
>>>>>>> resources in our lab. Here some configuration details.
>>>>>>>
>>>>>>> Due to technical problems, passphrase login is not possible for the
>>>>>>> nodes on local network, and I need to enter password each time.
>>>>>>>
>>>>>>> For the cluster, I was able to set up passphrase login for the head
>>>>>>> node. The cluster is running Lava and Condor schedulers at the same
>>>>>>> time, but Lava should be used if possible.
>>>>>>>
>>>>>>> Two questions:
>>>>>>>
>>>>>>> (1) is it possible to configure Swift to talk to Lava scheduler?
>>>>>>
>>>>>> Making Swift talk to a new scheduler means writing a new CoG provider (in
>>>>>> Java). You can likely use an existing "data" provider like "local"; you
>>>>>> could model the "execution" provider after the "PBS" provider. How hard
>>>>>> this
>>>>>> is depends on how close Lava is to PBS in nature. (I dont know it). And
>>>>>> the
>>>>>> provider interface you need to code to is not well documented afaik.
>>>>>>
>>>>>> I would try the Condor provider. While that provider is less mature and
>>>>>> tested than others, it should work, and if it doesnt, we should try to
>>>>>> fix
>>>>>> it.
>>>>>>
>>>>>> If possible, make sure a simple condor_submit hello-world works for you
>>>>>> first.
>>>>>>
>>>>>> Run swift on the head/login node; use the "local" data provider.
>>>>>>
>>>>>> Another route is to use Falkon, but that will be harder and its less
>>>>>> supported, so I suggest against this until easier routes are exhausted.
>>>>>>
>>>>>> I dont think that ssh will get you far, as to leverage the cluster I
>>>>>> think
>>>>>> you'd need to describe each worker node with a separate sites.xml entry.
>>>>>> Thats fine in principle, but a bit awkward, and may have scheduling
>>>>>> issues
>>>>>> (ie if ssh hangs or dies when you dont own the node).
>>>>>>
>>>>>> Save ssh as another last resort; I suggest trying Condor first.
>>>>>>
>>>>>> If needed, people who used ssh recently can send you the info below.
>>>>>>
>>>>>> - Mike
>>>>>>
>>>>>>> (2) I am following the instructions on setting up ssh site provider to
>>>>>>> use nodes on the local network.
>>>>>>>  (2.1) do I need to set up auth.defaults even if I have ssh-agent
>>>>>>> running, and can ssh to the remote node without being asked for
>>>>>>> password?
>>>>>>>  (2.2.) can anybody give me more detailed instructions on how to set
>>>>>>> up auth.defaults? I cannot make it work.
>>>>>>
>>>>>>> Thanks
>>>>>>>
>>>>>>> Andriy Fedorov
>>>>>>> _______________________________________________
>>>
>>>
>>>
>>> --
>>> Allan M. Espinosa <http://allan.88-mph.net/blog>
>>> PhD student, Computer Science
>>> University of Chicago <http://people.cs.uchicago.edu/~aespinosa>
>>>
>>
>
>



-- 
Allan M. Espinosa <http://allan.88-mph.net/blog>
PhD student, Computer Science
University of Chicago <http://people.cs.uchicago.edu/~aespinosa>

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