[Swift-devel] Re: catsn on beagle
Jonathan S Monette
jonmon at utexas.edu
Sat Jun 4 12:38:33 CDT 2011
I added
echo ${OPTIONS}
echo ${COG_OPTS}
echo ${LOCALCLASSPATH}
echo ${EXEC}
echo ${CMDLINE}
to the script. It seems in the $OPTIONS variable this appears.
-Xmx8192M
-Djava.endorsed.dirs=/home/jonmon/Library/Swift/swift-0.92/bin/../lib/endorsed
-DUID=1881 -DGLOBUS_HOSTNAME=login2.beagle.ci.uchicago.edu.(none)
-DCOG_INSTALL_PATH=/home/jonmon/Library/Swift/swift-0.92/bin/..
-Dswift.home=/home/jonmon/Library/Swift/swift-0.92/bin/..
-Djava.security.egd=file:///dev/urandom
There is the line DGLOBUS_HOSTNAME=login2.beagle.ci.uchicago.edu.(none) I
believe that is the parenthesis that is causing this to fail. Now How do I
fix it.
On Sat, Jun 4, 2011 at 12:36 PM, Jonathan S Monette <jonmon at utexas.edu>wrote:
> I may have found the error. I download 0.92 binaries and changed the swift
> command script. I added
>
>
> On Sat, Jun 4, 2011 at 12:26 PM, Jonathan S Monette <jonmon at utexas.edu>wrote:
>
>> Same result. Same error
>>
>>
>> On Sat, Jun 4, 2011 at 12:24 PM, ketan <ketancmaheshwari at gmail.com>wrote:
>>
>>> can you try running the commandline by copying from run.sh and pasting
>>> it at the prompt.
>>>
>>>
>>> On 6/4/11 12:18 PM, Jonathan S Monette wrote:
>>>
>>> I do have that project. I did projects --avail and got back
>>>
>>> Project PI Title
>>>
>>> ------------------------------------------------------------------------------
>>> CI-CCR000013 Michael Wilde The Swift Parallel Scripting System
>>>
>>> Here is my run.sh file. I execute with ./run.sh after I did chmod +x
>>> run.sh
>>>
>>> #!/bin/bash
>>> swift -config cf -tc.file tc -sites.file beagle-coaster.xml catsn.swift
>>> -n=1
>>>
>>> I do have sh and cat in my path. I can execute them. Here is what
>>> which sh and which cat produced.
>>>
>>> sh is /usr/bin/sh
>>> cat is /bin/cat
>>>
>>> On Sat, Jun 4, 2011 at 12:10 PM, ketan <ketancmaheshwari at gmail.com>wrote:
>>>
>>>> Can you try "projects --avail" command on beagle to see if you are
>>>> member of a project.
>>>>
>>>> Else you will need to request membership. You can do this from this
>>>> page:
>>>>
>>>> http://pads.ci.uchicago.edu/access/
>>>>
>>>> In any case, your error does not seem to be because of the above. Looks
>>>> like '(' has sneaked in because of some unexpected typo in commandline ..
>>>> can you doublecheck it.
>>>>
>>>> Also can you make sure that you have all the files: tc,
>>>> beagle-coasters.xml cf in PATH, ie. are you able to access them w/o ./
>>>>
>>>>
>>>> On 6/4/11 12:03 PM, Jonathan S Monette wrote:
>>>>
>>>> I did change the work directory. I however did not change the project
>>>> name. I do not know my project name so I kept the same project that was in
>>>> there. Here is my modified beagle-coasters.xml
>>>>
>>>> <config>
>>>> <pool handle="pbs">
>>>> <execution provider="coaster" jobmanager="local:pbs"/>
>>>> <profile namespace="globus" key="project">CI-CCR000013</profile>
>>>>
>>>> <profile namespace="globus" key="ppn">24:cray:pack</profile>
>>>>
>>>> <profile namespace="globus" key="workersPerNode">24</profile>
>>>> <profile namespace="globus" key="maxTime">1000</profile>
>>>> <profile namespace="globus" key="slots">1</profile>
>>>> <profile namespace="globus" key="nodeGranularity">1</profile>
>>>> <profile namespace="globus" key="maxNodes">1</profile>
>>>>
>>>> <profile namespace="karajan" key="jobThrottle">.63</profile>
>>>> <profile namespace="karajan" key="initialScore">10000</profile>
>>>>
>>>> <filesystem provider="local"/>
>>>> <workdirectory >/lustre/beagle/jonmon/Swift/work</workdirectory>
>>>> </pool>
>>>> </config>
>>>>
>>>>
>>>> On Sat, Jun 4, 2011 at 12:00 PM, Ketan Maheshwari <
>>>> ketancmaheshwari at gmail.com> wrote:
>>>>
>>>>> Jon,
>>>>>
>>>>> Thanks for trying out catsn on Beagle.
>>>>>
>>>>> I just tried it myself but could not reproduce the error you are
>>>>> getting. Have you made the changes that are mentioned in the README:
>>>>> ==
>>>>> Change workdir location in beagle-coaster.xml
>>>>> Change the project entry in the beagle-coaster.xml to your project name
>>>>> ==
>>>>>
>>>>> Ketan
>>>>>
>>>>>
>>>>> On Sat, Jun 4, 2011 at 11:50 AM, Jonathan S Monette <
>>>>> jonmon at utexas.edu> wrote:
>>>>>
>>>>>> Hello,
>>>>>> I am trying to run the catsn test on beagle using the files in
>>>>>> ~ketan/catsn. I have copied over this directory over to my home directory
>>>>>> and I believe I set it up correctly. I did module load swift and the ran
>>>>>> run.sh that was in this directory. I get this error.
>>>>>>
>>>>>> /soft/swift/0.92/bin/swift: eval: line 152: syntax error near
>>>>>> unexpected token `('
>>>>>> /soft/swift/0.92/bin/swift: eval: line 152: `java -Xmx8192M
>>>>>> -Djava.endorsed.dirs=/soft/swift/0.92/bin/../lib/endorsed -DUID=1881
>>>>>> -DGLOBUS_HOSTNAME=login2.beagle.ci.uchicago.edu.(none)
>>>>>> -DCOG_INSTALL_PATH=/soft/swift/0.92/bin/..
>>>>>> -Dswift.home=/soft/swift/0.92/bin/.. -Djava.security.egd=
>>>>>> file:///dev/urandom -classpath
>>>>>> /soft/swift/0.92/bin/../etc:/soft/swift/0.92/bin/../libexec:/soft/swift/0.92/bin/../lib/addressing-1.0.jar:/soft/swift/0.92/bin/../lib/ant.jar:/soft/swift/0.92/bin/../lib/antlr-2.7.5.jar:/soft/swift/0.92/bin/../lib/axis.jar:/soft/swift/0.92/bin/../lib/axis-url.jar:/soft/swift/0.92/bin/../lib/backport-util-concurrent.jar:/soft/swift/0.92/bin/../lib/castor-0.9.6.jar:/soft/swift/0.92/bin/../lib/coaster-bootstrap.jar:/soft/swift/0.92/bin/../lib/cog-abstraction-common-2.4.jar:/soft/swift/0.92/bin/../lib/cog-axis.jar:/soft/swift/0.92/bin/../lib/cog-grapheditor-0.47.jar:/soft/swift/0.92/bin/../lib/cog-jglobus-1.7.0.jar:/soft/swift/0.92/bin/../lib/cog-karajan-0.36-dev.jar:/soft/swift/0.92/bin/../lib/cog-provider-clref-gt4_0_0.jar:/soft/swift/0.92/bin/../lib/cog-provider-coaster-0.3.jar:/soft/swift/0.92/bin/../lib/cog-provider-dcache-0.1.jar:/soft/swift/0.92/bin/../lib/cog-provider-gt2-2.4.jar:/soft/swift/0.92/bin/../lib/cog-provider-gt4_0_0-2.5.jar:/soft/swift/0.92/bin/../lib/cog-pro
>>>>>> vider-local-2.2.jar:/soft/swift/0.92/bin/../lib/cog-provider-localscheduler-0.4.jar:/soft/swift/0.92/bin/../lib/cog-provider-ssh-2.4.jar:/soft/swift/0.92/bin/../lib/cog-provider-webdav-2.1.jar:/soft/swift/0.92/bin/../lib/cog-resources-1.0.jar:/soft/swift/0.92/bin/../lib/cog-swift-svn.jar:/soft/swift/0.92/bin/../lib/cog-trap-1.0.jar:/soft/swift/0.92/bin/../lib/cog-url.jar:/soft/swift/0.92/bin/../lib/cog-util-0.92.jar:/soft/swift/0.92/bin/../lib/commonj.jar:/soft/swift/0.92/bin/../lib/commons-beanutils.jar:/soft/swift/0.92/bin/../lib/commons-collections-3.0.jar:/soft/swift/0.92/bin/../lib/commons-digester.jar:/soft/swift/0.92/bin/../lib/commons-discovery.jar:/soft/swift/0.92/bin/../lib/commons-httpclient.jar:/soft/swift/0.92/bin/../lib/commons-logging-1.1.jar:/soft/swift/0.92/bin/../lib/concurrent.jar:/soft/swift/0.92/bin/../lib/cryptix32.jar:/soft/swift/0.92/bin/../lib/cryptix-asn1.jar:/soft/swift/0.92/bin/../lib/cryptix.jar:/soft/swift/0.92/bin/../lib/globus_delegation_servic
>>>>>> e.jar:/soft/swift/0.92/bin/../lib/globus_delegation_stubs.jar:/soft/swift/0.92/bin/../lib/globus_wsrf_mds_aggregator_stubs.jar:/soft/swift/0.92/bin/../lib/globus_wsrf_rendezvous_service.jar:/soft/swift/0.92/bin/../lib/globus_wsrf_rendezvous_stubs.jar:/soft/swift/0.92/bin/../lib/globus_wsrf_rft_stubs.jar:/soft/swift/0.92/bin/../lib/gram-client.jar:/soft/swift/0.92/bin/../lib/gram-stubs.jar:/soft/swift/0.92/bin/../lib/gram-utils.jar:/soft/swift/0.92/bin/../lib/j2ssh-common-0.2.2.jar:/soft/swift/0.92/bin/../lib/j2ssh-core-0.2.2-patch-b.jar:/soft/swift/0.92/bin/../lib/jakarta-regexp-1.2.jar:/soft/swift/0.92/bin/../lib/jakarta-slide-webdavlib-2.0.jar:/soft/swift/0.92/bin/../lib/jaxrpc.jar:/soft/swift/0.92/bin/../lib/jce-jdk13-131.jar:/soft/swift/0.92/bin/../lib/jgss.jar:/soft/swift/0.92/bin/../lib/jline-0.9.94.jar:/soft/swift/0.92/bin/../lib/jsr173_1.0_api.jar:/soft/swift/0.92/bin/../lib/jug-lgpl-2.0.0.jar:/soft/swift/0.92/bin/../lib/junit.jar:/soft/swift/0.92/bin/../lib/log4j-1.2
>>>>>> .8.jar:/soft/swift/0.92/bin/../lib/naming-common.jar:/soft/swift/0.92/bin/../lib/naming-factory.jar:/soft/swift/0.92/bin/../lib/naming-java.jar:/soft/swift/0.92/bin/../lib/naming-resources.jar:/soft/swift/0.92/bin/../lib/opensaml.jar:/soft/swift/0.92/bin/../lib/puretls.jar:/soft/swift/0.92/bin/../lib/resolver.jar:/soft/swift/0.92/bin/../lib/saaj.jar:/soft/swift/0.92/bin/../lib/stringtemplate.jar:/soft/swift/0.92/bin/../lib/vdldefinitions.jar:/soft/swift/0.92/bin/../lib/wsdl4j.jar:/soft/swift/0.92/bin/../lib/wsrf_core.jar:/soft/swift/0.92/bin/../lib/wsrf_core_stubs.jar:/soft/swift/0.92/bin/../lib/wsrf_mds_index_stubs.jar:/soft/swift/0.92/bin/../lib/wsrf_mds_usefulrp_schema_stubs.jar:/soft/swift/0.92/bin/../lib/wsrf_provider_jce.jar:/soft/swift/0.92/bin/../lib/wsrf_tools.jar:/soft/swift/0.92/bin/../lib/wss4j.jar:/soft/swift/0.92/bin/../lib/xalan.jar:/soft/swift/0.92/bin/../lib/xbean.jar:/soft/swift/0.92/bin/../lib/xbean_xpath.jar:/soft/swift/0.92/bin/../lib/xercesImpl.jar:/soft
>>>>>> /swift/0.92/bin/../lib/xml-apis.jar:/soft/swift/0.92/bin/../lib/xmlsec.jar:/soft/swift/0.92/bin/../lib/xpp3-1.1.3.4d_b4_min.jar:/soft/swift/0.92/bin/../lib/xstream-1.1.1-patched.jar:
>>>>>> org.griphyn.vdl.karajan.Loader '-config' 'cf' '-tc.file' 'tc' '-sites.file'
>>>>>> 'beagle-coaster.xml' 'catsn.swift' '-n=1''
>>>>>>
>>>>>> I there something else I need to load on beagle to make swift run
>>>>>> accordingly?
>>>>>>
>>>>>> --
>>>>>>
>>>>>> Any intelligent fool can make things bigger and more complex... It
>>>>>> takes a touch of genius - and a lot of courage to move in the opposite
>>>>>> direction.
>>>>>>
>>>>>> - Albert Einstein
>>>>>>
>>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>>
>>>> Any intelligent fool can make things bigger and more complex... It takes
>>>> a touch of genius - and a lot of courage to move in the opposite direction.
>>>>
>>>> - Albert Einstein
>>>>
>>>>
>>>
>>>
>>> --
>>>
>>> Any intelligent fool can make things bigger and more complex... It takes
>>> a touch of genius - and a lot of courage to move in the opposite direction.
>>>
>>> - Albert Einstein
>>>
>>>
>>
>>
>> --
>>
>> Any intelligent fool can make things bigger and more complex... It takes a
>> touch of genius - and a lot of courage to move in the opposite direction.
>>
>> - Albert Einstein
>>
>>
>
>
> --
>
> Any intelligent fool can make things bigger and more complex... It takes a
> touch of genius - and a lot of courage to move in the opposite direction.
>
> - Albert Einstein
>
>
--
Any intelligent fool can make things bigger and more complex... It takes a
touch of genius - and a lot of courage to move in the opposite direction.
- Albert Einstein
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