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From: Justin B. <jb...@ec...> - 2009-06-29 14:32:19
|
Hi All, Following on from the recent series of GridSAM releases. We are pleased to announce the release of GridSAM 2.1.6 This release mainly focuses on performance enhancements and bug fixes relating to the use of the ICT Condor DRM connector. See http://sourceforge.net/project/showfiles.php?group_id=141177&package_id=154979 GridSAM 2.1.6 is a release intended for developers and since the 2.1.5 release the following changes have been made. Added code to forcefully remove working directory and all files therein after a job has completed. This is enabled by adding deleteWorkingDirCompletely=true to StageOutStatusStage.properties. This feature is still under test and is disabled by default. It is useful for when disk space is very limited or when the size of job files are very large. (See subversion revision 432.) Refactored the code such that doPBSJob no longer has to be synchronized, it is instead throttled so a configurable number of job submissions can happen concurrently. This makes the submission of several jobs at once much smoother, as they don't all block behind the same long lived critical section. This change affects the the ICT Condor connector, the ICT PBS connector still requires further work to solve this issue. The level of concurrency can be set by adjusting the max_concurrent_submits property in ICTCondor.properties. (See subversion revision 429.) Removed the need to spawn separate threads to read in the output from forked subprocesses. This should result in faster more efficient execution for this module. Change from using Runtime.exec to the more modern ProcessBuilder. (See subversion revisions 427 and 428.) Added the "-backwards" command line argument to condor_history calls, as this speeds up the lookups considerably on a systems which have a large history. This is presumably as condor_history always iterates through the past jobs in order until it finds the one in question. We are always interested in recent jobs, so this change makes sense. (See subversion revision 425.) Create and reuse a single instance of DefaultFileSystemManager for use with the ICT DRM connectors. This fixes a significant resource leak issue. (See subversion revision 424.) Make the Condor submission file names and the shell used configurable. These need to be configurable specifically in the case where the execution nodes are Windows rather then Unix. The .origin files need to be named .bat and the #!/bin/sh line needs to be removed. (See subversion revision 423.) It is also designed to be used with OMII-UK's - Campus Grid Toolkit 1.1.3 - Development Kit 3.4.4 These are available from www.omii.ac.uk Support is available via su...@om... Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
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From: Kashif I. <kas...@ic...> - 2009-06-17 18:29:47
|
Hello, I am a Software developer at Irish Centre for High End Computing, currently working on the development of a National Bioinformatics portal. I have configured the GridSAM for job submission to multiple resource managers using SSH. But the issue I am facing is that one particular instance of GridSAM can only be configured to submit a job using only one SSH user account. What if I want to submit a job using GridSAM where there are multiple users each having its own SSH account. Another constraint I have is that we don't want to use pool accounts for job submission. My question is how difficult it would be to adapt GridSAM to use individual SSH accounts to submit jobs rather than using one pre- configured SSH account? Thanks for the help, Best regards, Kashif Iqbal Software Developer Irish Centre for High End Computing Dublin Office http://www.ichec.ie |
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From: Justin B. <jb...@ec...> - 2009-05-21 10:40:56
|
Hi Pawel, Which version of PBS are you using? And are the PBS server and scheduler on the same machine as GridSAM? Justin On 20 May 2009, at 13:51, Pawel Sztromwasser wrote: > Hello, > > I guess similar issue has been mentioned once on the mailing list, but > doesn't look like solved: > > http://sourceforge.net/mailarchive/forum.php?thread_name=002701c64d08%2449efd790%24db421080%40cs.ucl.ac.uk&forum_name=gridsam-discuss > > This also looks relevant, but I think it has been included into > version > of GridSAM I am using (2.1.4): > > http://sourceforge.net/mailarchive/forum.php?thread_name=20080617145418.605536413%40soton.ac.uk&forum_name=gridsam-developer > > So what is the problem? I configured GridSAM to run jobs using PBS and > then I am submitting them using GridSAM's Web Services. Jobs start OK, > but their status freezes at state 'active' (response from getJobStatus > method below). I checked jobs on the cluster and they had finished, so > it seems like GridSAM doesn't check properly job's status on the > cluster. It worked properly while running simple POSIX programs like > cat > and echo, so it is something with PBS. > > I double checked pbs.PBSJobStatusCommand in jobmanager-pbs.xml file > and > it is correct. Is there anything additional that GridSAM uses to check > if job completed on the cluster? maybe something is wrong with my > setup, > like directories with wrong permissions it can't access? > > I am using GridSAM 2.1.4 with OMII toolkit 3.4.4. > > Thank you in advance for help, > Pawel > > > ------------------------ > <getJobStatusResponse xmlns="http://www.icenigrid.org/service/ > gridsam"> > <JobStatus> > <JobIdentifier> > <ID>urn:gridsam:0131f86a215956de01215965031d000b</ID> > </JobIdentifier> > <Stage> > <State>pending</State> > <Description>job is being scheduled</Description> > <Time>2009-05-19T17:02:20.701+02:00</Time> > </Stage> > <Stage><State>staging-in</State><Description>staging > files...</Description><Time>2009-05-19T17:02:20.803+02:00</Time></ > Stage><Stage><State>staged-in</State><Description>no > file needs to be staged > in</Description><Time>2009-05-19T17:02:20.807+02:00</Time></Stage> > <Stage> > <State>active</State> > <Description>job is being launched through PBS</Description> > <Time>2009-05-19T17:02:20.933+02:00</Time> > </Stage> > <Property name="urn:pbs:script"> > > #! /bin/sh > # PBS batch job script built by Globus job manager > # > #PBS -S /bin/sh > #PBS -Wx=NODESET:ONEOF:FEATURE:switch10:switch11:ecs > > #PBS -o /work/pawels/blast-runs/blast1.out > > #PBS -e /work/pawels/blast-runs/blast1.err > > cd ${PBS_O_WORKDIR} > > /local/blast-2.2.18/bin/blastall \ > -i /work/pawels/blast-runs/seq/batch0.fasta -o > /work/pawels/blast-runs/seq/batch0.fasta.blast -p blastp -d > /net/compute-2-23.local/scratch/andersl/uniref90 -m7 > touch .complete > </Property> > <Property name="urn:pbs:launched">true</Property> > <Property name="urn:gridsam:principal">OU=BCCS, O=UiB, > EMAILADDRESS=paw...@bc..., C=Norway, ST=Hordaland, > CN=gridsam_certificate</Property> > <Property > name="urn:gridsam:pbs:jobid">2116221.hpcmaster.bccs.uib.no</Property> > </JobStatus> > </getJobStatusResponse> > > > ------------------------------------------------------------------------------ > Crystal Reports - New Free Runtime and 30 Day Trial > Check out the new simplified licensing option that enables > unlimited royalty-free distribution of the report engine > for externally facing server and web deployment. > http://p.sf.net/sfu/businessobjects > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
|
From: Justin B. <jb...@ec...> - 2009-05-20 16:37:34
|
Hi All, Following on from the recent series of GridSAM releases. We are pleased to announce the release of GridSAM 2.1.5 See http://sourceforge.net/project/showfiles.php?group_id=141177&package_id=154979 GridSAM 2.1.5 is a release intended for developers and since the 2.1.4 release the following changes have been made. The GridSAMService can now optionally be used without WSSecurity or HTTPS. This is achieved by removing the associated handlers from server- config.wsdd and editing WEB-INF/classes/GridSAMService.properties This change was in support of at least 2 live projects and is the main driver for this release. Updated gridsam.xsd to improve compatability with BPEL <xsd:any namespace="##any" processContents="skip"/> changed to <xsd:any namespace="##any" minOccurs="0" maxOccurs="unbounded" processContents="skip"/> Added a new up to date job state transition diagram. http://gridsam.sourceforge.net/2.1.5/gridsam-service/functional.html It is also designed to be used with OMII-UK's - Campus Grid Toolkit 1.1.3 - Development Kit 3.4.4 These are available from www.omii.ac.uk Support is available via su...@om... Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
|
From: Pawel S. <Paw...@bc...> - 2009-05-20 12:51:18
|
Hello, I guess similar issue has been mentioned once on the mailing list, but doesn't look like solved: http://sourceforge.net/mailarchive/forum.php?thread_name=002701c64d08%2449efd790%24db421080%40cs.ucl.ac.uk&forum_name=gridsam-discuss This also looks relevant, but I think it has been included into version of GridSAM I am using (2.1.4): http://sourceforge.net/mailarchive/forum.php?thread_name=20080617145418.605536413%40soton.ac.uk&forum_name=gridsam-developer So what is the problem? I configured GridSAM to run jobs using PBS and then I am submitting them using GridSAM's Web Services. Jobs start OK, but their status freezes at state 'active' (response from getJobStatus method below). I checked jobs on the cluster and they had finished, so it seems like GridSAM doesn't check properly job's status on the cluster. It worked properly while running simple POSIX programs like cat and echo, so it is something with PBS. I double checked pbs.PBSJobStatusCommand in jobmanager-pbs.xml file and it is correct. Is there anything additional that GridSAM uses to check if job completed on the cluster? maybe something is wrong with my setup, like directories with wrong permissions it can't access? I am using GridSAM 2.1.4 with OMII toolkit 3.4.4. Thank you in advance for help, Pawel ------------------------ <getJobStatusResponse xmlns="http://www.icenigrid.org/service/gridsam"> <JobStatus> <JobIdentifier> <ID>urn:gridsam:0131f86a215956de01215965031d000b</ID> </JobIdentifier> <Stage> <State>pending</State> <Description>job is being scheduled</Description> <Time>2009-05-19T17:02:20.701+02:00</Time> </Stage> <Stage><State>staging-in</State><Description>staging files...</Description><Time>2009-05-19T17:02:20.803+02:00</Time></Stage><Stage><State>staged-in</State><Description>no file needs to be staged in</Description><Time>2009-05-19T17:02:20.807+02:00</Time></Stage> <Stage> <State>active</State> <Description>job is being launched through PBS</Description> <Time>2009-05-19T17:02:20.933+02:00</Time> </Stage> <Property name="urn:pbs:script"> #! /bin/sh # PBS batch job script built by Globus job manager # #PBS -S /bin/sh #PBS -Wx=NODESET:ONEOF:FEATURE:switch10:switch11:ecs #PBS -o /work/pawels/blast-runs/blast1.out #PBS -e /work/pawels/blast-runs/blast1.err cd ${PBS_O_WORKDIR} /local/blast-2.2.18/bin/blastall \ -i /work/pawels/blast-runs/seq/batch0.fasta -o /work/pawels/blast-runs/seq/batch0.fasta.blast -p blastp -d /net/compute-2-23.local/scratch/andersl/uniref90 -m7 touch .complete </Property> <Property name="urn:pbs:launched">true</Property> <Property name="urn:gridsam:principal">OU=BCCS, O=UiB, EMAILADDRESS=paw...@bc..., C=Norway, ST=Hordaland, CN=gridsam_certificate</Property> <Property name="urn:gridsam:pbs:jobid">2116221.hpcmaster.bccs.uib.no</Property> </JobStatus> </getJobStatusResponse> |
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From: Justin B. <jb...@ec...> - 2009-04-03 12:19:19
|
Hi All, Following on from the recent series of GridSAM releases. We are pleased to announce the release of version 2.1.4. In addition to this, and very much in support of the new GridSAM. OMII-UK have released updated versions of the Campus Grid Toolkit and Development Kit. Details are as follows, more information at the websites given below. GridSAM 2.1.4 change log Added additional valid job state transition, to allow for active- queued -> active. Minor fix up of gridsam.xsd to allow for more strict validation. Changed the way the permissions and executable status is set on JSDL executables. Reworked part of the ICT Condor connector scripts to allow better support for differing versions of Condor. Added new top level ant build target 'build-all-no-doc' which will build the client and server, but skip the javadoc. This makes the build process much faster, which is useful during development. The unused FINS handlers has been disabled, to reduce warnings in the server log. The only maven repository used is maven.omii.ac.uk as others were proving too unreliable. The previous ones remain in the pom.xml, but they have been commented out. Download: http://sourceforge.net/project/showfiles.php?group_id=141177 Information: http://www.omii.ac.uk/wiki/GridSAM Campus Grid Toolkit 1.1.3 change log Server front page redesigned. Improved GridSAM support - New GridSAM with CGT tutorial, complete with new sample code. - Improved support for ICT Condor & PBS DRM connectors. - Moved to GridSAM 2.1.4 - Added support script for clearing the GridSAM database: clearGridsamDatabase.pl Improved example clients: uname, fractal and povray. Improved port availability checking at install time. Download and information: http://www.omii.ac.uk/wiki/CGT Development Kit 3.4.4 change log Support for CGT 1.1.3 changes. Users can now apply their eScience certificates to the server at install time. Server front page redesigned. Installers now uses Ant 1.7.1 rather than Ant 1.6.1. Added support for Tomcat 5.5.27 Minor installation bug fixes. Download and information: http://www.omii.ac.uk/wiki/DevelopmentKit Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
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From: Shaon, A. (Arif) <ari...@st...> - 2009-04-02 14:14:52
|
Hi Justin,
I have discovered something interesting that might shed light on this
issue. The machine I have installed the Campus Grid Toolkit is behind a
firewall and goes through a proxy to access external sites. So, I had
to specify appropriate proxy information, i.e. server and port during
the installation of Campus Grid Toolkit. And as you know it is throwing
the following error when trying to submit a job.
2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit
job: failed to submit job: ; nested exception is:
java.lang.IllegalArgumentException: host parameter is null
But then, I have also tried this on a machine that does not require any
proxy to access the web and it has worked absolutely OK. So, it has
lead to me believe that there is a bug in the current version of Campus
Grid Toolkit, i.e. it does not work on machines that are behind proxy.
Your thoughts please?
Regards
Arif
From: Justin Bradley [mailto:jb...@ec...]
Sent: 01 April 2009 17:33
To: gridsam-discuss
Subject: Re: [gridsam-discuss] Grid SAM Error!
Importance: High
Hi Arif,
Could you please confirm the version of the GridSAM client and server
you are using?
Thanks,
Justin
On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote:
Hi All,
I am getting the following error when trying to submit a simple job.
What could be causing the error?
ashaon@bond:~/ngs_stuff> gridsam-submit -s
http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam -myproxy
-myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk -j sleep.jsdl
MyProxy password:
2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit
job: failed to submit job: ; nested exception is:
java.lang.IllegalArgumentException: host parameter is null
Thanks
Arif
________________________________
Scanned by iCritical.
------------------------------------------------------------------------
------
_______________________________________________
GridSAM-Discuss mailing list
Gri...@li...
https://lists.sourceforge.net/lists/listinfo/gridsam-discuss
--
Justin Bradley
Design & Development Team Leader
j.b...@om...
OMII-UK
Bay 23, 4067, B32
University of Southampton
--
Scanned by iCritical.
|
|
From: Shaon, A. (Arif) <ari...@st...> - 2009-04-01 17:43:37
|
Hi Justin,
I have tried using the IP address of the server but got the same error:
http://163.1.124.69:18080/gridsam/services/gridsam
Regards
Arif
From: Justin Bradley [mailto:jb...@ec...]
Sent: 01 April 2009 17:57
To: gridsam-discuss
Subject: Re: [gridsam-discuss] Grid SAM Error!
Hi Arif,
I'm having trouble reproducing the problem here.
I'm wondering if for some reason your client is having issues resolving
the name of the server machine.
Do you get the same error if you use its IP address instead?
And which java version are you using too?
Thanks
Justin
On 1 Apr 2009, at 17:38, Shaon, ABS (Arif) wrote:
Hi Justin,
I am using GridSAM client version 2.1.3 and OMII client 3.4.3. I am not
sure about the version of the server as this is being hosted by an
external body.
Regards
Arif
From: Justin Bradley [mailto:jb...@ec...]
Sent: 01 April 2009 17:33
To: gridsam-discuss
Subject: Re: [gridsam-discuss] Grid SAM Error!
Importance: High
Hi Arif,
Could you please confirm the version of the GridSAM client and server
you are using?
Thanks,
Justin
On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote:
Hi All,
I am getting the following error when trying to submit a simple job.
What could be causing the error?
ashaon@bond:~/ngs_stuff> gridsam-submit -s
http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam -myproxy
-myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk -j sleep.jsdl
MyProxy password:
2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit
job: failed to submit job: ; nested exception is:
java.lang.IllegalArgumentException: host parameter is null
Thanks
Arif
________________________________
Scanned by iCritical.
------------------------------------------------------------------------
------
_______________________________________________
GridSAM-Discuss mailing list
Gri...@li...
https://lists.sourceforge.net/lists/listinfo/gridsam-discuss
--
Justin Bradley
Design & Development Team Leader
j.b...@om...
OMII-UK
Bay 23, 4067, B32
University of Southampton
________________________________
Scanned by iCritical.
--
Justin Bradley
Design & Development Team Leader
j.b...@om...
OMII-UK
Bay 23, 4067, B32
University of Southampton
--
Scanned by iCritical.
|
|
From: Justin B. <jb...@ec...> - 2009-04-01 16:57:22
|
Hi Arif, I'm having trouble reproducing the problem here. I'm wondering if for some reason your client is having issues resolving the name of the server machine. Do you get the same error if you use its IP address instead? And which java version are you using too? Thanks Justin On 1 Apr 2009, at 17:38, Shaon, ABS (Arif) wrote: > Hi Justin, > > I am using GridSAM client version 2.1.3 and OMII client 3.4.3. I am > not sure about the version of the server as this is being hosted by > an external body. > > Regards > Arif > > From: Justin Bradley [mailto:jb...@ec...] > Sent: 01 April 2009 17:33 > To: gridsam-discuss > Subject: Re: [gridsam-discuss] Grid SAM Error! > Importance: High > > Hi Arif, > > Could you please confirm the version of the GridSAM client and > server you are using? > > Thanks, > Justin > > > > On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote: > > > Hi All, > > I am getting the following error when trying to submit a simple > job. What could be causing the error? > > ashaon@bond:~/ngs_stuff> gridsam-submit -s http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam > -myproxy -myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk - > j sleep.jsdl > MyProxy password: > 2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to > submit job: failed to submit job: ; nested exception is: > java.lang.IllegalArgumentException: host parameter is null > > Thanks > > Arif > > > > Scanned by iCritical. > > > ------------------------------------------------------------------------------ > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss > > -- > Justin Bradley > Design & Development Team Leader > j.b...@om... > OMII-UK > Bay 23, 4067, B32 > University of Southampton > > > > > > > > > Scanned by iCritical. > > > -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
|
From: Matteo T. <mat...@oe...> - 2009-04-01 16:41:12
|
Justin Bradley wrote: Hi Justin, > Could you please confirm the version of the GridSAM client and server > you are using? I am the admin of the server used by Arif. We are using the 2.1.3 within the Campus Grid Toolkit container. Cheers, Matteo > On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote: > >> Hi All, >> >> I am getting the following error when trying to submit a simple job. >> What could be causing the error? >> >> ashaon@bond:~/ngs_stuff> gridsam-submit >> -s http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam -myproxy >> -myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk -j sleep.jsdl >> MyProxy password: >> 2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit >> job: failed to submit job: ; nested exception is: >> java.lang.IllegalArgumentException: host parameter is null >> >> Thanks >> >> Arif >> >> >> ------------------------------------------------------------------------ >> >> Scanned by iCritical. >> >> >> ------------------------------------------------------------------------------ >> _______________________________________________ >> GridSAM-Discuss mailing list >> Gri...@li... >> <mailto:Gri...@li...> >> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss > > -- > Justin Bradley > Design & Development Team Leader > j.b...@om... <mailto:j.b...@om...> > OMII-UK > Bay 23, 4067, B32 > University of Southampton > > > > > > ------------------------------------------------------------------------ > > ------------------------------------------------------------------------------ > > > ------------------------------------------------------------------------ > > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss -- Grid Systems Support Officer Oxford e-Research Centre (OeRC) http://www.oerc.ox.ac.uk |
|
From: Shaon, A. (Arif) <ari...@st...> - 2009-04-01 16:39:18
|
Hi Justin,
I am using GridSAM client version 2.1.3 and OMII client 3.4.3. I am not
sure about the version of the server as this is being hosted by an
external body.
Regards
Arif
From: Justin Bradley [mailto:jb...@ec...]
Sent: 01 April 2009 17:33
To: gridsam-discuss
Subject: Re: [gridsam-discuss] Grid SAM Error!
Importance: High
Hi Arif,
Could you please confirm the version of the GridSAM client and server
you are using?
Thanks,
Justin
On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote:
Hi All,
I am getting the following error when trying to submit a simple job.
What could be causing the error?
ashaon@bond:~/ngs_stuff> gridsam-submit -s
http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam -myproxy
-myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk -j sleep.jsdl
MyProxy password:
2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit
job: failed to submit job: ; nested exception is:
java.lang.IllegalArgumentException: host parameter is null
Thanks
Arif
________________________________
Scanned by iCritical.
------------------------------------------------------------------------
------
_______________________________________________
GridSAM-Discuss mailing list
Gri...@li...
https://lists.sourceforge.net/lists/listinfo/gridsam-discuss
--
Justin Bradley
Design & Development Team Leader
j.b...@om...
OMII-UK
Bay 23, 4067, B32
University of Southampton
--
Scanned by iCritical.
|
|
From: Justin B. <jb...@ec...> - 2009-04-01 16:33:56
|
Hi Arif, Could you please confirm the version of the GridSAM client and server you are using? Thanks, Justin On 1 Apr 2009, at 17:06, Shaon, ABS (Arif) wrote: > Hi All, > > I am getting the following error when trying to submit a simple > job. What could be causing the error? > > ashaon@bond:~/ngs_stuff> gridsam-submit -s http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam > -myproxy -myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk - > j sleep.jsdl > MyProxy password: > 2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to > submit job: failed to submit job: ; nested exception is: > java.lang.IllegalArgumentException: host parameter is null > > Thanks > > Arif > > > > Scanned by iCritical. > > > ------------------------------------------------------------------------------ > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
|
From: Shaon, A. (Arif) <ari...@st...> - 2009-04-01 16:11:17
|
Hi All, I am getting the following error when trying to submit a simple job. What could be causing the error? ashaon@bond:~/ngs_stuff> gridsam-submit -s http://gridsam.oerc.ox.ac.uk:18080/gridsam/services/gridsam -myproxy -myproxyuser xxx -myproxyhost myproxy.grid-support.ac.uk -j sleep.jsdl MyProxy password: 2009-04-01 16:55:18,762 FATAL [GridSAMSubmit] (main:) unable to submit job: failed to submit job: ; nested exception is: java.lang.IllegalArgumentException: host parameter is null Thanks Arif -- Scanned by iCritical. |
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From: Justin B. <jb...@ec...> - 2009-02-06 12:13:39
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Hi All, Following on from the recent series of GridSAM developer releases. We are please to announce the release of version 2.1.3. See http://sourceforge.net/project/showfiles.php?group_id=141177&package_id=154979 GridSAM 2.1.3 is a release intended for developers and now includes: - Initial integration of the vfs-commons-grid library from NeSC. This supplies the ability to configure GSIFTP URIs to be interpreted as relative or absolute file references. Settings can be changed by editing webapps/gridsam/WEB-INF/classes/ FileNameParser.properties See http://gridsam.svn.sourceforge.net/viewvc/gridsam?view=rev&revision=385 and http://forge.nesc.ac.uk/projects/vfs-modules/ - Integration of the ICTCondor DRM connector. In order to help configure this new connector, the Campus Grid Toolkit server-side script bin/manageGridsamConnectors.pl has been updated. Patch a fresh CGT 1.1.2 server with the following file. http://kraz.omii.ac.uk/~gridsam/2.1.3/utility/manageGridsamConnectors.pl See http://gridsam.svn.sourceforge.net/viewvc/gridsam?view=rev&revision=386 - Introduction of a new Maven repository, maven.omii.ac.uk. Which should improve the reliability of the GridSAM build process. See http://gridsam.svn.sourceforge.net/viewvc/gridsam?view=rev&revision=391 - Bug fixes to WDSL introduced in 2.1.2. - Hierarchical working directory support. See http://gridsam.svn.sourceforge.net/viewvc/gridsam?view=rev&revision=386 It is also designed to be used with OMII-UK's - Campus Grid Toolkit 1.1.2 - Development Kit 3.4.3. These are available from www.omii.ac.uk. Support is available via su...@om.... Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Bay 23, 4067, B32 University of Southampton |
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From: 田中 義一 <yt...@gr...> - 2009-01-22 08:31:10
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Hi;
I am trying to replace the omii-uk temporal certificate with personal certificates provided by my personal CA. But error has occurred in tomcat when replaceing keystore file and start the omii_server.
I have made the keystore file as follows.
1.Generate a key pair within keystore
keytool -genkey -keyalg RSA -alias omii_server -keystore omii.ks
Java version jdk-1.5.0_13
2.Generate a Certificate Signing Request from the key pair.
#keytool -certreq -alias omii_server -keystore omii.ks -file server.csr
3.Get the CSR signed by the personal demoCA
#openssl ca -keyfile openssl/demoCA/private/cakey.pem -cert openssl/demoCA/cacert.pem -in server.csr -out server.crt
openssl version OpenSSL 0.9.6k
openssl.conf is used as default value except file location.
4.Import the CA's certificate into keystore file.
#keytool -import -file openssl/demoCA/cacert.pem -alias omii_ca -keystore omii.ks
5.Import the singed certificate into keystore
#openssl x509 -in server.crt -out server.x509
#keytool -import -file server.x509 -alias omii_server -keystore omii.ks
6.set omii.ks in <OMII_server> directory and restart omii_server
7.Error received in OMII/tomcat/logs/Catalina.out
22-Jan-2009 15:31:03 org.apache.catalina.startup.ContextConfig validateSecurityRoles
WARNING: Security role name ahefilestage used in an <auth-constraint> without being defined in a <security-role>
- cgi: init: loglevel set to 0
- cgi: init: read environment variable file /home/omii/OMII/tomcat/webapps/ahe/config/envvars.properties
22-Jan-2009 15:31:08 org.apache.coyote.http11.Http11BaseProtocol start
INFO: Starting Coyote HTTP/1.1 on http-18443
22-Jan-2009 15:31:08 org.apache.tomcat.util.threads.ThreadPool$ControlRunnable run
SEVERE: Caught exception (java.lang.RuntimeException: Failed to get private key) executing org.apache.tomcat.util.net.LeaderFollowerWorkerThread@3ba002, terminating thread
22-Jan-2009 15:31:08 org.apache.tomcat.util.threads.ThreadPool$ControlRunnable run
SEVERE: Caught exception (java.lang.RuntimeException: Failed to get private key) executin
Content of the keystore is as follows.
#keytool -v -list -keystore omii.ks
Enter keystore password: tmpstore
Keystore type: jks
Keystore provider: SUN
Your keystore contains 2 entries
Alias name: omii_ca
Creation date: Jan 22, 2009
Entry type: trustedCertEntry
Owner: EMAILADDRESS=ro...@pb..., CN=NAREGICA, OU=NAREGI, O=NII, L=Chiyoda, ST=Tokyo, C=JP
Issuer: EMAILADDRESS=ro...@pb..., CN=NAREGICA, OU=NAREGI, O=NII, L=Chiyoda, ST=Tokyo, C=JP
Serial number: 0
Valid from: Thu Jan 22 15:13:56 JST 2009 until: Fri Jan 22 15:13:56 JST 2010
Certificate fingerprints:
MD5: 99:5D:FA:6C:00:F1:A2:51:95:E7:A7:82:F5:D8:4C:AC
SHA1: C0:47:08:0D:83:9B:D8:7A:F6:5C:71:1F:D5:B6:1F:4F:EC:D0:04:98
*******************************************
*******************************************
Alias name: omii_server
Creation date: Jan 22, 2009
Entry type: keyEntry
Certificate chain length: 2
Certificate[1]:
Owner: CN=pbg2007.naregi.org, OU=NAREGI, O=NII, ST=Tokyo, C=JP
Issuer: EMAILADDRESS=ro...@pb..., CN=NAREGICA, OU=NAREGI, O=NII, L=Chiyoda, ST=Tokyo, C=JP
Serial number: 1
Valid from: Thu Jan 22 15:22:23 JST 2009 until: Fri Jan 22 15:22:23 JST 2010
Certificate fingerprints:
MD5: 29:92:71:B3:38:DC:AD:73:73:A7:32:36:A7:3C:D2:88
SHA1: 88:89:B2:59:BC:07:53:35:23:0E:AE:7F:2E:F9:77:DE:0B:20:94:BB
Certificate[2]:
Owner: EMAILADDRESS=ro...@pb..., CN=NAREGICA, OU=NAREGI, O=NII, L=Chiyoda, ST=Tokyo, C=JP
Issuer: EMAILADDRESS=ro...@pb..., CN=NAREGICA, OU=NAREGI, O=NII, L=Chiyoda, ST=Tokyo, C=JP
Serial number: 0
Valid from: Thu Jan 22 15:13:56 JST 2009 until: Fri Jan 22 15:13:56 JST 2010
Certificate fingerprints:
MD5: 99:5D:FA:6C:00:F1:A2:51:95:E7:A7:82:F5:D8:4C:AC
SHA1: C0:47:08:0D:83:9B:D8:7A:F6:5C:71:1F:D5:B6:1F:4F:EC:D0:04:98
*******************************************
*******************************************
Any help with this would be greatly appreciated.
Many thanks in advance.
Regards
NAREGI(Reaearch for Grid Research and Development)
Yoshikazu Tanaka
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From: Justin B. <jb...@ec...> - 2009-01-07 14:10:11
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Hi List, I thought it was worth making a statement about the intentions regarding GridSAM and the use of apache-commons-vfs, specifically in relation to GSI FTP. There have been a couple of issues surrounding this topic for some time now. There have been previous discussions on how to interpret some JSDL file path references with respect to relative and absolute paths. This was mainly in relation to GSI FTP URLs, where it can sometimes be open to interpretation as to whether a file path is relative to the user's home directory or absolute (ie relative to the root of the available file system). The interpretation of these file paths are down to the vfs GSI FTP routines. I'll include a portion of the original discussion at the bottom of this text to give more context. Further to this Jos and I are now using a set of commons-vfs extensions derived from the ones used by the Rapid project. These appear to supply a suitable starting point to produce a configurable vfs library for use with GridSAM. See, http://forge.nesc.ac.uk/projects/vfs-modules/ for more details. The extensions covered by this work, currently FTP, SFTP and GSI FTP can now been configured on a per protocol basis as to the default interpretation of ambiguous file paths. So file paths without a leading "/" can be set to be relative to the user's home directory (notionally ''.") or to the root of the file system (or file server). At present, the current default behaviour is maintained and configuration of this behaviour is done by way of an optional properties file. This should give a suitable level of flexibility. The changes to vfs-modules are still under test, and as such may well undergo some further changes. I'm currently changing the GridSAM code to use the new module for FTP, SFTP and GSI FTP and will check in the code changes shortly. This is in line with releasing another GridSAM (version 2.1.3) developers release this month. In a related and possible future, work will hopefully be done with the common-vfs-grid group (http://projects.arcs.org.au/trac/commons-vfs-grid/ ). This would aim to converge the current implementations to form a single library which would aim to be universally useful. Rather than having the current selection that are currently developed in parallel. Any questions, feel free to ask. Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Suite 3235, Zepler Building (B59) University of Southampton |
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From: Justin B. <j.b...@om...> - 2008-12-21 20:12:33
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Hi All, Following on from the recent series of GridSAM developer releases. We are please to announce the release of version 2.1.2. See http://sourceforge.net/project/showfiles.php?group_id=141177&package_id=154979 GridSAM 2.1.2 is a release intended for developers. This release represents the first version containing both the recent works from ICT and Imperial College London (under the 'Phase 3' project). GridSAM 2.1.2 now includes: - Support of the JSDL SPMD extension - BES interface support - HPCPApplication support in the SGE, PBS & Condor connectors - Extended job states and queue information It is also designed to be used with OMII-UK's - Campus Grid Toolkit 1.1.2 - Development Kit 3.4.3. These are available from www.omii.ac.uk. Support is available via su...@om.... Regards, Justin -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Suite 3235, Zepler Building (B59) University of Southampton |
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From: ye h. <hua...@gm...> - 2008-12-03 17:58:09
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Hi, Vesso: Thanks for your information! No more to say, Appreciate! Regards ye On 3 Dec, 2008, at 6:42 PM, Vesselin Novov wrote: > Ye, > > The project site on SourceForge contains all documentation > available. The docs have been updated and the broken links fixed. > The updated site will be accessible as soon as the OMII team > completes the testing and releases the next version. > There should be a PBS configuration page very similar to the > Condor's one(which is here: "http://gridsam.sourceforge.net/2.1.0/gridsam-service/condor.html > "). > > I'm afraid there isn't much there of explaining the java API. > Your Java program would need to have all dependency jar files > located in the '/lib' directories of the OMII Client and the GridSAM > Client on its class path. > In your code you'd just need to instantiate > "org.icenigrid.gridsam.client.common.ClientSideJobManager". Once > instantiated you can call client-side methods for submitting jobs, > checking statuses, terminating, etc. > In its interface this class has all available client-side operations > for invoking a GridSAM server exposing either the proprietary > GridSAM interface or one of the OGF BES or HPC Profile interfaces. > > --Vesso > P.S. The parameters for some of the methods accept XmlBeans-type > objects. The classes for those objects are available in the gridsam- > client-*.jar file which you should have in your client installation > '/lib' directory. > > ye huang wrote: >> Hi, Vesso: >> Thanks, yes, you are right! >> I success my sample with "https", not "http", It seems a bug of >> online tutorial. >> >> BTW, where could I find more document about GridSAM? Such as how to >> configure GridSAM with a PBS/Condor cluster, how to use GridSAM >> java API (not only plain javadoc, something like a reference >> implementation). Unfortunately, It seems not easy to find more >> information from gridsam.sourceforge.net; and actually, many of its >> links are unreachable, such as: >> http://gridsam.sourceforge.net/2.0.0/gridsam-service/deploymentguide.html >> http://www.omii.ac.uk/docs/3.0.0/omii_2_user_guide.htm >> etc... >> >> Regards >> ye >> >> On 3 Dec, 2008, at 5:34 PM, Vesselin Novov wrote: >> >>> Hi Ye, >>> >>> If you've made your server/client installations with default >>> configurations then, the communication between the omii-client and >>> omii-server is secured. >>> The server URL should start with 'https' not 'http'. >>> >>> --Vesso >>> >>> ye huang wrote: >>>> Hi, Dear all: >>>> I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, >>>> it seems the installation works. During the installation, I >>>> selected to install the integrated Software Component: >>>> GridSAM2.0.2, on both omii-server-3.4.2 and omii-client-3.4.2. >>>> >>>> Then, I try to follow GridSAM quick start as follows: >>>> >>>> 1) I started GridSAM service: >>>> *** >>>> ye-Mac:bin yehuang$ ./startomii.sh Starting up tomcat >>>> Using JRE_HOME: /Library/Java/Home >>>> Waiting for container....!.. Container started. >>>> *** >>>> >>>> Due the logged information, it seems server is started properly: >>>> *** >>>> 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM >>>> machinery initialising... >>>> 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module >>>> description from classpath jobmanager.xml >>>> 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM >>>> machinery initialised >>>> *** >>>> >>>> 2) Then I try to submit the jsdl sample from quick start, which >>>> prompts: >>>> >>>> *** >>>> ye-Mac:bin yehuang$ pwd >>>> /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin >>>> ye-Mac:bin yehuang$ ./gridsam-submit -s "http://localhost:18080/gridsam/services/gridsam >>>> " /Users/yehuang/test/helloworld.jsdl >>>> 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to >>>> submit job: failed to submit job: ; nested exception is: >>>> org.apache.commons.httpclient.ProtocolException: The server >>>> localhost failed to respond with a valid HTTP response >>>> *** >>>> >>>> 3) Above information seems to shown the submission is correct, >>>> but the server behaves strangely. I try to browse the wsdl of >>>> gridsam, >>>> *** >>>> http://localhost:18080/gridsam/services/gridsam?WSDL. >>>> *** >>>> >>>> but my firefox always prompts a download of such file, after >>>> download, i found it's empty... Then I try to visit the the >>>> parent page: >>>> >>>> *** >>>> http://localhost:18080/g >>>> and >>>> http://localhost:18080/gridsam/s >>>> *** >>>> >>>> Some other empty files are prompted for download. >>>> >>>> In conclusion) >>>> What's up?... Does it mean i fail to start GridSAM, or I have to >>>> install an individual gridsam, instead of bundled one within omii- >>>> installer? >>>> >>>> Regards >>>> ye >>>> >>>> -- >>>> >>>> Ye Huang, Department of Informatics >>>> University of Fribourg / Pérolles 2 - Bld de Pérolles 90 >>>> 1700 Fribourg, Switzerland >>>> >>>> e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... >>>> <mailto:ye....@un...> >>>> http://diuf.unifr.ch/people/huangy/ >>>> Office: +41 26 429 65 95 >>>> >>>> >>>> >>>> >>>> ------------------------------------------------------------------------ >>>> >>>> ------------------------------------------------------------------------- >>>> This SF.Net email is sponsored by the Moblin Your Move >>>> Developer's challenge >>>> Build the coolest Linux based applications with Moblin SDK & win >>>> great prizes >>>> Grand prize is a trip for two to an Open Source event anywhere in >>>> the world >>>> http://moblin-contest.org/redirect.php?banner_id=100&url=/ <http://moblin-contest.org/redirect.php?banner_id=100&url=/ >>>> > >>>> ------------------------------------------------------------------------ >>>> >>>> _______________________________________________ >>>> GridSAM-Discuss mailing list >>>> Gri...@li... <mailto:Gri...@li... >>>> > >>>> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss >>>> >> >> >> -- >> >> Ye Huang, Department of Informatics >> University of Fribourg / Pérolles 2 - Bld de Pérolles 90 >> 1700 Fribourg, Switzerland >> >> e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... >> <mailto:ye....@un...> >> http://diuf.unifr.ch/people/huangy/ >> Office: +41 26 429 65 95 >> >> >> >> >> ------------------------------------------------------------------------ >> >> ------------------------------------------------------------------------- >> This SF.Net email is sponsored by the Moblin Your Move Developer's >> challenge >> Build the coolest Linux based applications with Moblin SDK & win >> great prizes >> Grand prize is a trip for two to an Open Source event anywhere in >> the world >> http://moblin-contest.org/redirect.php?banner_id=100&url=/ >> ------------------------------------------------------------------------ >> >> _______________________________________________ >> GridSAM-Discuss mailing list >> Gri...@li... >> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss >> -- Ye Huang, Department of Informatics University of Fribourg / Pérolles 2 - Bld de Pérolles 90 1700 Fribourg, Switzerland e-mail: ye....@he..., ye....@un... http://diuf.unifr.ch/people/huangy/ Office: +41 26 429 65 95 |
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From: Vesselin N. <ve...@do...> - 2008-12-03 17:43:08
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Ye, The project site on SourceForge contains all documentation available. The docs have been updated and the broken links fixed. The updated site will be accessible as soon as the OMII team completes the testing and releases the next version. There should be a PBS configuration page very similar to the Condor's one(which is here: "http://gridsam.sourceforge.net/2.1.0/gridsam-service/condor.html"). I'm afraid there isn't much there of explaining the java API. Your Java program would need to have all dependency jar files located in the '/lib' directories of the OMII Client and the GridSAM Client on its class path. In your code you'd just need to instantiate "org.icenigrid.gridsam.client.common.ClientSideJobManager". Once instantiated you can call client-side methods for submitting jobs, checking statuses, terminating, etc. In its interface this class has all available client-side operations for invoking a GridSAM server exposing either the proprietary GridSAM interface or one of the OGF BES or HPC Profile interfaces. --Vesso P.S. The parameters for some of the methods accept XmlBeans-type objects. The classes for those objects are available in the gridsam-client-*.jar file which you should have in your client installation '/lib' directory. ye huang wrote: > Hi, Vesso: > Thanks, yes, you are right! > I success my sample with "https", not "http", It seems a bug of online > tutorial. > > BTW, where could I find more document about GridSAM? Such as how to > configure GridSAM with a PBS/Condor cluster, how to use GridSAM java > API (not only plain javadoc, something like a reference implementation). > Unfortunately, It seems not easy to find more information > from gridsam.sourceforge.net; and actually, many of its links are > unreachable, such as: > http://gridsam.sourceforge.net/2.0.0/gridsam-service/deploymentguide.html > http://www.omii.ac.uk/docs/3.0.0/omii_2_user_guide.htm > etc... > > Regards > ye > > On 3 Dec, 2008, at 5:34 PM, Vesselin Novov wrote: > >> Hi Ye, >> >> If you've made your server/client installations with default >> configurations then, the communication between the omii-client and >> omii-server is secured. >> The server URL should start with 'https' not 'http'. >> >> --Vesso >> >> ye huang wrote: >>> Hi, Dear all: >>> I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, it >>> seems the installation works. During the installation, I selected to >>> install the integrated Software Component: GridSAM2.0.2, on both >>> omii-server-3.4.2 and omii-client-3.4.2. >>> >>> Then, I try to follow GridSAM quick start as follows: >>> >>> 1) I started GridSAM service: >>> *** >>> ye-Mac:bin yehuang$ ./startomii.sh Starting up tomcat >>> Using JRE_HOME: /Library/Java/Home >>> Waiting for container....!.. Container started. >>> *** >>> >>> Due the logged information, it seems server is started properly: >>> *** >>> 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM >>> machinery initialising... >>> 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module >>> description from classpath jobmanager.xml >>> 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM >>> machinery initialised >>> *** >>> >>> 2) Then I try to submit the jsdl sample from quick start, which prompts: >>> >>> *** >>> ye-Mac:bin yehuang$ pwd >>> /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin >>> ye-Mac:bin yehuang$ ./gridsam-submit -s >>> "http://localhost:18080/gridsam/services/gridsam" >>> /Users/yehuang/test/helloworld.jsdl >>> 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to >>> submit job: failed to submit job: ; nested exception is: >>> org.apache.commons.httpclient.ProtocolException: The server >>> localhost failed to respond with a valid HTTP response >>> *** >>> >>> 3) Above information seems to shown the submission is correct, but >>> the server behaves strangely. I try to browse the wsdl of gridsam, >>> *** >>> http://localhost:18080/gridsam/services/gridsam?WSDL. >>> *** >>> >>> but my firefox always prompts a download of such file, after >>> download, i found it's empty... Then I try to visit the the parent page: >>> >>> *** >>> http://localhost:18080/g >>> and >>> http://localhost:18080/gridsam/s >>> *** >>> >>> Some other empty files are prompted for download. >>> >>> In conclusion) >>> What's up?... Does it mean i fail to start GridSAM, or I have to >>> install an individual gridsam, instead of bundled one within >>> omii-installer? >>> >>> Regards >>> ye >>> >>> -- >>> >>> Ye Huang, Department of Informatics >>> University of Fribourg / Pérolles 2 - Bld de Pérolles 90 >>> 1700 Fribourg, Switzerland >>> >>> e-mail: ye....@he... <mailto:ye....@he...>, >>> ye....@un... <mailto:ye....@un...> >>> http://diuf.unifr.ch/people/huangy/ >>> Office: +41 26 429 65 95 >>> >>> >>> >>> >>> ------------------------------------------------------------------------ >>> >>> ------------------------------------------------------------------------- >>> This SF.Net email is sponsored by the Moblin Your Move Developer's >>> challenge >>> Build the coolest Linux based applications with Moblin SDK & win >>> great prizes >>> Grand prize is a trip for two to an Open Source event anywhere in >>> the world >>> http://moblin-contest.org/redirect.php?banner_id=100&url=/ >>> <http://moblin-contest.org/redirect.php?banner_id=100&url=/> >>> ------------------------------------------------------------------------ >>> >>> _______________________________________________ >>> GridSAM-Discuss mailing list >>> Gri...@li... >>> <mailto:Gri...@li...> >>> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss >>> > > > -- > > Ye Huang, Department of Informatics > University of Fribourg / Pérolles 2 - Bld de Pérolles 90 > 1700 Fribourg, Switzerland > > e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... > <mailto:ye....@un...> > http://diuf.unifr.ch/people/huangy/ > Office: +41 26 429 65 95 > > > > > ------------------------------------------------------------------------ > > ------------------------------------------------------------------------- > This SF.Net email is sponsored by the Moblin Your Move Developer's challenge > Build the coolest Linux based applications with Moblin SDK & win great prizes > Grand prize is a trip for two to an Open Source event anywhere in the world > http://moblin-contest.org/redirect.php?banner_id=100&url=/ > ------------------------------------------------------------------------ > > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss > |
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From: Justin B. <jb...@ec...> - 2008-12-03 17:16:42
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Hi Ye, Apologies, the GridSAM docs and accessibility do need some work. http://gridsam.sourceforge.net/2.1.0/gridsam-service/deploymentguide.html http://www.omii.ac.uk/docs/3.4.2/user_guide/omii_user_guide.htm Are the correct locations of those 2 pages. Feel free to direct questions to this list, to me, or via omii support as you have been doing. Thanks Justin On 3 Dec 2008, at 17:08, ye huang wrote: > Hi, Vesso: > Thanks, yes, you are right! > I success my sample with "https", not "http", It seems a bug of > online tutorial. > > BTW, where could I find more document about GridSAM? Such as how to > configure GridSAM with a PBS/Condor cluster, how to use GridSAM java > API (not only plain javadoc, something like a reference > implementation). > Unfortunately, It seems not easy to find more information from > gridsam.sourceforge.net; and actually, many of its links are > unreachable, such as: > http://gridsam.sourceforge.net/2.0.0/gridsam-service/deploymentguide.html > http://www.omii.ac.uk/docs/3.0.0/omii_2_user_guide.htm > etc... > > Regards > ye > > On 3 Dec, 2008, at 5:34 PM, Vesselin Novov wrote: > >> Hi Ye, >> >> If you've made your server/client installations with default >> configurations then, the communication between the omii-client and >> omii-server is secured. >> The server URL should start with 'https' not 'http'. >> >> --Vesso >> >> ye huang wrote: >>> Hi, Dear all: >>> I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, >>> it seems the installation works. During the installation, I >>> selected to install the integrated Software Component: >>> GridSAM2.0.2, on both omii-server-3.4.2 and omii-client-3.4.2. >>> >>> Then, I try to follow GridSAM quick start as follows: >>> >>> 1) I started GridSAM service: >>> *** >>> ye-Mac:bin yehuang$ ./startomii.sh Starting up tomcat >>> Using JRE_HOME: /Library/Java/Home >>> Waiting for container....!.. Container started. >>> *** >>> >>> Due the logged information, it seems server is started properly: >>> *** >>> 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM >>> machinery initialising... >>> 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module >>> description from classpath jobmanager.xml >>> 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM >>> machinery initialised >>> *** >>> >>> 2) Then I try to submit the jsdl sample from quick start, which >>> prompts: >>> >>> *** >>> ye-Mac:bin yehuang$ pwd >>> /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin >>> ye-Mac:bin yehuang$ ./gridsam-submit -s "http://localhost:18080/gridsam/services/gridsam >>> " /Users/yehuang/test/helloworld.jsdl >>> 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to >>> submit job: failed to submit job: ; nested exception is: >>> org.apache.commons.httpclient.ProtocolException: The server >>> localhost failed to respond with a valid HTTP response >>> *** >>> >>> 3) Above information seems to shown the submission is correct, but >>> the server behaves strangely. I try to browse the wsdl of gridsam, >>> *** >>> http://localhost:18080/gridsam/services/gridsam?WSDL. >>> *** >>> >>> but my firefox always prompts a download of such file, after >>> download, i found it's empty... Then I try to visit the the parent >>> page: >>> >>> *** >>> http://localhost:18080/g >>> and >>> http://localhost:18080/gridsam/s >>> *** >>> >>> Some other empty files are prompted for download. >>> >>> In conclusion) >>> What's up?... Does it mean i fail to start GridSAM, or I have to >>> install an individual gridsam, instead of bundled one within omii- >>> installer? >>> >>> Regards >>> ye >>> >>> -- >>> >>> Ye Huang, Department of Informatics >>> University of Fribourg / Pérolles 2 - Bld de Pérolles 90 >>> 1700 Fribourg, Switzerland >>> >>> e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... >>> <mailto:ye....@un...> >>> http://diuf.unifr.ch/people/huangy/ >>> Office: +41 26 429 65 95 >>> >>> >>> >>> >>> ------------------------------------------------------------------------ >>> >>> ------------------------------------------------------------------------- >>> This SF.Net email is sponsored by the Moblin Your Move Developer's >>> challenge >>> Build the coolest Linux based applications with Moblin SDK & win >>> great prizes >>> Grand prize is a trip for two to an Open Source event anywhere in >>> the world >>> http://moblin-contest.org/redirect.php?banner_id=100&url=/ >>> ------------------------------------------------------------------------ >>> >>> _______________________________________________ >>> GridSAM-Discuss mailing list >>> Gri...@li... >>> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss >>> > > > -- > > Ye Huang, Department of Informatics > University of Fribourg / Pérolles 2 - Bld de Pérolles 90 > 1700 Fribourg, Switzerland > > e-mail: ye....@he..., ye....@un... > http://diuf.unifr.ch/people/huangy/ > Office: +41 26 429 65 95 > > > > > ------------------------------------------------------------------------- > This SF.Net email is sponsored by the Moblin Your Move Developer's > challenge > Build the coolest Linux based applications with Moblin SDK & win > great prizes > Grand prize is a trip for two to an Open Source event anywhere in > the world > http://moblin-contest.org/redirect.php?banner_id=100&url=/_______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss -- Justin Bradley Design & Development Team Leader j.b...@om... OMII-UK Suite 3235, Zepler Building (B59) University of Southampton |
|
From: ye h. <hua...@gm...> - 2008-12-03 17:08:56
|
Hi, Vesso: Thanks, yes, you are right! I success my sample with "https", not "http", It seems a bug of online tutorial. BTW, where could I find more document about GridSAM? Such as how to configure GridSAM with a PBS/Condor cluster, how to use GridSAM java API (not only plain javadoc, something like a reference implementation). Unfortunately, It seems not easy to find more information from gridsam.sourceforge.net; and actually, many of its links are unreachable, such as: http://gridsam.sourceforge.net/2.0.0/gridsam-service/deploymentguide.html http://www.omii.ac.uk/docs/3.0.0/omii_2_user_guide.htm etc... Regards ye On 3 Dec, 2008, at 5:34 PM, Vesselin Novov wrote: > Hi Ye, > > If you've made your server/client installations with default > configurations then, the communication between the omii-client and > omii-server is secured. > The server URL should start with 'https' not 'http'. > > --Vesso > > ye huang wrote: >> Hi, Dear all: >> I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, it >> seems the installation works. During the installation, I selected >> to install the integrated Software Component: GridSAM2.0.2, on both >> omii-server-3.4.2 and omii-client-3.4.2. >> >> Then, I try to follow GridSAM quick start as follows: >> >> 1) I started GridSAM service: >> *** >> ye-Mac:bin yehuang$ ./startomii.sh Starting up tomcat >> Using JRE_HOME: /Library/Java/Home >> Waiting for container....!.. Container started. >> *** >> >> Due the logged information, it seems server is started properly: >> *** >> 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM >> machinery initialising... >> 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module >> description from classpath jobmanager.xml >> 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM >> machinery initialised >> *** >> >> 2) Then I try to submit the jsdl sample from quick start, which >> prompts: >> >> *** >> ye-Mac:bin yehuang$ pwd >> /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin >> ye-Mac:bin yehuang$ ./gridsam-submit -s "http://localhost:18080/gridsam/services/gridsam >> " /Users/yehuang/test/helloworld.jsdl >> 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to >> submit job: failed to submit job: ; nested exception is: >> org.apache.commons.httpclient.ProtocolException: The server >> localhost failed to respond with a valid HTTP response >> *** >> >> 3) Above information seems to shown the submission is correct, but >> the server behaves strangely. I try to browse the wsdl of gridsam, >> *** >> http://localhost:18080/gridsam/services/gridsam?WSDL. >> *** >> >> but my firefox always prompts a download of such file, after >> download, i found it's empty... Then I try to visit the the parent >> page: >> >> *** >> http://localhost:18080/g >> and >> http://localhost:18080/gridsam/s >> *** >> >> Some other empty files are prompted for download. >> >> In conclusion) >> What's up?... Does it mean i fail to start GridSAM, or I have to >> install an individual gridsam, instead of bundled one within omii- >> installer? >> >> Regards >> ye >> >> -- >> >> Ye Huang, Department of Informatics >> University of Fribourg / Pérolles 2 - Bld de Pérolles 90 >> 1700 Fribourg, Switzerland >> >> e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... >> <mailto:ye....@un...> >> http://diuf.unifr.ch/people/huangy/ >> Office: +41 26 429 65 95 >> >> >> >> >> ------------------------------------------------------------------------ >> >> ------------------------------------------------------------------------- >> This SF.Net email is sponsored by the Moblin Your Move Developer's >> challenge >> Build the coolest Linux based applications with Moblin SDK & win >> great prizes >> Grand prize is a trip for two to an Open Source event anywhere in >> the world >> http://moblin-contest.org/redirect.php?banner_id=100&url=/ >> ------------------------------------------------------------------------ >> >> _______________________________________________ >> GridSAM-Discuss mailing list >> Gri...@li... >> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss >> -- Ye Huang, Department of Informatics University of Fribourg / Pérolles 2 - Bld de Pérolles 90 1700 Fribourg, Switzerland e-mail: ye....@he..., ye....@un... http://diuf.unifr.ch/people/huangy/ Office: +41 26 429 65 95 |
|
From: Vesselin N. <ve...@do...> - 2008-12-03 16:34:52
|
Hi Ye, If you've made your server/client installations with default configurations then, the communication between the omii-client and omii-server is secured. The server URL should start with 'https' not 'http'. --Vesso ye huang wrote: > Hi, Dear all: > I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, it > seems the installation works. During the installation, I selected to > install the integrated Software Component: GridSAM2.0.2, on both > omii-server-3.4.2 and omii-client-3.4.2. > > Then, I try to follow GridSAM quick start as follows: > > 1) I started GridSAM service: > *** > ye-Mac:bin yehuang$ ./startomii.sh > Starting up tomcat > Using JRE_HOME: /Library/Java/Home > Waiting for container....!.. Container started. > *** > > Due the logged information, it seems server is started properly: > *** > 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM > machinery initialising... > 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module > description from classpath jobmanager.xml > 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM > machinery initialised > *** > > 2) Then I try to submit the jsdl sample from quick start, which prompts: > > *** > ye-Mac:bin yehuang$ pwd > /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin > ye-Mac:bin yehuang$ ./gridsam-submit -s > "http://localhost:18080/gridsam/services/gridsam" > /Users/yehuang/test/helloworld.jsdl > 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to submit > job: failed to submit job: ; nested exception is: > org.apache.commons.httpclient.ProtocolException: The server localhost > failed to respond with a valid HTTP response > *** > > 3) Above information seems to shown the submission is correct, but the > server behaves strangely. I try to browse the wsdl of gridsam, > > *** > http://localhost:18080/gridsam/services/gridsam?WSDL. > *** > > but my firefox always prompts a download of such file, after download, > i found it's empty... Then I try to visit the the parent page: > > *** > http://localhost:18080/g > and > http://localhost:18080/gridsam/s > *** > > Some other empty files are prompted for download. > > In conclusion) > What's up?... Does it mean i fail to start GridSAM, or I have to > install an individual gridsam, instead of bundled one within > omii-installer? > > Regards > ye > > -- > > Ye Huang, Department of Informatics > University of Fribourg / Pérolles 2 - Bld de Pérolles 90 > 1700 Fribourg, Switzerland > > e-mail: ye....@he... <mailto:ye....@he...>, ye....@un... > <mailto:ye....@un...> > http://diuf.unifr.ch/people/huangy/ > Office: +41 26 429 65 95 > > > > > ------------------------------------------------------------------------ > > ------------------------------------------------------------------------- > This SF.Net email is sponsored by the Moblin Your Move Developer's challenge > Build the coolest Linux based applications with Moblin SDK & win great prizes > Grand prize is a trip for two to an Open Source event anywhere in the world > http://moblin-contest.org/redirect.php?banner_id=100&url=/ > ------------------------------------------------------------------------ > > _______________________________________________ > GridSAM-Discuss mailing list > Gri...@li... > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss > |
|
From: ye h. <hua...@gm...> - 2008-12-03 14:37:55
|
Hi, Dear all: I installed omii-3.4-server and omii-client-3.4.2 on my mac osx, it seems the installation works. During the installation, I selected to install the integrated Software Component: GridSAM2.0.2, on both omii- server-3.4.2 and omii-client-3.4.2. Then, I try to follow GridSAM quick start as follows: 1) I started GridSAM service: *** ye-Mac:bin yehuang$ ./startomii.sh Starting up tomcat Using JRE_HOME: /Library/Java/Home Waiting for container....!.. Container started. *** Due the logged information, it seems server is started properly: *** 2008-12-03 15:13:26,921 INFO [JobManagerConfigurator] GridSAM machinery initialising... 2008-12-03 15:13:26,985 INFO [ResourceRegistry] loading module description from classpath jobmanager.xml 2008-12-03 15:13:29,173 INFO [JobManagerConfigurator] GridSAM machinery initialised *** 2) Then I try to submit the jsdl sample from quick start, which prompts: *** ye-Mac:bin yehuang$ pwd /Users/yehuang/app/OMIICLIENT_HOME/omii-uk-client/gridsam/bin ye-Mac:bin yehuang$ ./gridsam-submit -s "http://localhost:18080/gridsam/services/gridsam " /Users/yehuang/test/helloworld.jsdl 2008-12-03 15:11:58,846 FATAL [GridSAMSubmit] (main:) unable to submit job: failed to submit job: ; nested exception is: org.apache.commons.httpclient.ProtocolException: The server localhost failed to respond with a valid HTTP response *** 3) Above information seems to shown the submission is correct, but the server behaves strangely. I try to browse the wsdl of gridsam, *** http://localhost:18080/gridsam/services/gridsam?WSDL. *** but my firefox always prompts a download of such file, after download, i found it's empty... Then I try to visit the the parent page: *** http://localhost:18080/g and http://localhost:18080/gridsam/s *** Some other empty files are prompted for download. In conclusion) What's up?... Does it mean i fail to start GridSAM, or I have to install an individual gridsam, instead of bundled one within omii- installer? Regards ye -- Ye Huang, Department of Informatics University of Fribourg / Pérolles 2 - Bld de Pérolles 90 1700 Fribourg, Switzerland e-mail: ye....@he..., ye....@un... http://diuf.unifr.ch/people/huangy/ Office: +41 26 429 65 95 |
|
From: Stephen M. <as...@do...> - 2008-11-21 07:17:48
|
Dear Yoshikazu Tanaka,
You have correctly understood the way to set the jobmanager. If I
understand the rest of your question you are asking if you can get
GridSAM to choose a particular jobmanager? GridSAM is designed as a
deployment interface and as such does not provide a brokering /
scheduling service. You can have a GridSAM instance pointing at each
globus jobmanager but you would need a separate broker / scheduler to
select between these.
You are correct that the SGE DRMConnector for GridSAM submits jobs as
the installer of GridSAM. However, the PBS/LSF DRMConnector developed by
a third party is capable of changing the user of the jobs submitted. It
is planned to extend this functionality to SGE.
Hope this helps,
steve..
田中 義一 wrote:
> Dear Dr. Stephen McGough, hopesophite ;
>
> Thank you for your quick response.
> I have understood that we only change the content of jobmanager.xml in ${gridsam.home}/WEB-INF/classes and restart the GridSAM.
>
> Is it true that default globus-jobmanager in globus setting
> file($GLOBUS/erc/grid-service/..) is called and gridsam cannot select
> globus jobmanager?
>
>
>> You may also wish to consider using GridSAM to submit directly to PBS, LSF, SGE or Fork directly without the use of Globus,
>>
>
> We would like to use GSI authentication in job-execution. If submit job
> directory to SGE use GridSAM, execution is done under local id running GridSAM.
>
> NAREGI(Center for Grid Research and Development)
> Yoshikazu Tanaka
>
>
> Stephen McGough wrote:
>
>> Dear Yoshikazu Tanaka,
>>
>> The GridSAM project is independent from the Globus jobmanager and as such is unaware of the differences between the different Globus back-ends. When you submit a job to Globus through GridSAM the standard interface to Globus is used and the endpoint that GridSAM submits to is the only indication of what back-end Globus is submitting to. As long as the Globus endpoint conforms to the normal Globus interface you should be able to submit to any Globus jobmanager.
>>
>> You may also wish to consider using GridSAM to submit directly to PBS, LSF, SGE or Fork directly without the use of Globus,
>>
>> steve..
>>
>>
>>
>> 逕ー荳ュ縲€鄒ゥ荳€ wrote:
>>
>>> I have made a mistake to send this mail gri...@li....
>>>
>>>
>>> I have a question about GridSAM jobmanager.
>>>
>>> I have confirmed that I can submit a job using globus(Fork)
>>> via GridSAM.
>>>
>>> Can we submit a job using globus(+PBS or +SGE) jobmanger?
>>> I would like to know whether globus jobmanager(fork,psb,sge) is
>>> independent of gridsam-jobmanager(globus) or not.
>>>
>>> NAREGI(Center for Grid Research and Development)
>>> Yoshikazu Tanaka
>>>
>>> -------------------------------------------------------------------------
>>> This SF.Net email is sponsored by the Moblin Your Move Developer's challenge
>>> Build the coolest Linux based applications with Moblin SDK & win great prizes
>>> Grand prize is a trip for two to an Open Source event anywhere in the world
>>> http://moblin-contest.org/redirect.php?banner_id=100&url=/
>>> _______________________________________________
>>> GridSAM-Discuss mailing list
>>> Gri...@li...
>>> https://lists.sourceforge.net/lists/listinfo/gridsam-discuss
>>>
>>>
>> --
>> ------------------------------------------------------------------------
>> Dr A. Stephen McGough http://www.doc.ic.ac.uk/~asm
>> ------------------------------------------------------------------------
>> Technical Coordinator, London e-Science Centre, Imperial College London,
>> Department of Computing, 180 Queen's Gate, London SW7 2BZ, UK
>> tel: +44 (0)207-594-8409 fax: +44 (0)207-581-8024
>> ------------------------------------------------------------------------
>>
>>
>>
>
>
--
------------------------------------------------------------------------
Dr A. Stephen McGough http://www.doc.ic.ac.uk/~asm
------------------------------------------------------------------------
Technical Coordinator, London e-Science Centre, Imperial College London,
Department of Computing, 180 Queen's Gate, London SW7 2BZ, UK
tel: +44 (0)207-594-8409 fax: +44 (0)207-581-8024
------------------------------------------------------------------------
|
|
From: 田中 義一 <yt...@gr...> - 2008-11-21 05:21:54
|
Dear Dr. Stephen McGough, hopesophite ;
Thank you for your quick response.
I have understood that we only change the content of jobmanager.xml in ${gridsam.home}/WEB-INF/classes and restart the GridSAM.
Is it true that default globus-jobmanager in globus setting
file($GLOBUS/erc/grid-service/..) is called and gridsam cannot select
globus jobmanager?
> You may also wish to consider using GridSAM to submit directly to PBS, LSF, SGE or Fork directly without the use of Globus,
We would like to use GSI authentication in job-execution. If submit job
directory to SGE use GridSAM, execution is done under local id running GridSAM.
NAREGI(Center for Grid Research and Development)
Yoshikazu Tanaka
Stephen McGough wrote:
> Dear Yoshikazu Tanaka,
>
> The GridSAM project is independent from the Globus jobmanager and as such is unaware of the differences between the different Globus back-ends. When you submit a job to Globus through GridSAM the standard interface to Globus is used and the endpoint that GridSAM submits to is the only indication of what back-end Globus is submitting to. As long as the Globus endpoint conforms to the normal Globus interface you should be able to submit to any Globus jobmanager.
>
> You may also wish to consider using GridSAM to submit directly to PBS, LSF, SGE or Fork directly without the use of Globus,
>
> steve..
>
>
>
> 逕ー荳ュ縲€鄒ゥ荳€ wrote:
> > I have made a mistake to send this mail gri...@li....
> >
> >
> > I have a question about GridSAM jobmanager.
> >
> > I have confirmed that I can submit a job using globus(Fork)
> > via GridSAM.
> >
> > Can we submit a job using globus(+PBS or +SGE) jobmanger?
> > I would like to know whether globus jobmanager(fork,psb,sge) is
> > independent of gridsam-jobmanager(globus) or not.
> >
> > NAREGI(Center for Grid Research and Development)
> > Yoshikazu Tanaka
> >
> > -------------------------------------------------------------------------
> > This SF.Net email is sponsored by the Moblin Your Move Developer's challenge
> > Build the coolest Linux based applications with Moblin SDK & win great prizes
> > Grand prize is a trip for two to an Open Source event anywhere in the world
> > http://moblin-contest.org/redirect.php?banner_id=100&url=/
> > _______________________________________________
> > GridSAM-Discuss mailing list
> > Gri...@li...
> > https://lists.sourceforge.net/lists/listinfo/gridsam-discuss
> >
>
> --
> ------------------------------------------------------------------------
> Dr A. Stephen McGough http://www.doc.ic.ac.uk/~asm
> ------------------------------------------------------------------------
> Technical Coordinator, London e-Science Centre, Imperial College London,
> Department of Computing, 180 Queen's Gate, London SW7 2BZ, UK
> tel: +44 (0)207-594-8409 fax: +44 (0)207-581-8024
> ------------------------------------------------------------------------
>
>
|
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