Slicer3:Grid Integration - Revision history

Grundlett: Text replacement - "http://www.slicer.org/slicerWiki/index.php/" to "https://www.slicer.org/wiki/"

2017-07-10T17:35:55Z

Text replacement - "http://www.slicer.org/slicerWiki/index.php/" to "https://www.slicer.org/wiki/"

Marianna: Protected "Slicer3:Grid Integration" [edit=sysop:move=sysop]

2008-05-22T16:10:11Z

Protected "Slicer3:Grid Integration" [edit=sysop:move=sysop]

Marianna: Unprotected "Slicer3:Grid Integration"

2008-05-19T20:46:12Z

Unprotected "Slicer3:Grid Integration"

Marianna at 20:46, 19 May 2008

2008-05-19T20:46:03Z

Lorensen at 20:35, 27 December 2006

2006-12-27T20:35:15Z

Andy: Update from Wiki

2006-12-18T13:29:45Z

Update from Wiki

New page

'''Project'''<nowiki>: Integration of NAMIC Kit and the 'Grid' </nowiki>

'''Goals'''<nowiki>: </nowiki>

* Supply Grid execution components to [[Slicer3:Execution_Model:|Slicer3 Execution Model]]
* Clearly define expectations and dependencies for grid execution

'''Current Status'''<nowiki>: </nowiki>

* Validation as primary use case for grid

# Create JSON-aware Grid component to interface with NAMIC executables
# parameter sweep through quality / contrast space using [http://www.na-mic.org:8000/websvn/filedetails.php?repname=NAMICSandBox&path=%2FNonRigidRegistrationForEchoPlanarImaging%2FMultiModalityRigidRegistrationCommand.cxx&rev=0&sc=0: NonRigidRegistrationForEchoPlanarImaging]

'''Current Tools'''

* condor_submission page can be found [[Engineering:Project:Condor_Job_Submission#Syntax_Strawman:|here]]

namic-submit [--save-submit-file <submitfile>] [--job-directory <jobdir>] <cmd> [<args>...]

where:

* ''submitfile'' is a condor job submit file; if not specified a temp file is generated
* ''jobdir'' is a working state directory for a set of submissions that you want to later observe with namic-wait or manually inspect
* ''cmd'' is a shell script or executable that can be run on the remote environment
* ''args'' are arguments to the cmd

functionality: namic-submit takes the given command and args and runs the job on a condor-determined external compute node. By default stdin, stdout, and stderr of the ''cmd'' are mapped to the corresponding files of namic-submit.

If srb proxy is not set up, namic-submit prompts you for srb user id and password and sets up proxy.

namic-wait [--job-directory <jobdir>] [<groupid>]

where:

* ''jobdir'' is a directory that corresponds to the state for jobs submitted by namic-submit

functionality: namic-wait blocks until all jobs submitted with the given groupid have completed running

<br />

'''Team Members'''<nowiki>: </nowiki>

* Jeff Grethe- UCSD
* Brendan Faherty - UCSD
* Steve Pieper - BWH
* Daniel Blezek - GE

← Older revision		Revision as of 17:35, 10 July 2017
Line 1:		Line 1:
−	<big>'''Note:''' We are migrating this content to the slicer.org domain - <font color="orange">The newer page is [~~http~~://www.slicer.org/~~slicerWiki/index.php~~/Slicer3:Grid_Integration here]</font></big>a	+	<big>'''Note:''' We are migrating this content to the slicer.org domain - <font color="orange">The newer page is [https://www.slicer.org/wiki/Slicer3:Grid_Integration here]</font></big>a

← Older revision		Revision as of 20:46, 19 May 2008
Line 1:		Line 1:
−	~~'''Project'''~~<~~nowiki~~>~~: Integration of NAMIC Kit and the~~ '~~Grid~~' ~~</nowiki>~~	+	<big>'''Note:''' We are migrating this content to the slicer.org domain - <font color="orange">The newer page is [http://www.slicer.org/slicerWiki/index.php/Slicer3:Grid_Integration here]</font></big>a
−
−	'''~~Goals~~'~~''<nowiki>: </nowiki>~~
−
−	* Supply Grid execution components to ~~[[Slicer3:Execution_Model\|Slicer3 Execution Model]]~~
−	* Clearly define expectations and dependencies for grid execution
−
−	~~'''Current Status'''~~<~~nowiki~~>~~: </nowiki>~~
−
−	* Validation as primary use case for grid
−
−	~~# Create JSON-aware Grid component to interface with NAMIC executables~~
−	~~# parameter sweep through quality / contrast space using~~ [http://www.~~na-mic~~.org~~:8000~~/~~websvn~~/~~filedetails~~.php~~?repname=NAMICSandBox&path=%2FNonRigidRegistrationForEchoPlanarImaging%2FMultiModalityRigidRegistrationCommand.cxx&rev=0&sc=0~~: ~~NonRigidRegistrationForEchoPlanarImaging]~~
−
−	~~'''Current Tools'''~~
−
−	* condor_submission page can be found [[Engineering:Project:Condor_Job_Submission#Syntax_Strawman:\|here]]
−
−	~~namic-submit [--save-submit-file <submitfile>] [--job-directory <jobdir>] <cmd> [<args>...]~~
−
−	~~where:~~
−
−	* ''submitfile'' is a condor job submit file; if not specified a temp file is generated
−	* ''jobdir'' is a working state directory for a set of submissions that you want to later observe with namic-wait or manually inspect
−	* ''cmd'' is a shell script or executable that can be run on the remote environment
−	* ''args'' are arguments to the cmd
−
−	functionality: namic-submit takes the given command and args and runs the job on a condor-determined external compute node. By default stdin, stdout, and stderr of the ''cmd'' are mapped to the corresponding files of namic-submit.
−
−	~~If srb proxy is not set up, namic-submit prompts you for srb user id and password and sets up proxy.~~
−
−	~~namic-wait [--job-directory <jobdir>] [~~<~~groupid>]~~
−
−	~~where:~~
−
−	* ''jobdir'' is a directory that corresponds to the state for jobs submitted by namic-submit
−
−	~~functionality: namic-wait blocks until all jobs submitted with the given groupid have completed running~~
−
−	~~<br~~ />
−
−	~~'''Team Members'''<nowiki>:~~ </~~nowiki~~>
−
−	* Jeff Grethe- UCSD
−	* Brendan Faherty - UCSD
−	* Steve Pieper - BWH
−	* Daniel Blezek - GE

← Older revision	Revision as of 16:10, 22 May 2008
(No difference)

@@ Line 3: / Line 3: @@
 '''Goals'''<nowiki>: </nowiki>
-* Supply Grid execution components to [[Slicer3:Execution_Model:|Slicer3 Execution Model]]
+* Supply Grid execution components to [[Slicer3:Execution_Model|Slicer3 Execution Model]]
 * Clearly define expectations and dependencies for grid execution