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- ...certificate from the Dutchgrid CA run by [http://www.nikhef.nl NIKHEF] or the Terena CA. The initial step is to request a digital certificate, this can be done in sever2 KB (318 words) - 12:24, 28 June 2011
- == Grid Storage Illustration == [[image:surlturllfnguid.png|thumb|none|600px|Illustration of grid storage]]9 KB (1,509 words) - 12:57, 28 June 2011
- ...LDAP-based. In this chapter we will discuss the commandline tools to query the information system. ...there are also several monitoring pages that monitor the operation of the grid. These pages will also be discussed.2 KB (290 words) - 13:00, 28 June 2011
- ...uggestions, links, documentation requests to: [mailto:grid.support@sara.nl grid support]}} = Getting Access to the Grid =5 KB (713 words) - 13:18, 17 August 2011
- *Problem: You want to replicate a file to all the existing storage elements *Solution: Use the following script.993 bytes (155 words) - 12:58, 28 June 2011
- ...you submit to the Grid you may find yourself writing software which checks the status of all those jobs and tries to find out which ones have succeeded an ...e. For every jobsubmission this database then has to be copied to the node the job is running on. This introduces a large overhead per job.7 KB (1,277 words) - 12:45, 28 June 2011
- ...VO. To find out the which queues are available on which CE's, please issue the command: At this moment the following Python modules are installed:2 KB (344 words) - 12:54, 28 June 2011
- ...surface from structural MRI data, and overlay of functional MRI data onto the reconstructed surface <ref>http://surfer.nmr.mgh.harvard.edu/</ref> Freesurfer is installed as LSGRID VO software. When you are a member of the LSGRID VO Freesurfer is available; upon request it can be made available to1 KB (201 words) - 12:54, 28 June 2011
- ...ing it to the .globus directory of your user interface account and setting the permissions correctly. Since you can get your certificate in different ways ...wiki/index.php/JGridstart/Help/Copy_certificate Exporting your certificate using JGridStart]5 KB (830 words) - 12:24, 28 June 2011
- ...g for a [[Virtual Organization]] ([[VO]]), you will need to install your [[Grid Certificate]] in your browser. This enable you to authenticate yourself whe === Using JGridstart ===5 KB (776 words) - 12:26, 28 June 2011
- ...st of all the VO's available in the NL-Grid infrastructure can be found on the website mentioned below. Incase you have no clue which VO to apply for, you ...(see the page about [[Using the Grid/Getting a Grid certificate|Getting a Grid certificate]] for further details).3 KB (473 words) - 12:26, 28 June 2011
- The easiest way to start a session on the LifeScience Grid is to use the script "startGridSession <VO Name>". # store it in the Myproxy server2 KB (401 words) - 12:29, 28 June 2011
- *Problem: you want to specify conditions or constraints on the machines which execute your job. *Solution: use the Requirements attribute in your JDL description.1 KB (217 words) - 12:38, 28 June 2011
- ...ing passwords (Physically, this proxy is a file owned by you and placed in the /tmp directory. You never have to deal with this file directly). ...icate is a short lived certificate which is used to perform actions on the Grid on your behalf. You can read more at http://www.globus.org/alliance/publica3 KB (550 words) - 12:30, 28 June 2011
- In the virtual laboratory for e-science (VL-e) project, a VL-e toolkit has been de Background an more detailed information can be found on the [[#Links | vbrowser homepage]].2 KB (341 words) - 12:59, 28 June 2011
- This stores a proxy certificate in the proxy server where it will issue new proxy certificates in your name for a [[category:grid]]278 bytes (40 words) - 12:31, 28 June 2011
- ...lid for the jobs to start. In that case your proxy certificate expired and the jobs will fail. *Use: Before submitting jobs to the grid3 KB (422 words) - 12:33, 28 June 2011
- ...nodes) and for user interface machines, to make sure the same versions of the software are used everywhere." ...modules can be loaded from within a job; the modules are also installed on the UI machines; for testing and debugging purposes.3 KB (321 words) - 12:53, 28 June 2011
- ...use of Wallclock time. If your jobs occupies a workernode for longer then the specified queue allows, your job will be aborted. ...te the expected [[wallclock]] time (the time your job will need to run) in the Job Description.2 KB (274 words) - 13:06, 28 June 2011
- This page shows how to create and submit a simple job to the grid using the WMS. Interacting with the WMS is done using the glite-wms-* commands.5 KB (838 words) - 12:34, 28 June 2011
- ...iated with Dutch universities and institutes are eligible for using the NL Grid infrastructure; ...received the right credentials (i.e. an account on a user interface and a grid certificate) you are set to go.3 KB (535 words) - 12:23, 28 June 2011
- These links point to various status tools to monitor the grid systems status. * [https://www.nikhef.nl/grid/stats/ Statistics NIKHEF facility]697 bytes (102 words) - 13:15, 28 June 2011
- *Problem: You want to know the status of the jobs you have submitted. *First: [[Using the Grid/Job submission|Submit your jobs and keep your jobids]].3 KB (363 words) - 12:34, 28 June 2011
- ...atlab on the grid. This page explains how to get set up on the Lifescience Grid. ...jdl job description. You will need adapt your code to run properly on the grid nodes.5 KB (847 words) - 12:51, 28 June 2011
- To use the Grid you will need to connect to it. ...id environment which allows you almost all of the operations you can do on the linux command line.2 KB (308 words) - 12:23, 28 June 2011
- *Problem: you want to get the output of your job. ...completed. See in [[Using the Grid/Job status|"Job status"]] how to check the status of your jobs.3 KB (351 words) - 12:35, 28 June 2011
- ...l one or more of the [[Using the Grid/Job submission|jobs submitted]]. Use the following command: ...s command has an ''-i'' option which uses a file with jobIDs as arguments. The following example shows it's use.2 KB (236 words) - 12:35, 28 June 2011
- This is a short overview of the commands needed to handle simple jobs: '''To submit jobs using your delegated credentials:'''473 bytes (73 words) - 12:36, 28 June 2011
- ...not available on a Grid node, so you need to specify any files you need in the JDL file. {{NOTE|To prevent that all examples will end up in the same directory: make a seperate directory "example_sleepjob" and work from3 KB (409 words) - 12:36, 28 June 2011
- You can find them here: https://grid.ct.infn.it/twiki/bin/view/GILDA/Lcg-rec-tools Most likely they are already installed in the /usr/bin directory of the UI.2 KB (383 words) - 12:57, 28 June 2011
- *Problem: you want to execute your own binary program on the grid. ...n short, this script provides the correct environment for the execution of the binary.3 KB (437 words) - 12:37, 28 June 2011
- The logical file catalog is a place where you register files, so you can find t ...you don't have any other replica's, you end up with only a registration in the lfc.2 KB (294 words) - 12:58, 28 June 2011
- {{NOTE|We advice you to use the following workaround: Now follows the original method:2 KB (280 words) - 12:38, 28 June 2011
- ...mands. These commands, and the storage system in general, are explained in the [[Grid_storage|section on datamanagement]]. Here we give an example of how ...his attribute is a list of classads representing the data requirements for the job. Each classad has to contain three attributes :7 KB (1,095 words) - 12:39, 28 June 2011
- ...re nodes, your job can only run on larger clusters. Currently that will be the cluster in Groningen and Gina. ...ors of MPI available, however MPICH and OpenMPI are the most common on the Grid.4 KB (455 words) - 12:50, 28 June 2011
Page text matches
- ...list of grid-related acronyms is the '''Grid Acronym Soup''' maintained by the people from GridPP: [[category:grid]]236 bytes (35 words) - 13:05, 28 June 2011
- * [[vBrowser]]: a tool for browsing the grid * [[jGridstart]]: getting a grid certificate easily488 bytes (59 words) - 18:08, 10 May 2012
- These links point to various status tools to monitor the grid systems status. * [https://www.nikhef.nl/grid/stats/ Statistics NIKHEF facility]697 bytes (102 words) - 13:15, 28 June 2011
- ...ou submit your jobs. Using the <tt>glite-wms-*</tt> commands you can query the WMS. ...s available on a Grid. WMS assigns user jobs to CEs and SEs belonging to a Grid environment in a convenient fashion, so that:764 bytes (120 words) - 13:03, 28 June 2011
- '''Welcome to the BiG Grid Wiki''' ...to easily share information with other BiG Grid project members and/or BiG Grid user communities.1 KB (160 words) - 11:00, 10 May 2012
- When using any of the lfc-* commands, you get this error: $ lfc-ls /grid414 bytes (63 words) - 12:59, 28 June 2011
- ..._Shell | SSH]] or [[GSISSH]]. On this computer you can, amongst others, do the following things: *access Grid resources1 KB (206 words) - 13:01, 28 June 2011
- ...level BDIIs''', which hold information about all services available on the grid. ...e <tt>LCG_GFAL_INFOSYS</tt>. Wherever in this documentation is referred to the BDII, a top-level BDII is meant.800 bytes (130 words) - 13:04, 28 June 2011
- ...can be mapped onto a physical location like '''srm://srm.grid.sara.nl/pnfs/grid.sara.nl/data/myvo/thisdirectory/thisfile'''. ...and a global LFC that can hold references to files stored anywhere on the grid.624 bytes (113 words) - 13:04, 28 June 2011
- ...y distributed people that have common objectives and that are using shared grid resources to achieve them. ...nds of research communities. See [[Using the Grid/VO membership|here]] for the procedure how to join a VO.754 bytes (107 words) - 13:05, 28 June 2011
- '''Welcome to the ET Wiki Page''' ...vise of the Operations Steering Team, and for advise to the directorate on the allocation of support and development effort.730 bytes (115 words) - 09:51, 15 November 2010
- To use the Grid you will need to connect to it. ...id environment which allows you almost all of the operations you can do on the linux command line.2 KB (308 words) - 12:23, 28 June 2011
- ...st of all the VO's available in the NL-Grid infrastructure can be found on the website mentioned below. Incase you have no clue which VO to apply for, you ...(see the page about [[Using the Grid/Getting a Grid certificate|Getting a Grid certificate]] for further details).3 KB (473 words) - 12:26, 28 June 2011
- ...a list of permissions which specify who is allowed to access or modify it. The permissions are very much like those of a UNIX file system: read (r), write * the maximum permissions granted to specific users or groups (mask).3 KB (560 words) - 12:57, 28 June 2011
- ...iated with Dutch universities and institutes are eligible for using the NL Grid infrastructure; ...received the right credentials (i.e. an account on a user interface and a grid certificate) you are set to go.3 KB (535 words) - 12:23, 28 June 2011
- ...anagement project is to allow DANS to reliably back up their data onto BiG Grid storage resources. 'Reliably' means that the consistency of the data can be verified by DANS engineers at any given time. For this, a set o2 KB (297 words) - 13:22, 11 April 2013
- ...certificate from the Dutchgrid CA run by [http://www.nikhef.nl NIKHEF] or the Terena CA. The initial step is to request a digital certificate, this can be done in sever2 KB (318 words) - 12:24, 28 June 2011
- ...uggestions, links, documentation requests to: [mailto:grid.support@sara.nl grid support]}} = Getting Access to the Grid =5 KB (713 words) - 13:18, 17 August 2011
- The Virtual Resource Browser or VBrowser is the main front-end of the VL-e Toolkit ([[VLET]]).<br> It started in 2006 as a simple file browser for [[SRB]] and since then more (grid) file systems have been added.<br>1 KB (182 words) - 15:44, 20 April 2012
- .... It is the portal for all Life Scientists who want to make use of the BiG Grid infrastructure, its expertise and support. ...can approach the e-BioGrid core team with a request for support or use of the existing infrastructure.2 KB (381 words) - 16:04, 13 July 2011
- ...l one or more of the [[Using the Grid/Job submission|jobs submitted]]. Use the following command: ...s command has an ''-i'' option which uses a file with jobIDs as arguments. The following example shows it's use.2 KB (236 words) - 12:35, 28 June 2011
- ...LDAP-based. In this chapter we will discuss the commandline tools to query the information system. ...there are also several monitoring pages that monitor the operation of the grid. These pages will also be discussed.2 KB (290 words) - 13:00, 28 June 2011
- ==The BiG Grid R portal== ...and a module for R. Plus some tools and language bindings to interact with the jobs.3 KB (438 words) - 15:15, 19 July 2012
- The logical file catalog is a place where you register files, so you can find t ...you don't have any other replica's, you end up with only a registration in the lfc.2 KB (294 words) - 12:58, 28 June 2011
- ...lid for the jobs to start. In that case your proxy certificate expired and the jobs will fail. *Use: Before submitting jobs to the grid3 KB (422 words) - 12:33, 28 June 2011
- ...the tarballs have been uploaded to the grid, the next step is to compress the tarballs to so-called .tar.gz files to save space. This compression step is on the grid itself, hence we need to submit a set of jobs to the grid. The '<tt>compress-tar</tt>' script does this automatically.4 KB (744 words) - 14:26, 11 December 2012
- ...ing passwords (Physically, this proxy is a file owned by you and placed in the /tmp directory. You never have to deal with this file directly). ...icate is a short lived certificate which is used to perform actions on the Grid on your behalf. You can read more at http://www.globus.org/alliance/publica3 KB (550 words) - 12:30, 28 June 2011
- ...' or '''CE''' is capable of running user jobs. These jobs are submitted by the users either through a [[WMS]] or directly. [[Category:Grid]]164 bytes (26 words) - 13:02, 28 June 2011
- The easiest way to start a session on the LifeScience Grid is to use the script "startGridSession <VO Name>". # store it in the Myproxy server2 KB (401 words) - 12:29, 28 June 2011
- ...lsgrid VO, it also contains modules which can be used on the Life Science Grid. ...to be present you can either perform a check within your job script or use the Requirement field in your JDL file. When in trouble contact [[support]].2 KB (303 words) - 12:54, 28 June 2011
- ...rs an environment in which you can submit jobs, copy files to and from the Grid, create simple workflows etc. It is based on pure java and therefore can be ...for a UI. Therefore you do not need to login at another machine to use the Grid.4 KB (667 words) - 12:29, 28 June 2011
- ...t for the first time a special ''gridjobs'' directory needs to be created. The default location for this directory is is sufficient. Next, launch the '<tt>check-tar</tt>' script:5 KB (794 words) - 11:06, 28 November 2012
- *Problem: you want to execute your own binary program on the grid. ...n short, this script provides the correct environment for the execution of the binary.3 KB (437 words) - 12:37, 28 June 2011
- ...use of Wallclock time. If your jobs occupies a workernode for longer then the specified queue allows, your job will be aborted. ...te the expected [[wallclock]] time (the time your job will need to run) in the Job Description.2 KB (274 words) - 13:06, 28 June 2011
- {{NOTE|We advice you to use the following workaround: Now follows the original method:2 KB (280 words) - 12:38, 28 June 2011
- *Problem: You want to know the status of the jobs you have submitted. *First: [[Using the Grid/Job submission|Submit your jobs and keep your jobids]].3 KB (363 words) - 12:34, 28 June 2011
- The local '''Registration Authority''' is a role performed in the [[wikipedia:Public_key_infrastructure | Public Key Infrastructure]] The RA states, by signing your request form, that (s)he has verified your ident343 bytes (51 words) - 13:02, 28 June 2011
- ...VO. To find out the which queues are available on which CE's, please issue the command: At this moment the following Python modules are installed:2 KB (344 words) - 12:54, 28 June 2011
- In the virtual laboratory for e-science (VL-e) project, a VL-e toolkit has been de Background an more detailed information can be found on the [[#Links | vbrowser homepage]].2 KB (341 words) - 12:59, 28 June 2011
- This page shows how to create and submit a simple job to the grid using the WMS. Interacting with the WMS is done using the glite-wms-* commands.5 KB (838 words) - 12:34, 28 June 2011
- *Problem: You want to replicate a file to all the existing storage elements *Solution: Use the following script.993 bytes (155 words) - 12:58, 28 June 2011
- This stores a proxy certificate in the proxy server where it will issue new proxy certificates in your name for a [[category:grid]]278 bytes (40 words) - 12:31, 28 June 2011
- *Problem: you want to specify conditions or constraints on the machines which execute your job. *Solution: use the Requirements attribute in your JDL description.1 KB (217 words) - 12:38, 28 June 2011
- ...atlab on the grid. This page explains how to get set up on the Lifescience Grid. ...jdl job description. You will need adapt your code to run properly on the grid nodes.5 KB (847 words) - 12:51, 28 June 2011
- You may request support from (or complain) about SARA's GRID Services by contacting us by phone or by e-mail. We are available for you d * e-mail: [mailto:grid.support@sara.nl grid.support@sara.nl]2 KB (278 words) - 13:16, 28 June 2011
- ==Uploading DANS data to the grid== * create a new directory with the name of the archive. As an example we use the 'Crome' archive:413 bytes (69 words) - 11:47, 10 May 2012
- ...be used to design, build and understand the detector, as well as work with the supporting computing infrastructure to make this happen. ...see exists of matter that we know, built up of atoms. No less than 96% of the Universe however, exists of what we now call dark energy (72%) and dark mat5 KB (792 words) - 12:50, 29 July 2011
- ...re nodes, your job can only run on larger clusters. Currently that will be the cluster in Groningen and Gina. ...ors of MPI available, however MPICH and OpenMPI are the most common on the Grid.4 KB (455 words) - 12:50, 28 June 2011
- ...not available on a Grid node, so you need to specify any files you need in the JDL file. {{NOTE|To prevent that all examples will end up in the same directory: make a seperate directory "example_sleepjob" and work from3 KB (409 words) - 12:36, 28 June 2011
- ...nodes) and for user interface machines, to make sure the same versions of the software are used everywhere." ...modules can be loaded from within a job; the modules are also installed on the UI machines; for testing and debugging purposes.3 KB (321 words) - 12:53, 28 June 2011