biolocal:GridUse - Revision history

Gianluca: Bioinfolocal:gridUse moved to biolocal:GridUse: moving to the right namespace

2008-02-18T10:54:45Z

Bioinfolocal:gridUse moved to biolocal:GridUse: moving to the right namespace

←Older revision

Revision as of 10:54, 18 February 2008

Luca at 17:08, 6 February 2008

2008-02-06T17:08:54Z

←Older revision		Revision as of 17:08, 6 February 2008
Line 57:		Line 57:
	edg-job-get-output https://scoperb01.dsf.unina.it:9000/DXWtFSVPAjfLeAIBlRcfdw		edg-job-get-output https://scoperb01.dsf.unina.it:9000/DXWtFSVPAjfLeAIBlRcfdw
	</pre>		</pre>
		+
		+	[http://mediawiki.ceinge.unina.it/files/JDL-Attributes-v0-8.pdf JDL Manual]

Gianluca at 16:53, 13 November 2007

2007-11-13T16:53:04Z

←Older revision		Revision as of 16:53, 13 November 2007
Line 8:		Line 8:
	In the image, a certificate file will be generated and should be uploaded on the bioinfoaccess server:		In the image, a certificate file will be generated and should be uploaded on the bioinfoaccess server:

		+	<pre>
	scp myCertificate.p12 gianluca@bioinfoaccess.ceinge.unina.it:		scp myCertificate.p12 gianluca@bioinfoaccess.ceinge.unina.it:
		+	</pre>

	On the bioinfo access server, some commands should still be used to have the personal certificate installed correctly:		On the bioinfo access server, some commands should still be used to have the personal certificate installed correctly:

Gianluca at 16:37, 13 November 2007

2007-11-13T16:37:18Z

←Older revision		Revision as of 16:37, 13 November 2007
Line 1:		Line 1:
	'''Setup the access to the grid'''		'''Setup the access to the grid'''

-	The bioinfoaccess server can ~~also~~ be used to access the SCOPE grid, using the personal certificate, properly installed and initialized.	+	The bioinfoaccess server can be used to access the SCOPE grid, by using the personal certificate, properly installed and initialized.
	If you have your personal certificate already installed in your browser, export it as file and save it in your home directory, under the .globus directory.		If you have your personal certificate already installed in your browser, export it as file and save it in your home directory, under the .globus directory.

Gianluca: New page: '''Setup the access to the grid''' The bioinfoaccess server can also be used to access the SCOPE grid, using the personal certificate, properly installed and initialized. If you have your...

2007-11-13T16:35:49Z

New page: '''Setup the access to the grid''' The bioinfoaccess server can also be used to access the SCOPE grid, using the personal certificate, properly installed and initialized. If you have your...

New page

'''Setup the access to the grid'''

The bioinfoaccess server can also be used to access the SCOPE grid, using the personal certificate, properly installed and initialized.
If you have your personal certificate already installed in your browser, export it as file and save it in your home directory, under the .globus directory.

[[Image:Cert_download.jpg]]

In the image, a certificate file will be generated and should be uploaded on the bioinfoaccess server:

scp myCertificate.p12 gianluca@bioinfoaccess.ceinge.unina.it:

On the bioinfo access server, some commands should still be used to have the personal certificate installed correctly:

<pre>
mkdir .globus
cd .globus
openssl pkcs12 -nocerts -in ../myCertificate.p12 -out userkey.pem
openssl pkcs12 -clcerts -nokeys -in ../myCertificate.p12 -out usercert.pem
chmod 400 userkey.pem
chmod 600 usercert.pem
</pre>

The two openssl command are needed to extract the private and public key from the pk12 certificate file. Don't forget to change the access mode of the files!

The account is now configured to provide the correct credentials when the access to the grid is requested.

'''Access and use the grid'''

Before start submitting jobs to the grid, a new proxy certificate should be created in the scope VO:

<pre>
voms-proxy-init -voms scope
</pre>

To get information about the proxy certificate, use the voms-proxy-info command. Particularly useful to know the remaining time of validity.

To execute a job a jdl file should be compiled as follows:
<pre>
Executable = "/bin/echo";
Arguments = "Hello World";
StdOutput = "message.txt";
StdError = "stderror";
OutputSandbox = {"message.txt","stderror"};
</pre>
To submit and view the state of the job use the command:
<pre>
edg-job-submit test1.jdl
edg-job-status https://scoperb01.dsf.unina.it:9000/DXWtFSVPAjfLeAIBlRcfdw
</pre>

In the above example, after the submission a url is returned to refer to the submitted job. It is used to get the status.

When the state becomes "done", the result can be retreived with the command:
<pre>
edg-job-get-output https://scoperb01.dsf.unina.it:9000/DXWtFSVPAjfLeAIBlRcfdw
</pre>