Re: [Condor-users] Chirp/Parrot for Job Submission (R software)

["Natarajan, Senthil" <senthil@xxxxxxxx>]

Hi Adam,

Thanks for showing interest.

 

It is working but didn’t solve the purpose. Meaning, we have different flavor of Linux, so If I set up the R software on Red hat Enterprise Linux, suppose if the job is running on node which has different flavor of Linux then the job fails because of operating system specifics R software libraries.

 

It looks like I need to set up R for each machine according to operating system. I was wondering once you install R on a particular node, how do you notify condor that node has R software, and how to specify the path in Condor to run R software. And also how to specify in the condor job submit file the job needs R software. It will be great if you could please let me know.

Thanks,

Senthil

 

 

 

---

From: Adam Bazinet [mailto:pknut777@xxxxxxxxx]
Sent: Tuesday, November 14, 2006 6:01 PM
To: Natarajan, Senthil
Subject: Re: [Condor-users] Chirp/Parrot for Job Submission (R software)

 

Hi Senthil,

 

We typically install R locally on each machine we want to run it on through Condor.  However, if you find some workaround using this (Chirp/Parrot) thing you speak of, I would be highly interested in a pointer.  Best of luck,

 

Adam

----- Original Message -----

From: Natarajan, Senthil

To: dan@xxxxxxxxxxxx ; dthain@xxxxxxxxxx

Cc: Condor-Users Mail List ; condor-admin@xxxxxxxxxxx

Sent: Tuesday, November 14, 2006 5:39 PM

Subject: [Condor-users] Chirp/Parrot for Job Submission (R software)

 

Hi Dan/Douglas,

I am trying to submit R software (Statistical Software) Job to condor.

The problem is I don’t have shared file system and hence the job fails while executing on the remote node (which doesn’t have R installed, and also we don’t know the path etc). So I was wondering if I installed R software on Chirp Server, which also running in the same machine as condor central manager (job submitting node), the job running on the remote node can use R software through Parrot on the Chirp server. Is it possible? Please let me know if you have any better suggestion for this problem.

Please let me know.

 

So the job submission will look something like this.

 

Original Job Specification

*****************************

Executable = /usr/lib/R/bin/R

arguments = --vanilla

universe = vanilla

Log = Ra0.log

notification = error

input = a0

output = a0.Rout

error =Ra0.err

should_transfer_files = YES

when_to_transfer_output = ON_EXIT

Queue

 

Job Specification with Chirp and Parrot

*********************************************

Executable = parrot

arguments = -H R --vanilla

universe = vanilla

Log = Ra0.log

environment = LD_LIBRARY_PATH=/chirp/servername/library

notification = error

input = a0

output = a0.Rout

error =Ra0.err

should_transfer_files = YES

when_to_transfer_output = ON_EXIT

Queue

 

Thanks,

Senthil

 

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