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README
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Panfish
=======
NAME
Panfish - Multicluster job submission
SYNOPSIS
# stages data
panfishchum --path /home/foo -q myshadow.q
# submits a job
panfishcast -q myshadow.q myjob.sh
# check status using Open Grid Engine command
qstat ...
# retreives data
panfishland --path /home/foo -q myshadow.q
DESCRIPTION
Panfish is a tool that enables Open Grid Engine serial jobs to be run
on remote clusters.
In a standard usage scenario the user first uploads data to the
remote clusters via panfishchum. The user then invokes a Panfish
command panfishcast to submit their jobs. The user then monitors
the jobs via the id returned by the submission command using the qsub
command. Upon job completion the user invokes panfishland to
retrieve the data.
Run "perldoc Panfish" while in source directory before installation
for more documentation or visit:
https://github.com/CRBS/Panfish/wiki
DEPENDENCIES
* Linux (tested Centos 6)
* Perl 5.10+
* Bash 4+
* Ssh 5+
* Rsync 3+
* Open Grid Engine or Sun Grid Engine 6.1+
INSTALLATION
To install this module type the following:
# For alternate install location use PREFIX= on perl Makefile.PL
# command below
perl Makefile.PL
make
make test
make install
Visit https://github.com/CRBS/Panfish/wiki
for setup instructions.
COPYRIGHT AND LICENCE
Copyright 2013 The Regents of the University of California All Rights Reserved
Permission to copy, modify and distribute any part of this Panfish for educational, research and non-profit purposes, without fee, and without a written agreement is hereby granted, provided that the above copyright notice, this paragraph and the following three paragraphs appear in all copies.
Those desiring to incorporate this Panfish into commercial products or use for commercial purposes should contact the Technology Transfer Office, University of California, San Diego, 9500 Gilman Drive, Mail Code 0910, La Jolla, CA 92093-0910, Ph: (858) 534-5815, FAX: (858) 534-7345, E-MAIL:[email protected].
IN NO EVENT SHALL THE UNIVERSITY OF CALIFORNIA BE LIABLE TO ANY PARTY FOR DIRECT, INDIRECT, SPECIAL, INCIDENTAL, OR CONSEQUENTIAL DAMAGES, INCLUDING LOST PROFITS, ARISING OUT OF THE USE OF THIS Panfish, EVEN IF THE UNIVERSITY OF CALIFORNIA HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
THE Panfish PROVIDED HEREIN IS ON AN "AS IS" BASIS, AND THE UNIVERSITY OF CALIFORNIA HAS NO OBLIGATION TO PROVIDE MAINTENANCE, SUPPORT, UPDATES, ENHANCEMENTS, OR MODIFICATIONS. THE UNIVERSITY OF CALIFORNIA MAKES NO REPRESENTATIONS AND EXTENDS NO WARRANTIES OF ANY KIND, EITHER IMPLIED OR EXPRESS, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE, OR THAT THE USE OF THE Panfish WILL NOT INFRINGE ANY PATENT, TRADEMARK OR OTHER RIGHTS.