02-10-2009
Hi Jim,
I have installed ancestrymap on Orchestra at harvard med school. The documentation for ancestrymap is located here:
http://genepath.med.harvard.edu/%7Ereich/onlineDoc.pdf
Orchestra allows me to use the program with ease, but I am not sure how to input and output data using the program installed on Orchestra (would like to use input from my home directory, run ancestrymap in orchestra using this input, then output analysis to my home directory). I have an account in Orchestra and am using a compute node to process.
Details on Orchestra are here:
High-Performance Computing (HPC)
Orchestra's HPC service provides flexible high performance computing power for computational research at Harvard Medical School in a cost effective and collaborative manner.
Orchestra runs a sophisticated resource and workload management package called Platform LSF. Rather than run computational jobs directly on orchestra, a user submits her jobs to LSF, which schedules and runs those jobs on the compute nodes that make up the cluster.
Thanks for your help!
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LEARN ABOUT REDHAT
gimp::net
Net(3) User Contributed Perl Documentation Net(3)
NAME
Gimp::Net - Communication module for the gimp-perl server.
SYNOPSIS
use Gimp;
DESCRIPTION
For Gimp::Net (and thus commandline and remote scripts) to work, you first have to install the "Perl-Server" extension somewhere where Gimp
can find it (e.g in your .gimp/plug-ins/ directory). Usually this is done automatically while installing the Gimp extension. If you have a
menu entry "<Xtns"/Perl-Server> then it is probably installed.
The Perl-Server can either be started from the "<Xtns"> menu in Gimp, or automatically when a perl script can't find a running Perl-Server.
When started from within The Gimp, the Perl-Server will create a unix domain socket to which local clients can connect. If an authorization
password is given to the Perl-Server (by defining the environment variable "GIMP_HOST" before starting The Gimp), it will also listen on a
tcp port (default 10009). Since the password is transmitted in cleartext, using the Perl-Server over tcp effectively lowers the security of
your network to the level of telnet. Even worse: the current Gimp::Net-protocol can be used for denial of service attacks, i.e. crashing
the Perl-Server. There also *might* be buffer-overflows (although I do care a lot for these).
ENVIRONMENT
The environment variable "GIMP_HOST" specifies the default server to contact and/or the password to use. The syntax is [auth@][tcp/]host-
name[:port] for tcp, [auth@]unix/local/socket/path for unix and spawn/ for a private gimp instance. Examples are:
www.yahoo.com # just kidding ;)
yahoo.com:11100 # non-standard port
tcp/yahoo.com # make sure it uses tcp
authorize@tcp/yahoo.com:123 # full-fledged specification
unix/tmp/unx # use unix domain socket
password@unix/tmp/test # additionally use a password
authorize@ # specify authorization only
spawn/ # use a private gimp instance
spawn/nodata # pass --no-data switch
spawn/gui # don't pass -n switch
CALLBACKS
net()
is called after we have succesfully connected to the server. Do your dirty work in this function, or see Gimp::Fu for a better solu-
tion.
FUNCTIONS
server_quit()
sends the perl server a quit command.
get_connection()
return a connection id which uniquely identifies the current connection.
set_connection(conn_id)
set the connection to use on subsequent commands. "conn_id" is the connection id as returned by get_connection().
BUGS
(Ver 0.04) This module is much faster than it ought to be... Silly that I wondered wether I should implement it in perl or C, since perl is
soo fast.
AUTHOR
Marc Lehmann <pcg@goof.com>
SEE ALSO
perl(1), Gimp.
perl v5.8.0 2001-12-06 Net(3)