Start Jobs From Windows Using SSH

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Revision as of 17:21, 26 November 2007 by Timcera (talk | contribs)
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By using SAMBA to mount the UNIX/Linux home directory you can use the SSH keys in ~/.ssh to authenticate the login and run a program on the UNIX/Linux machine. The program in the example below submits a job to Grid Engine.


The following script requires the following to be installed on the Windows machine:

Required for authenticating job submission

  • Python -
  • Paramiko - a Python SSH library at

Required for the script below

  • wxPython - an advanced GUI for Python at

Both Paramiko and wxPython have further requirements.


This is very preliminary and you will have to make several edits to get it to work without destroying anything on your system. I have a lot of work to do on this script, but I wanted to share an implementation of the idea. It runs qhspf which is a wrapper around HSPF (Hydrologic System Program Fortran). Since I think we are about the only people running Grid Engine and HSPF, you will probably have to change the command to something that fits your requirements.


  • Our UNIX/Linux home directories are shared by SAMBA (either by snap-nfs or beowulf) and mapped to T:\.
  • Our interactive host where most jobs are started from is called beohome.
  • Our Windows and UNIX/Linux usernames are identical, but we do not have single sign-on.
  • In the start() function I FORCE a mapping to T:\ - can almost guarantee that you do not want that.
  • The start() function contains all of the important stuff in terms of establishing the SSH connection, authenticating, ...etc.

Caveat emptor - but you probably knew that already.

# Windows specific login to beowulf cluster

# Batteries included imports
import os
import socket
import getpass
import shutil
import string

# Special installed imports
import paramiko as PM
import wx

user_name = os.environ['USERNAME'].lower()

port = 22
home_drive = r'T:\\.ssh'
target_host = 'beohome'
auth_key_file = home_drive + r'\authorized_keys'
identity_pub_file = home_drive + r'\'
ida_dsa_pub_file = home_drive + r'\'
known_hosts_file = home_drive + r'\known_hosts'
private_rsa_key_file = home_drive + r'\identity'
private_dsa_key_file = home_drive + r'\id_dsa'

net_exe = r'C:\WINDOWS\system32\net.exe '

def verify_t():
    # Verify that we can get to T:\
    fp = os.popen(r'%s use' % net_exe)
    mapped_correctly = False
    t_drive_mapped = False
    for line in fp:
        words = line.split()
            if words[1] == home_drive[:2]:
                new_words = words[2].split('\\')
                t_drive_mapped = True
                print new_words
                if (
                new_words[-1].lower() == user_name.lower() and 
                new_words[2].lower() in ['snap-nfs', '', 'beowulf']
                    mapped_correctly = True
        except IndexError:
    return (t_drive_mapped, mapped_correctly)

def manual_auth(t, username, hostname, auth = 'p'):
    if auth == 'r':
            key = PM.RSAKey.from_private_key_file(private_rsa_key_file)
        except PM.PasswordRequiredException:
            password = ""
            key = PM.RSAKey.from_private_key_file(private_rsa_key_file, password)
        t.auth_publickey(username, key)
    elif auth == 'd':
            key = PM.DSSKey.from_private_key_file(private_dsa_key_file)
        except PM.PasswordRequiredException:
            password = ""
            key = PM.DSSKey.from_private_key_file(private_dsa_key_file, password)
        t.auth_publickey(username, key)
        pw = getpass.getpass('Password for %s@%s: ' % (username, hostname))
        t.auth_password(username, pw)

def start():
    exists, correct = verify_t()
    if not exists:
        print "T: drive not mapped"
        os.system(r'%s use %s \\snap-nfs\SHARE1\home\%s /PERSISTENT:YES' % (net_exe, home_drive[:2], user_name))            
    if exists and not correct:
        print "T: drive not mapped correctly"
        os.system(r'%s use %s /delete' % net_exe)            
        os.system(r'%s use %s \\snap-nfs\SHARE1\home\%s /PERSISTENT:YES' % (net_exe, home_drive[:2], user_name))

    exists, correct = verify_t()
    if not exists or not correct:
        print 'oops'

    # Connect
    sock = socket.socket(socket.AF_INET, socket.SOCK_STREAM)
    sock.connect((target_host, port))

    # Transport
    t = PM.Transport(sock)
    if not t.is_active():
        print 'client negotiation failed'

    ### Host keys
    ##    keys = PM.util.load_host_keys(known_hosts_file)
    ##except IOError:
    ##    keys = {}

    # Authentication against private keys
    if os.path.exists(private_dsa_key_file):
        auth = 'd'
    elif os.path.exists(private_rsa_key_file):
        auth = 'r'
        auth = 'p'
    manual_auth(t, user_name, target_host, auth = auth)

    # Authentication test
    if not t.is_authenticated():
        print 'Authentication failed'

    # Channel
    if auth == 'p':
        chan = t.open_session()
        chan.exec_command('/usr/bin/ssh-keygen -q -t dsa -P "" -f $HOME/.ssh/id_dsa; /bin/cp $HOME/.ssh/ $HOME/.ssh/authorized_keys')
        if chan.recv_exit_status():
            print 'oops'
            print 'shh-keygen command wasnt succesful'
    return t

def convert_dir(directory):
    drive,newdirname = os.path.splitdrive(directory)
    if drive not in [r'T:', r'Y:']:
        print 'Cannot access files outside of T and Y drives.'
    newdirname = newdirname.split(os.sep)
    newdirname[0] = 'sjr'
    newdirname.insert(0, '')
    return string.join(newdirname, '/')
def run_command(t, command):
    print command
    chan = t.open_session()
    if not chan.recv_exit_status():
        print chan.recv(2024)

class MainWindow(wx.Frame):
    def __init__(self,parent,id,title):
        wx.Frame.__init__(self,parent,wx.ID_ANY, title, size = (200,100))
        t = start()
        lin_dir = convert_dir(self.dirname)
        run_command(t, 'cd %s; %s %s' % (lin_dir, 'qhspf', self.filename))
    def OnAbout(self,e):
        d= wx.MessageDialog( self, " A sample editor \n"
                            " in wxPython","About Sample Editor", wx.OK)
                            # Create a message dialog box
        d.ShowModal() # Shows it
        d.Destroy() # finally destroy it when finished.
    def OnExit(self,e):
        self.Close(True)  # Close the frame.
    def OnOpen(self):
        """ Open a file"""
        self.dirname = r'Y:\beodata'
        dlg = wx.FileDialog(self, "Choose a uci file", self.dirname, "", "*.uci|*.UCI", wx.FD_FILE_MUST_EXIST)
        if dlg.ShowModal() == wx.ID_OK:
app = wx.PySimpleApp()
frame = MainWindow(None, -1, "Run qhspf on beowulf")