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fix SGE jobarray regex
fix SGE jobarray regex

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ipclusterapp.py
521 lines | 17.5 KiB | text/x-python | PythonLexer
#!/usr/bin/env python
# encoding: utf-8
"""
The ipcluster application.
"""
#-----------------------------------------------------------------------------
# Copyright (C) 2008-2009 The IPython Development Team
#
# Distributed under the terms of the BSD License. The full license is in
# the file COPYING, distributed as part of this software.
#-----------------------------------------------------------------------------
#-----------------------------------------------------------------------------
# Imports
#-----------------------------------------------------------------------------
import errno
import logging
import os
import re
import signal
from subprocess import check_call, CalledProcessError, PIPE
import zmq
from zmq.eventloop import ioloop
from IPython.config.application import Application, boolean_flag
from IPython.config.loader import Config
from IPython.core.newapplication import BaseIPythonApplication, ProfileDir
from IPython.utils.importstring import import_item
from IPython.utils.traitlets import Int, Unicode, Bool, CFloat, Dict, List
from IPython.parallel.apps.baseapp import (
BaseParallelApplication,
PIDFileError,
base_flags, base_aliases
)
#-----------------------------------------------------------------------------
# Module level variables
#-----------------------------------------------------------------------------
default_config_file_name = u'ipcluster_config.py'
_description = """Start an IPython cluster for parallel computing.
An IPython cluster consists of 1 controller and 1 or more engines.
This command automates the startup of these processes using a wide
range of startup methods (SSH, local processes, PBS, mpiexec,
Windows HPC Server 2008). To start a cluster with 4 engines on your
local host simply do 'ipcluster start n=4'. For more complex usage
you will typically do 'ipcluster create profile=mycluster', then edit
configuration files, followed by 'ipcluster start profile=mycluster n=4'.
"""
# Exit codes for ipcluster
# This will be the exit code if the ipcluster appears to be running because
# a .pid file exists
ALREADY_STARTED = 10
# This will be the exit code if ipcluster stop is run, but there is not .pid
# file to be found.
ALREADY_STOPPED = 11
# This will be the exit code if ipcluster engines is run, but there is not .pid
# file to be found.
NO_CLUSTER = 12
#-----------------------------------------------------------------------------
# Main application
#-----------------------------------------------------------------------------
start_help = """Start an IPython cluster for parallel computing
Start an ipython cluster by its profile name or cluster
directory. Cluster directories contain configuration, log and
security related files and are named using the convention
'cluster_<profile>' and should be creating using the 'start'
subcommand of 'ipcluster'. If your cluster directory is in
the cwd or the ipython directory, you can simply refer to it
using its profile name, 'ipcluster start n=4 profile=<profile>`,
otherwise use the 'profile_dir' option.
"""
stop_help = """Stop a running IPython cluster
Stop a running ipython cluster by its profile name or cluster
directory. Cluster directories are named using the convention
'cluster_<profile>'. If your cluster directory is in
the cwd or the ipython directory, you can simply refer to it
using its profile name, 'ipcluster stop profile=<profile>`, otherwise
use the 'profile_dir' option.
"""
engines_help = """Start engines connected to an existing IPython cluster
Start one or more engines to connect to an existing Cluster
by profile name or cluster directory.
Cluster directories contain configuration, log and
security related files and are named using the convention
'cluster_<profile>' and should be creating using the 'start'
subcommand of 'ipcluster'. If your cluster directory is in
the cwd or the ipython directory, you can simply refer to it
using its profile name, 'ipcluster engines n=4 profile=<profile>`,
otherwise use the 'profile_dir' option.
"""
create_help = """Create an ipcluster profile by name
Create an ipython cluster directory by its profile name or
cluster directory path. Cluster directories contain
configuration, log and security related files and are named
using the convention 'cluster_<profile>'. By default they are
located in your ipython directory. Once created, you will
probably need to edit the configuration files in the cluster
directory to configure your cluster. Most users will create a
cluster directory by profile name,
`ipcluster create profile=mycluster`, which will put the directory
in `<ipython_dir>/cluster_mycluster`.
"""
list_help = """List available cluster profiles
List all available clusters, by cluster directory, that can
be found in the current working directly or in the ipython
directory. Cluster directories are named using the convention
'cluster_<profile>'.
"""
class IPClusterList(BaseIPythonApplication):
name = u'ipcluster-list'
description = list_help
# empty aliases
aliases=Dict()
flags = Dict(base_flags)
def _log_level_default(self):
return 20
def list_profile_dirs(self):
# Find the search paths
profile_dir_paths = os.environ.get('IPYTHON_PROFILE_PATH','')
if profile_dir_paths:
profile_dir_paths = profile_dir_paths.split(':')
else:
profile_dir_paths = []
ipython_dir = self.ipython_dir
paths = [os.getcwd(), ipython_dir] + profile_dir_paths
paths = list(set(paths))
self.log.info('Searching for cluster profiles in paths: %r' % paths)
for path in paths:
files = os.listdir(path)
for f in files:
full_path = os.path.join(path, f)
if os.path.isdir(full_path) and f.startswith('profile_') and \
os.path.isfile(os.path.join(full_path, 'ipcontroller_config.py')):
profile = f.split('_')[-1]
start_cmd = 'ipcluster start profile=%s n=4' % profile
print start_cmd + " ==> " + full_path
def start(self):
self.list_profile_dirs()
# `ipcluster create` will be deprecated when `ipython profile create` or equivalent exists
create_flags = {}
create_flags.update(base_flags)
create_flags.update(boolean_flag('reset', 'IPClusterCreate.overwrite',
"reset config files to defaults", "leave existing config files"))
class IPClusterCreate(BaseParallelApplication):
name = u'ipcluster-create'
description = create_help
auto_create = Bool(True)
config_file_name = Unicode(default_config_file_name)
flags = Dict(create_flags)
aliases = Dict(dict(profile='BaseIPythonApplication.profile'))
classes = [ProfileDir]
stop_aliases = dict(
signal='IPClusterStop.signal',
profile='BaseIPythonApplication.profile',
profile_dir='ProfileDir.location',
)
class IPClusterStop(BaseParallelApplication):
name = u'ipcluster'
description = stop_help
config_file_name = Unicode(default_config_file_name)
signal = Int(signal.SIGINT, config=True,
help="signal to use for stopping processes.")
aliases = Dict(stop_aliases)
def start(self):
"""Start the app for the stop subcommand."""
try:
pid = self.get_pid_from_file()
except PIDFileError:
self.log.critical(
'Could not read pid file, cluster is probably not running.'
)
# Here I exit with a unusual exit status that other processes
# can watch for to learn how I existed.
self.remove_pid_file()
self.exit(ALREADY_STOPPED)
if not self.check_pid(pid):
self.log.critical(
'Cluster [pid=%r] is not running.' % pid
)
self.remove_pid_file()
# Here I exit with a unusual exit status that other processes
# can watch for to learn how I existed.
self.exit(ALREADY_STOPPED)
elif os.name=='posix':
sig = self.signal
self.log.info(
"Stopping cluster [pid=%r] with [signal=%r]" % (pid, sig)
)
try:
os.kill(pid, sig)
except OSError:
self.log.error("Stopping cluster failed, assuming already dead.",
exc_info=True)
self.remove_pid_file()
elif os.name=='nt':
try:
# kill the whole tree
p = check_call(['taskkill', '-pid', str(pid), '-t', '-f'], stdout=PIPE,stderr=PIPE)
except (CalledProcessError, OSError):
self.log.error("Stopping cluster failed, assuming already dead.",
exc_info=True)
self.remove_pid_file()
engine_aliases = {}
engine_aliases.update(base_aliases)
engine_aliases.update(dict(
n='IPClusterEngines.n',
elauncher = 'IPClusterEngines.engine_launcher_class',
))
class IPClusterEngines(BaseParallelApplication):
name = u'ipcluster'
description = engines_help
usage = None
config_file_name = Unicode(default_config_file_name)
default_log_level = logging.INFO
classes = List()
def _classes_default(self):
from IPython.parallel.apps import launcher
launchers = launcher.all_launchers
eslaunchers = [ l for l in launchers if 'EngineSet' in l.__name__]
return [ProfileDir]+eslaunchers
n = Int(2, config=True,
help="The number of engines to start.")
engine_launcher_class = Unicode('LocalEngineSetLauncher',
config=True,
help="The class for launching a set of Engines."
)
daemonize = Bool(False, config=True,
help='Daemonize the ipcluster program. This implies --log-to-file')
def _daemonize_changed(self, name, old, new):
if new:
self.log_to_file = True
aliases = Dict(engine_aliases)
# flags = Dict(flags)
_stopping = False
def initialize(self, argv=None):
super(IPClusterEngines, self).initialize(argv)
self.init_signal()
self.init_launchers()
def init_launchers(self):
self.engine_launcher = self.build_launcher(self.engine_launcher_class)
self.engine_launcher.on_stop(lambda r: self.loop.stop())
def init_signal(self):
# Setup signals
signal.signal(signal.SIGINT, self.sigint_handler)
def build_launcher(self, clsname):
"""import and instantiate a Launcher based on importstring"""
if '.' not in clsname:
# not a module, presume it's the raw name in apps.launcher
clsname = 'IPython.parallel.apps.launcher.'+clsname
# print repr(clsname)
klass = import_item(clsname)
launcher = klass(
work_dir=self.profile_dir.location, config=self.config, logname=self.log.name
)
return launcher
def start_engines(self):
self.log.info("Starting %i engines"%self.n)
self.engine_launcher.start(
self.n,
self.profile_dir.location
)
def stop_engines(self):
self.log.info("Stopping Engines...")
if self.engine_launcher.running:
d = self.engine_launcher.stop()
return d
else:
return None
def stop_launchers(self, r=None):
if not self._stopping:
self._stopping = True
self.log.error("IPython cluster: stopping")
self.stop_engines()
# Wait a few seconds to let things shut down.
dc = ioloop.DelayedCallback(self.loop.stop, 4000, self.loop)
dc.start()
def sigint_handler(self, signum, frame):
self.log.debug("SIGINT received, stopping launchers...")
self.stop_launchers()
def start_logging(self):
# Remove old log files of the controller and engine
if self.clean_logs:
log_dir = self.profile_dir.log_dir
for f in os.listdir(log_dir):
if re.match(r'ip(engine|controller)z-\d+\.(log|err|out)',f):
os.remove(os.path.join(log_dir, f))
# This will remove old log files for ipcluster itself
# super(IPBaseParallelApplication, self).start_logging()
def start(self):
"""Start the app for the engines subcommand."""
self.log.info("IPython cluster: started")
# First see if the cluster is already running
# Now log and daemonize
self.log.info(
'Starting engines with [daemon=%r]' % self.daemonize
)
# TODO: Get daemonize working on Windows or as a Windows Server.
if self.daemonize:
if os.name=='posix':
from twisted.scripts._twistd_unix import daemonize
daemonize()
dc = ioloop.DelayedCallback(self.start_engines, 0, self.loop)
dc.start()
# Now write the new pid file AFTER our new forked pid is active.
# self.write_pid_file()
try:
self.loop.start()
except KeyboardInterrupt:
pass
except zmq.ZMQError as e:
if e.errno == errno.EINTR:
pass
else:
raise
start_aliases = {}
start_aliases.update(engine_aliases)
start_aliases.update(dict(
delay='IPClusterStart.delay',
clean_logs='IPClusterStart.clean_logs',
))
class IPClusterStart(IPClusterEngines):
name = u'ipcluster'
description = start_help
default_log_level = logging.INFO
auto_create = Bool(True, config=True,
help="whether to create the profile_dir if it doesn't exist")
classes = List()
def _classes_default(self,):
from IPython.parallel.apps import launcher
return [ProfileDir]+launcher.all_launchers
clean_logs = Bool(True, config=True,
help="whether to cleanup old logs before starting")
delay = CFloat(1., config=True,
help="delay (in s) between starting the controller and the engines")
controller_launcher_class = Unicode('LocalControllerLauncher',
config=True,
help="The class for launching a Controller."
)
reset = Bool(False, config=True,
help="Whether to reset config files as part of '--create'."
)
# flags = Dict(flags)
aliases = Dict(start_aliases)
def init_launchers(self):
self.controller_launcher = self.build_launcher(self.controller_launcher_class)
self.engine_launcher = self.build_launcher(self.engine_launcher_class)
self.controller_launcher.on_stop(self.stop_launchers)
def start_controller(self):
self.controller_launcher.start(
self.profile_dir.location
)
def stop_controller(self):
# self.log.info("In stop_controller")
if self.controller_launcher and self.controller_launcher.running:
return self.controller_launcher.stop()
def stop_launchers(self, r=None):
if not self._stopping:
self.stop_controller()
super(IPClusterStart, self).stop_launchers()
def start(self):
"""Start the app for the start subcommand."""
# First see if the cluster is already running
try:
pid = self.get_pid_from_file()
except PIDFileError:
pass
else:
if self.check_pid(pid):
self.log.critical(
'Cluster is already running with [pid=%s]. '
'use "ipcluster stop" to stop the cluster.' % pid
)
# Here I exit with a unusual exit status that other processes
# can watch for to learn how I existed.
self.exit(ALREADY_STARTED)
else:
self.remove_pid_file()
# Now log and daemonize
self.log.info(
'Starting ipcluster with [daemon=%r]' % self.daemonize
)
# TODO: Get daemonize working on Windows or as a Windows Server.
if self.daemonize:
if os.name=='posix':
from twisted.scripts._twistd_unix import daemonize
daemonize()
dc = ioloop.DelayedCallback(self.start_controller, 0, self.loop)
dc.start()
dc = ioloop.DelayedCallback(self.start_engines, 1000*self.delay, self.loop)
dc.start()
# Now write the new pid file AFTER our new forked pid is active.
self.write_pid_file()
try:
self.loop.start()
except KeyboardInterrupt:
pass
except zmq.ZMQError as e:
if e.errno == errno.EINTR:
pass
else:
raise
finally:
self.remove_pid_file()
base='IPython.parallel.apps.ipclusterapp.IPCluster'
class IPBaseParallelApplication(Application):
name = u'ipcluster'
description = _description
subcommands = {'create' : (base+'Create', create_help),
'list' : (base+'List', list_help),
'start' : (base+'Start', start_help),
'stop' : (base+'Stop', stop_help),
'engines' : (base+'Engines', engines_help),
}
# no aliases or flags for parent App
aliases = Dict()
flags = Dict()
def start(self):
if self.subapp is None:
print "No subcommand specified! Must specify one of: %s"%(self.subcommands.keys())
print
self.print_subcommands()
self.exit(1)
else:
return self.subapp.start()
def launch_new_instance():
"""Create and run the IPython cluster."""
app = IPBaseParallelApplication.instance()
app.initialize()
app.start()
if __name__ == '__main__':
launch_new_instance()