Merge pull request #1 from minrk/kill-bg-processes

Use shutdown requests rather than hard kills in notebook

IPython/frontend/html/notebook/handlers.py

@@ -1,737 +1,737 b''
 """Tornado handlers for the notebook.
 
 Authors:
 
 * Brian Granger
 """
 
 #-----------------------------------------------------------------------------
 #  Copyright (C) 2008-2011  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 logging
 import Cookie
 import time
 import uuid
 
 from tornado import web
 from tornado import websocket
 
 from zmq.eventloop import ioloop
 from zmq.utils import jsonapi
 
 from IPython.external.decorator import decorator
 from IPython.zmq.session import Session
 from IPython.lib.security import passwd_check
 from IPython.utils.jsonutil import date_default
 
 try:
     from docutils.core import publish_string
 except ImportError:
     publish_string = None
 
 #-----------------------------------------------------------------------------
 # Monkeypatch for Tornado <= 2.1.1 - Remove when no longer necessary!
 #-----------------------------------------------------------------------------
 
 # Google Chrome, as of release 16, changed its websocket protocol number.  The
 # parts tornado cares about haven't really changed, so it's OK to continue
 # accepting Chrome connections, but as of Tornado 2.1.1 (the currently released
 # version as of Oct 30/2011) the version check fails, see the issue report:
 
 # https://github.com/facebook/tornado/issues/385
 
 # This issue has been fixed in Tornado post 2.1.1:
 
 # https://github.com/facebook/tornado/commit/84d7b458f956727c3b0d6710
 
 # Here we manually apply the same patch as above so that users of IPython can
 # continue to work with an officially released Tornado.  We make the
 # monkeypatch version check as narrow as possible to limit its effects; once
 # Tornado 2.1.1 is no longer found in the wild we'll delete this code.
 
 import tornado
 
 if tornado.version_info <= (2,1,1):
 
     def _execute(self, transforms, *args, **kwargs):
         from tornado.websocket import WebSocketProtocol8, WebSocketProtocol76
         
         self.open_args = args
         self.open_kwargs = kwargs
 
         # The difference between version 8 and 13 is that in 8 the
         # client sends a "Sec-Websocket-Origin" header and in 13 it's
         # simply "Origin".
         if self.request.headers.get("Sec-WebSocket-Version") in ("7", "8", "13"):
             self.ws_connection = WebSocketProtocol8(self)
             self.ws_connection.accept_connection()
             
         elif self.request.headers.get("Sec-WebSocket-Version"):
             self.stream.write(tornado.escape.utf8(
                 "HTTP/1.1 426 Upgrade Required\r\n"
                 "Sec-WebSocket-Version: 8\r\n\r\n"))
             self.stream.close()
             
         else:
             self.ws_connection = WebSocketProtocol76(self)
             self.ws_connection.accept_connection()
 
     websocket.WebSocketHandler._execute = _execute
     del _execute
     
 #-----------------------------------------------------------------------------
 # Decorator for disabling read-only handlers
 #-----------------------------------------------------------------------------
 
 @decorator
 def not_if_readonly(f, self, *args, **kwargs):
     if self.application.read_only:
         raise web.HTTPError(403, "Notebook server is read-only")
     else:
         return f(self, *args, **kwargs)
 
 @decorator
 def authenticate_unless_readonly(f, self, *args, **kwargs):
     """authenticate this page *unless* readonly view is active.
     
     In read-only mode, the notebook list and print view should
     be accessible without authentication.
     """
     
     @web.authenticated
     def auth_f(self, *args, **kwargs):
         return f(self, *args, **kwargs)
 
     if self.application.read_only:
         return f(self, *args, **kwargs)
     else:
         return auth_f(self, *args, **kwargs)
 
 #-----------------------------------------------------------------------------
 # Top-level handlers
 #-----------------------------------------------------------------------------
 
 class RequestHandler(web.RequestHandler):
     """RequestHandler with default variable setting."""
 
     def render(*args, **kwargs):
         kwargs.setdefault('message', '')
         return web.RequestHandler.render(*args, **kwargs)
 
 class AuthenticatedHandler(RequestHandler):
     """A RequestHandler with an authenticated user."""
 
     def get_current_user(self):
         user_id = self.get_secure_cookie("username")
         # For now the user_id should not return empty, but it could eventually
         if user_id == '':
             user_id = 'anonymous'
         if user_id is None:
             # prevent extra Invalid cookie sig warnings:
             self.clear_cookie('username')
             if not self.application.password and not self.application.read_only:
                 user_id = 'anonymous'
         return user_id
 
     @property
     def logged_in(self):
         """Is a user currently logged in?
 
         """
         user = self.get_current_user()
         return (user and not user == 'anonymous')
 
     @property
     def login_available(self):
         """May a user proceed to log in?
 
         This returns True if login capability is available, irrespective of
         whether the user is already logged in or not.
 
         """
         return bool(self.application.password)
 
     @property
     def read_only(self):
         """Is the notebook read-only?
 
         """
         return self.application.read_only
 
     @property
     def ws_url(self):
         """websocket url matching the current request
 
         turns http[s]://host[:port] into
                 ws[s]://host[:port]
         """
         proto = self.request.protocol.replace('http', 'ws')
         host = self.application.ipython_app.websocket_host # default to config value
         if host == '':
             host = self.request.host # get from request
         return "%s://%s" % (proto, host)
 
 
 class AuthenticatedFileHandler(AuthenticatedHandler, web.StaticFileHandler):
     """static files should only be accessible when logged in"""
 
     @authenticate_unless_readonly
     def get(self, path):
         return web.StaticFileHandler.get(self, path)
 
 
 class ProjectDashboardHandler(AuthenticatedHandler):
 
     @authenticate_unless_readonly
     def get(self):
         nbm = self.application.notebook_manager
         project = nbm.notebook_dir
         self.render(
             'projectdashboard.html', project=project,
             base_project_url=self.application.ipython_app.base_project_url,
             base_kernel_url=self.application.ipython_app.base_kernel_url,
             read_only=self.read_only,
             logged_in=self.logged_in,
             login_available=self.login_available
         )
 
 
 class LoginHandler(AuthenticatedHandler):
 
     def _render(self, message=None):
         self.render('login.html',
                 next=self.get_argument('next', default='/'),
                 read_only=self.read_only,
                 logged_in=self.logged_in,
                 login_available=self.login_available,
                 base_project_url=self.application.ipython_app.base_project_url,
                 message=message
         )
 
     def get(self):
         if self.current_user:
             self.redirect(self.get_argument('next', default='/'))
         else:
             self._render()
 
     def post(self):
         pwd = self.get_argument('password', default=u'')
         if self.application.password:
             if passwd_check(self.application.password, pwd):
                 self.set_secure_cookie('username', str(uuid.uuid4()))
             else:
                 self._render(message={'error': 'Invalid password'})
                 return
 
         self.redirect(self.get_argument('next', default='/'))
 
 
 class LogoutHandler(AuthenticatedHandler):
 
     def get(self):
         self.clear_cookie('username')
         if self.login_available:
             message = {'info': 'Successfully logged out.'}
         else:
             message = {'warning': 'Cannot log out.  Notebook authentication '
                        'is disabled.'}
 
         self.render('logout.html',
                     read_only=self.read_only,
                     logged_in=self.logged_in,
                     login_available=self.login_available,
                     base_project_url=self.application.ipython_app.base_project_url,
                     message=message)
 
 
 class NewHandler(AuthenticatedHandler):
 
     @web.authenticated
     def get(self):
         nbm = self.application.notebook_manager
         project = nbm.notebook_dir
         notebook_id = nbm.new_notebook()
         self.render(
             'notebook.html', project=project,
             notebook_id=notebook_id,
             base_project_url=self.application.ipython_app.base_project_url,
             base_kernel_url=self.application.ipython_app.base_kernel_url,
             kill_kernel=False,
             read_only=False,
             logged_in=self.logged_in,
             login_available=self.login_available,
             mathjax_url=self.application.ipython_app.mathjax_url,
         )
 
 
 class NamedNotebookHandler(AuthenticatedHandler):
 
     @authenticate_unless_readonly
     def get(self, notebook_id):
         nbm = self.application.notebook_manager
         project = nbm.notebook_dir
         if not nbm.notebook_exists(notebook_id):
             raise web.HTTPError(404, u'Notebook does not exist: %s' % notebook_id)
         
         self.render(
             'notebook.html', project=project,
             notebook_id=notebook_id,
             base_project_url=self.application.ipython_app.base_project_url,
             base_kernel_url=self.application.ipython_app.base_kernel_url,
             kill_kernel=False,
             read_only=self.read_only,
             logged_in=self.logged_in,
             login_available=self.login_available,
             mathjax_url=self.application.ipython_app.mathjax_url,
         )
 
 
 class PrintNotebookHandler(AuthenticatedHandler):
 
     @authenticate_unless_readonly
     def get(self, notebook_id):
         nbm = self.application.notebook_manager
         project = nbm.notebook_dir
         if not nbm.notebook_exists(notebook_id):
             raise web.HTTPError(404, u'Notebook does not exist: %s' % notebook_id)
         
         self.render(
             'printnotebook.html', project=project,
             notebook_id=notebook_id,
             base_project_url=self.application.ipython_app.base_project_url,
             base_kernel_url=self.application.ipython_app.base_kernel_url,
             kill_kernel=False,
             read_only=self.read_only,
             logged_in=self.logged_in,
             login_available=self.login_available,
             mathjax_url=self.application.ipython_app.mathjax_url,
         )
 
 #-----------------------------------------------------------------------------
 # Kernel handlers
 #-----------------------------------------------------------------------------
 
 
 class MainKernelHandler(AuthenticatedHandler):
 
     @web.authenticated
     def get(self):
         km = self.application.kernel_manager
         self.finish(jsonapi.dumps(km.kernel_ids))
 
     @web.authenticated
     def post(self):
         km = self.application.kernel_manager
         notebook_id = self.get_argument('notebook', default=None)
         kernel_id = km.start_kernel(notebook_id)
         data = {'ws_url':self.ws_url,'kernel_id':kernel_id}
         self.set_header('Location', '/'+kernel_id)
         self.finish(jsonapi.dumps(data))
 
 
 class KernelHandler(AuthenticatedHandler):
 
     SUPPORTED_METHODS = ('DELETE')
 
     @web.authenticated
     def delete(self, kernel_id):
         km = self.application.kernel_manager
-        km.kill_kernel(kernel_id)
+        km.shutdown_kernel(kernel_id)
         self.set_status(204)
         self.finish()
 
 
 class KernelActionHandler(AuthenticatedHandler):
 
     @web.authenticated
     def post(self, kernel_id, action):
         km = self.application.kernel_manager
         if action == 'interrupt':
             km.interrupt_kernel(kernel_id)
             self.set_status(204)
         if action == 'restart':
             new_kernel_id = km.restart_kernel(kernel_id)
             data = {'ws_url':self.ws_url,'kernel_id':new_kernel_id}
             self.set_header('Location', '/'+new_kernel_id)
             self.write(jsonapi.dumps(data))
         self.finish()
 
 
 class ZMQStreamHandler(websocket.WebSocketHandler):
 
     def _reserialize_reply(self, msg_list):
         """Reserialize a reply message using JSON.
 
         This takes the msg list from the ZMQ socket, unserializes it using
         self.session and then serializes the result using JSON. This method
         should be used by self._on_zmq_reply to build messages that can
         be sent back to the browser.
         """
         idents, msg_list = self.session.feed_identities(msg_list)
         msg = self.session.unserialize(msg_list)
         try:
             msg['header'].pop('date')
         except KeyError:
             pass
         try:
             msg['parent_header'].pop('date')
         except KeyError:
             pass
         msg.pop('buffers')
         return jsonapi.dumps(msg, default=date_default)
 
     def _on_zmq_reply(self, msg_list):
         try:
             msg = self._reserialize_reply(msg_list)
         except Exception:
             self.application.log.critical("Malformed message: %r" % msg_list, exc_info=True)
         else:
             self.write_message(msg)
 
     def allow_draft76(self):
         """Allow draft 76, until browsers such as Safari update to RFC 6455.
         
         This has been disabled by default in tornado in release 2.2.0, and
         support will be removed in later versions.
         """
         return True
 
 
 class AuthenticatedZMQStreamHandler(ZMQStreamHandler):
 
     def open(self, kernel_id):
         self.kernel_id = kernel_id.decode('ascii')
         try:
             cfg = self.application.ipython_app.config
         except AttributeError:
             # protect from the case where this is run from something other than
             # the notebook app:
             cfg = None
         self.session = Session(config=cfg)
         self.save_on_message = self.on_message
         self.on_message = self.on_first_message
 
     def get_current_user(self):
         user_id = self.get_secure_cookie("username")
         if user_id == '' or (user_id is None and not self.application.password):
             user_id = 'anonymous'
         return user_id
 
     def _inject_cookie_message(self, msg):
         """Inject the first message, which is the document cookie,
         for authentication."""
         if isinstance(msg, unicode):
             # Cookie can't constructor doesn't accept unicode strings for some reason
             msg = msg.encode('utf8', 'replace')
         try:
             self.request._cookies = Cookie.SimpleCookie(msg)
         except:
             logging.warn("couldn't parse cookie string: %s",msg, exc_info=True)
 
     def on_first_message(self, msg):
         self._inject_cookie_message(msg)
         if self.get_current_user() is None:
             logging.warn("Couldn't authenticate WebSocket connection")
             raise web.HTTPError(403)
         self.on_message = self.save_on_message
 
 
 class IOPubHandler(AuthenticatedZMQStreamHandler):
 
     def initialize(self, *args, **kwargs):
         self._kernel_alive = True
         self._beating = False
         self.iopub_stream = None
         self.hb_stream = None
 
     def on_first_message(self, msg):
         try:
             super(IOPubHandler, self).on_first_message(msg)
         except web.HTTPError:
             self.close()
             return
         km = self.application.kernel_manager
         self.time_to_dead = km.time_to_dead
         self.first_beat = km.first_beat
         kernel_id = self.kernel_id
         try:
             self.iopub_stream = km.create_iopub_stream(kernel_id)
             self.hb_stream = km.create_hb_stream(kernel_id)
         except web.HTTPError:
             # WebSockets don't response to traditional error codes so we
             # close the connection.
             if not self.stream.closed():
                 self.stream.close()
             self.close()
         else:
             self.iopub_stream.on_recv(self._on_zmq_reply)
             self.start_hb(self.kernel_died)
 
     def on_message(self, msg):
         pass
 
     def on_close(self):
         # This method can be called twice, once by self.kernel_died and once
         # from the WebSocket close event. If the WebSocket connection is
         # closed before the ZMQ streams are setup, they could be None.
         self.stop_hb()
         if self.iopub_stream is not None and not self.iopub_stream.closed():
             self.iopub_stream.on_recv(None)
             self.iopub_stream.close()
         if self.hb_stream is not None and not self.hb_stream.closed():
             self.hb_stream.close()
 
     def start_hb(self, callback):
         """Start the heartbeating and call the callback if the kernel dies."""
         if not self._beating:
             self._kernel_alive = True
 
             def ping_or_dead():
                 self.hb_stream.flush()
                 if self._kernel_alive:
                     self._kernel_alive = False
                     self.hb_stream.send(b'ping')
                     # flush stream to force immediate socket send
                     self.hb_stream.flush()
                 else:
                     try:
                         callback()
                     except:
                         pass
                     finally:
                         self.stop_hb()
 
             def beat_received(msg):
                 self._kernel_alive = True
 
             self.hb_stream.on_recv(beat_received)
             loop = ioloop.IOLoop.instance()
             self._hb_periodic_callback = ioloop.PeriodicCallback(ping_or_dead, self.time_to_dead*1000, loop)
             loop.add_timeout(time.time()+self.first_beat, self._really_start_hb)
             self._beating= True
     
     def _really_start_hb(self):
         """callback for delayed heartbeat start
         
         Only start the hb loop if we haven't been closed during the wait.
         """
         if self._beating and not self.hb_stream.closed():
             self._hb_periodic_callback.start()
 
     def stop_hb(self):
         """Stop the heartbeating and cancel all related callbacks."""
         if self._beating:
             self._beating = False
             self._hb_periodic_callback.stop()
             if not self.hb_stream.closed():
                 self.hb_stream.on_recv(None)
 
     def kernel_died(self):
         self.application.kernel_manager.delete_mapping_for_kernel(self.kernel_id)
         self.application.log.error("Kernel %s failed to respond to heartbeat", self.kernel_id)
         self.write_message(
             {'header': {'msg_type': 'status'},
              'parent_header': {},
              'content': {'execution_state':'dead'}
             }
         )
         self.on_close()
 
 
 class ShellHandler(AuthenticatedZMQStreamHandler):
 
     def initialize(self, *args, **kwargs):
         self.shell_stream = None
 
     def on_first_message(self, msg):
         try:
             super(ShellHandler, self).on_first_message(msg)
         except web.HTTPError:
             self.close()
             return
         km = self.application.kernel_manager
         self.max_msg_size = km.max_msg_size
         kernel_id = self.kernel_id
         try:
             self.shell_stream = km.create_shell_stream(kernel_id)
         except web.HTTPError:
             # WebSockets don't response to traditional error codes so we
             # close the connection.
             if not self.stream.closed():
                 self.stream.close()
             self.close()
         else:
             self.shell_stream.on_recv(self._on_zmq_reply)
 
     def on_message(self, msg):
         if len(msg) < self.max_msg_size:
             msg = jsonapi.loads(msg)
             self.session.send(self.shell_stream, msg)
 
     def on_close(self):
         # Make sure the stream exists and is not already closed.
         if self.shell_stream is not None and not self.shell_stream.closed():
             self.shell_stream.close()
 
 
 #-----------------------------------------------------------------------------
 # Notebook web service handlers
 #-----------------------------------------------------------------------------
 
 class NotebookRootHandler(AuthenticatedHandler):
 
     @authenticate_unless_readonly
     def get(self):
         nbm = self.application.notebook_manager
         km = self.application.kernel_manager
         files = nbm.list_notebooks()
         for f in files :
             f['kernel_id'] = km.kernel_for_notebook(f['notebook_id'])
         self.finish(jsonapi.dumps(files))
 
     @web.authenticated
     def post(self):
         nbm = self.application.notebook_manager
         body = self.request.body.strip()
         format = self.get_argument('format', default='json')
         name = self.get_argument('name', default=None)
         if body:
             notebook_id = nbm.save_new_notebook(body, name=name, format=format)
         else:
             notebook_id = nbm.new_notebook()
         self.set_header('Location', '/'+notebook_id)
         self.finish(jsonapi.dumps(notebook_id))
 
 
 class NotebookHandler(AuthenticatedHandler):
 
     SUPPORTED_METHODS = ('GET', 'PUT', 'DELETE')
 
     @authenticate_unless_readonly
     def get(self, notebook_id):
         nbm = self.application.notebook_manager
         format = self.get_argument('format', default='json')
         last_mod, name, data = nbm.get_notebook(notebook_id, format)
         
         if format == u'json':
             self.set_header('Content-Type', 'application/json')
             self.set_header('Content-Disposition','attachment; filename="%s.ipynb"' % name)
         elif format == u'py':
             self.set_header('Content-Type', 'application/x-python')
             self.set_header('Content-Disposition','attachment; filename="%s.py"' % name)
         self.set_header('Last-Modified', last_mod)
         self.finish(data)
 
     @web.authenticated
     def put(self, notebook_id):
         nbm = self.application.notebook_manager
         format = self.get_argument('format', default='json')
         name = self.get_argument('name', default=None)
         nbm.save_notebook(notebook_id, self.request.body, name=name, format=format)
         self.set_status(204)
         self.finish()
 
     @web.authenticated
     def delete(self, notebook_id):
         nbm = self.application.notebook_manager
         nbm.delete_notebook(notebook_id)
         self.set_status(204)
         self.finish()
 
 
 class NotebookCopyHandler(AuthenticatedHandler):
 
     @web.authenticated
     def get(self, notebook_id):
         nbm = self.application.notebook_manager
         project = nbm.notebook_dir
         notebook_id = nbm.copy_notebook(notebook_id)
         self.render(
             'notebook.html', project=project,
             notebook_id=notebook_id,
             base_project_url=self.application.ipython_app.base_project_url,
             base_kernel_url=self.application.ipython_app.base_kernel_url,
             kill_kernel=False,
             read_only=False,
             logged_in=self.logged_in,
             login_available=self.login_available,
             mathjax_url=self.application.ipython_app.mathjax_url,
         )
 
 
 #-----------------------------------------------------------------------------
 # Cluster handlers
 #-----------------------------------------------------------------------------
 
 
 class MainClusterHandler(AuthenticatedHandler):
 
     @web.authenticated
     def get(self):
         cm = self.application.cluster_manager
         self.finish(jsonapi.dumps(cm.list_profiles()))
 
 
 class ClusterProfileHandler(AuthenticatedHandler):
 
     @web.authenticated
     def get(self, profile):
         cm = self.application.cluster_manager
         self.finish(jsonapi.dumps(cm.profile_info(profile)))
 
 
 class ClusterActionHandler(AuthenticatedHandler):
 
     @web.authenticated
     def post(self, profile, action):
         cm = self.application.cluster_manager
         if action == 'start':
             n = self.get_argument('n',default=None)
             if n is None:
                 data = cm.start_cluster(profile)
             else:
                 data = cm.start_cluster(profile,int(n))
         if action == 'stop':
             data = cm.stop_cluster(profile)
         self.finish(jsonapi.dumps(data))
 
 
 #-----------------------------------------------------------------------------
 # RST web service handlers
 #-----------------------------------------------------------------------------
 
 
 class RSTHandler(AuthenticatedHandler):
 
     @web.authenticated
     def post(self):
         if publish_string is None:
             raise web.HTTPError(503, u'docutils not available')
         body = self.request.body.strip()
         source = body
         # template_path=os.path.join(os.path.dirname(__file__), u'templates', u'rst_template.html')
         defaults = {'file_insertion_enabled': 0,
                     'raw_enabled': 0,
                     '_disable_config': 1,
                     'stylesheet_path': 0
                     # 'template': template_path
         }
         try:
             html = publish_string(source, writer_name='html',
                                   settings_overrides=defaults
             )
         except:
             raise web.HTTPError(400, u'Invalid RST')
         print html
         self.set_header('Content-Type', 'text/html')
         self.finish(html)
 
 

IPython/frontend/html/notebook/kernelmanager.py

@@ -1,324 +1,344 b''
 """A kernel manager for multiple kernels.
 
 Authors:
 
 * Brian Granger
 """
 
 #-----------------------------------------------------------------------------
 #  Copyright (C) 2008-2011  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 os
 import signal
 import sys
 import uuid
 
 import zmq
 from zmq.eventloop.zmqstream import ZMQStream
 
 from tornado import web
 
 from IPython.config.configurable import LoggingConfigurable
 from IPython.utils.importstring import import_item
 from IPython.utils.traitlets import (
     Instance, Dict, List, Unicode, Float, Integer, Any, DottedObjectName,
 )
 #-----------------------------------------------------------------------------
 # Classes
 #-----------------------------------------------------------------------------
 
 class DuplicateKernelError(Exception):
     pass
 
 
 class MultiKernelManager(LoggingConfigurable):
     """A class for managing multiple kernels."""
     
     kernel_manager_class = DottedObjectName(
-        "IPython.zmq.kernelmanager.KernelManager", config=True,
+        "IPython.zmq.blockingkernelmanager.BlockingKernelManager", config=True,
         help="""The kernel manager class.  This is configurable to allow
         subclassing of the KernelManager for customized behavior.
         """
     )
     def _kernel_manager_class_changed(self, name, old, new):
         self.kernel_manager_factory = import_item(new)
     
     kernel_manager_factory = Any(help="this is kernel_manager_class after import")
     def _kernel_manager_factory_default(self):
         return import_item(self.kernel_manager_class)
     
     context = Instance('zmq.Context')
     def _context_default(self):
         return zmq.Context.instance()
     
     connection_dir = Unicode('')
 
     _kernels = Dict()
 
     @property
     def kernel_ids(self):
         """Return a list of the kernel ids of the active kernels."""
         return self._kernels.keys()
 
     def __len__(self):
         """Return the number of running kernels."""
         return len(self.kernel_ids)
 
     def __contains__(self, kernel_id):
         if kernel_id in self.kernel_ids:
             return True
         else:
             return False
 
     def start_kernel(self, **kwargs):
         """Start a new kernel."""
         kernel_id = unicode(uuid.uuid4())
         # use base KernelManager for each Kernel
         km = self.kernel_manager_factory(connection_file=os.path.join(
                     self.connection_dir, "kernel-%s.json" % kernel_id),
                     config=self.config,
         )
         km.start_kernel(**kwargs)
+        # start just the shell channel, needed for graceful restart
+        km.start_channels(shell=True, sub=False, stdin=False, hb=False)
         self._kernels[kernel_id] = km
         return kernel_id
 
+    def shutdown_kernel(self, kernel_id):
+        """Shutdown a kernel by its kernel uuid.
+
+        Parameters
+        ==========
+        kernel_id : uuid
+            The id of the kernel to shutdown.
+        """
+        self.get_kernel(kernel_id).shutdown_kernel()
+        del self._kernels[kernel_id]
+
     def kill_kernel(self, kernel_id):
         """Kill a kernel by its kernel uuid.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel to kill.
         """
         self.get_kernel(kernel_id).kill_kernel()
         del self._kernels[kernel_id]
 
     def interrupt_kernel(self, kernel_id):
         """Interrupt (SIGINT) the kernel by its uuid.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel to interrupt.
         """
         return self.get_kernel(kernel_id).interrupt_kernel()
 
     def signal_kernel(self, kernel_id, signum):
         """ Sends a signal to the kernel by its uuid.
 
         Note that since only SIGTERM is supported on Windows, this function
         is only useful on Unix systems.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel to signal.
         """
         return self.get_kernel(kernel_id).signal_kernel(signum)
 
     def get_kernel(self, kernel_id):
         """Get the single KernelManager object for a kernel by its uuid.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel.
         """
         km = self._kernels.get(kernel_id)
         if km is not None:
             return km
         else:
             raise KeyError("Kernel with id not found: %s" % kernel_id)
 
     def get_kernel_ports(self, kernel_id):
         """Return a dictionary of ports for a kernel.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel.
 
         Returns
         =======
         port_dict : dict
             A dict of key, value pairs where the keys are the names
             (stdin_port,iopub_port,shell_port) and the values are the
             integer port numbers for those channels.
         """
         # this will raise a KeyError if not found:
         km = self.get_kernel(kernel_id)
         return dict(shell_port=km.shell_port,
                     iopub_port=km.iopub_port,
                     stdin_port=km.stdin_port,
                     hb_port=km.hb_port,
         )
 
     def get_kernel_ip(self, kernel_id):
         """Return ip address for a kernel.
 
         Parameters
         ==========
         kernel_id : uuid
             The id of the kernel.
 
         Returns
         =======
         ip : str
             The ip address of the kernel.
         """
         return self.get_kernel(kernel_id).ip
 
     def create_connected_stream(self, ip, port, socket_type):
         sock = self.context.socket(socket_type)
         addr = "tcp://%s:%i" % (ip, port)
         self.log.info("Connecting to: %s" % addr)
         sock.connect(addr)
         return ZMQStream(sock)
 
     def create_iopub_stream(self, kernel_id):
         ip = self.get_kernel_ip(kernel_id)
         ports = self.get_kernel_ports(kernel_id)
         iopub_stream = self.create_connected_stream(ip, ports['iopub_port'], zmq.SUB)
         iopub_stream.socket.setsockopt(zmq.SUBSCRIBE, b'')
         return iopub_stream
 
     def create_shell_stream(self, kernel_id):
         ip = self.get_kernel_ip(kernel_id)
         ports = self.get_kernel_ports(kernel_id)
         shell_stream = self.create_connected_stream(ip, ports['shell_port'], zmq.DEALER)
         return shell_stream
 
     def create_hb_stream(self, kernel_id):
         ip = self.get_kernel_ip(kernel_id)
         ports = self.get_kernel_ports(kernel_id)
         hb_stream = self.create_connected_stream(ip, ports['hb_port'], zmq.REQ)
         return hb_stream
 
 
 class MappingKernelManager(MultiKernelManager):
     """A KernelManager that handles notebok mapping and HTTP error handling"""
 
     kernel_argv = List(Unicode)
     
     time_to_dead = Float(3.0, config=True, help="""Kernel heartbeat interval in seconds.""")
     first_beat = Float(5.0, config=True, help="Delay (in seconds) before sending first heartbeat.")
     
     max_msg_size = Integer(65536, config=True, help="""
         The max raw message size accepted from the browser
         over a WebSocket connection.
     """)
 
     _notebook_mapping = Dict()
 
     #-------------------------------------------------------------------------
     # Methods for managing kernels and sessions
     #-------------------------------------------------------------------------
 
     def kernel_for_notebook(self, notebook_id):
         """Return the kernel_id for a notebook_id or None."""
         return self._notebook_mapping.get(notebook_id)
 
     def set_kernel_for_notebook(self, notebook_id, kernel_id):
         """Associate a notebook with a kernel."""
         if notebook_id is not None:
             self._notebook_mapping[notebook_id] = kernel_id
 
     def notebook_for_kernel(self, kernel_id):
         """Return the notebook_id for a kernel_id or None."""
         notebook_ids = [k for k, v in self._notebook_mapping.iteritems() if v == kernel_id]
         if len(notebook_ids) == 1:
             return notebook_ids[0]
         else:
             return None
 
     def delete_mapping_for_kernel(self, kernel_id):
         """Remove the kernel/notebook mapping for kernel_id."""
         notebook_id = self.notebook_for_kernel(kernel_id)
         if notebook_id is not None:
             del self._notebook_mapping[notebook_id]
 
     def start_kernel(self, notebook_id=None):
         """Start a kernel for a notebok an return its kernel_id.
 
         Parameters
         ----------
         notebook_id : uuid
             The uuid of the notebook to associate the new kernel with. If this
             is not None, this kernel will be persistent whenever the notebook
             requests a kernel.
         """
         kernel_id = self.kernel_for_notebook(notebook_id)
         if kernel_id is None:
             kwargs = dict()
             kwargs['extra_arguments'] = self.kernel_argv
             kernel_id = super(MappingKernelManager, self).start_kernel(**kwargs)
             self.set_kernel_for_notebook(notebook_id, kernel_id)
             self.log.info("Kernel started: %s" % kernel_id)
             self.log.debug("Kernel args: %r" % kwargs)
         else:
             self.log.info("Using existing kernel: %s" % kernel_id)
         return kernel_id
 
+    def shutdown_kernel(self, kernel_id):
+        """Shutdown a kernel and remove its notebook association."""
+        self._check_kernel_id(kernel_id)
+        super(MappingKernelManager, self).shutdown_kernel(kernel_id)
+        self.delete_mapping_for_kernel(kernel_id)
+        self.log.info("Kernel shutdown: %s" % kernel_id)
+
     def kill_kernel(self, kernel_id):
         """Kill a kernel and remove its notebook association."""
         self._check_kernel_id(kernel_id)
         super(MappingKernelManager, self).kill_kernel(kernel_id)
         self.delete_mapping_for_kernel(kernel_id)
         self.log.info("Kernel killed: %s" % kernel_id)
 
     def interrupt_kernel(self, kernel_id):
         """Interrupt a kernel."""
         self._check_kernel_id(kernel_id)
         super(MappingKernelManager, self).interrupt_kernel(kernel_id)
         self.log.info("Kernel interrupted: %s" % kernel_id)
 
     def restart_kernel(self, kernel_id):
         """Restart a kernel while keeping clients connected."""
         self._check_kernel_id(kernel_id)
         km = self.get_kernel(kernel_id)
-        km.restart_kernel(now=True)
+        km.restart_kernel()
         self.log.info("Kernel restarted: %s" % kernel_id)
         return kernel_id
         
         # the following remains, in case the KM restart machinery is
         # somehow unacceptable
         # Get the notebook_id to preserve the kernel/notebook association.
         notebook_id = self.notebook_for_kernel(kernel_id)
         # Create the new kernel first so we can move the clients over.
         new_kernel_id = self.start_kernel()
         # Now kill the old kernel.
         self.kill_kernel(kernel_id)
         # Now save the new kernel/notebook association. We have to save it
         # after the old kernel is killed as that will delete the mapping.
         self.set_kernel_for_notebook(notebook_id, new_kernel_id)
         self.log.info("Kernel restarted: %s" % new_kernel_id)
         return new_kernel_id
 
     def create_iopub_stream(self, kernel_id):
         """Create a new iopub stream."""
         self._check_kernel_id(kernel_id)
         return super(MappingKernelManager, self).create_iopub_stream(kernel_id)
 
     def create_shell_stream(self, kernel_id):
         """Create a new shell stream."""
         self._check_kernel_id(kernel_id)
         return super(MappingKernelManager, self).create_shell_stream(kernel_id)
 
     def create_hb_stream(self, kernel_id):
         """Create a new hb stream."""
         self._check_kernel_id(kernel_id)
         return super(MappingKernelManager, self).create_hb_stream(kernel_id)
 
     def _check_kernel_id(self, kernel_id):
         """Check a that a kernel_id exists and raise 404 if not."""
         if kernel_id not in self:
             raise web.HTTPError(404, u'Kernel does not exist: %s' % kernel_id)
 

IPython/frontend/html/notebook/notebookapp.py

@@ -1,584 +1,584 b''
 # coding: utf-8
 """A tornado based IPython notebook server.
 
 Authors:
 
 * Brian Granger
 """
 #-----------------------------------------------------------------------------
 #  Copyright (C) 2008-2011  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
 #-----------------------------------------------------------------------------
 
 # stdlib
 import errno
 import logging
 import os
 import random
 import re
 import select
 import signal
 import socket
 import sys
 import threading
 import time
 import webbrowser
 
 # Third party
 import zmq
 
 # Install the pyzmq ioloop. This has to be done before anything else from
 # tornado is imported.
 from zmq.eventloop import ioloop
 ioloop.install()
 
 from tornado import httpserver
 from tornado import web
 
 # Our own libraries
 from .kernelmanager import MappingKernelManager
 from .handlers import (LoginHandler, LogoutHandler,
     ProjectDashboardHandler, NewHandler, NamedNotebookHandler,
     MainKernelHandler, KernelHandler, KernelActionHandler, IOPubHandler,
     ShellHandler, NotebookRootHandler, NotebookHandler, NotebookCopyHandler,
     RSTHandler, AuthenticatedFileHandler, PrintNotebookHandler,
     MainClusterHandler, ClusterProfileHandler, ClusterActionHandler
 )
 from .notebookmanager import NotebookManager
 from .clustermanager import ClusterManager
 
 from IPython.config.application import catch_config_error, boolean_flag
 from IPython.core.application import BaseIPythonApplication
 from IPython.core.profiledir import ProfileDir
 from IPython.frontend.consoleapp import IPythonConsoleApp
 from IPython.lib.kernel import swallow_argv
 from IPython.zmq.session import Session, default_secure
 from IPython.zmq.zmqshell import ZMQInteractiveShell
 from IPython.zmq.ipkernel import (
     flags as ipkernel_flags,
     aliases as ipkernel_aliases,
     IPKernelApp
 )
 from IPython.utils.traitlets import Dict, Unicode, Integer, List, Enum, Bool
 from IPython.utils import py3compat
 
 #-----------------------------------------------------------------------------
 # Module globals
 #-----------------------------------------------------------------------------
 
 _kernel_id_regex = r"(?P<kernel_id>\w+-\w+-\w+-\w+-\w+)"
 _kernel_action_regex = r"(?P<action>restart|interrupt)"
 _notebook_id_regex = r"(?P<notebook_id>\w+-\w+-\w+-\w+-\w+)"
 _profile_regex = r"(?P<profile>[a-zA-Z0-9]+)"
 _cluster_action_regex = r"(?P<action>start|stop)"
 
 
 LOCALHOST = '127.0.0.1'
 
 _examples = """
 ipython notebook                       # start the notebook
 ipython notebook --profile=sympy       # use the sympy profile
 ipython notebook --pylab=inline        # pylab in inline plotting mode
 ipython notebook --certfile=mycert.pem # use SSL/TLS certificate
 ipython notebook --port=5555 --ip=*    # Listen on port 5555, all interfaces
 """
 
 #-----------------------------------------------------------------------------
 # Helper functions
 #-----------------------------------------------------------------------------
 
 def url_path_join(a,b):
     if a.endswith('/') and b.startswith('/'):
         return a[:-1]+b
     else:
         return a+b
 
 def random_ports(port, n):
     """Generate a list of n random ports near the given port.
 
     The first 5 ports will be sequential, and the remaining n-5 will be
     randomly selected in the range [port-2*n, port+2*n].
     """
     for i in range(min(5, n)):
         yield port + i
     for i in range(n-5):
         yield port + random.randint(-2*n, 2*n)
 
 #-----------------------------------------------------------------------------
 # The Tornado web application
 #-----------------------------------------------------------------------------
 
 class NotebookWebApplication(web.Application):
 
     def __init__(self, ipython_app, kernel_manager, notebook_manager, 
                  cluster_manager, log,
                  base_project_url, settings_overrides):
         handlers = [
             (r"/", ProjectDashboardHandler),
             (r"/login", LoginHandler),
             (r"/logout", LogoutHandler),
             (r"/new", NewHandler),
             (r"/%s" % _notebook_id_regex, NamedNotebookHandler),
             (r"/%s/copy" % _notebook_id_regex, NotebookCopyHandler),
             (r"/%s/print" % _notebook_id_regex, PrintNotebookHandler),
             (r"/kernels", MainKernelHandler),
             (r"/kernels/%s" % _kernel_id_regex, KernelHandler),
             (r"/kernels/%s/%s" % (_kernel_id_regex, _kernel_action_regex), KernelActionHandler),
             (r"/kernels/%s/iopub" % _kernel_id_regex, IOPubHandler),
             (r"/kernels/%s/shell" % _kernel_id_regex, ShellHandler),
             (r"/notebooks", NotebookRootHandler),
             (r"/notebooks/%s" % _notebook_id_regex, NotebookHandler),
             (r"/rstservice/render", RSTHandler),
             (r"/files/(.*)", AuthenticatedFileHandler, {'path' : notebook_manager.notebook_dir}),
             (r"/clusters", MainClusterHandler),
             (r"/clusters/%s/%s" % (_profile_regex, _cluster_action_regex), ClusterActionHandler),
             (r"/clusters/%s" % _profile_regex, ClusterProfileHandler),
         ]
         settings = dict(
             template_path=os.path.join(os.path.dirname(__file__), "templates"),
             static_path=os.path.join(os.path.dirname(__file__), "static"),
             cookie_secret=os.urandom(1024),
             login_url="/login",
         )
 
         # allow custom overrides for the tornado web app.
         settings.update(settings_overrides)
 
         # Python < 2.6.5 doesn't accept unicode keys in f(**kwargs), and
         # base_project_url will always be unicode, which will in turn
         # make the patterns unicode, and ultimately result in unicode
         # keys in kwargs to handler._execute(**kwargs) in tornado.
         # This enforces that base_project_url be ascii in that situation.
         # 
         # Note that the URLs these patterns check against are escaped,
         # and thus guaranteed to be ASCII: 'héllo' is really 'h%C3%A9llo'.
         base_project_url = py3compat.unicode_to_str(base_project_url, 'ascii')
         
         # prepend base_project_url onto the patterns that we match
         new_handlers = []
         for handler in handlers:
             pattern = url_path_join(base_project_url, handler[0])
             new_handler = tuple([pattern]+list(handler[1:]))
             new_handlers.append( new_handler )
 
         super(NotebookWebApplication, self).__init__(new_handlers, **settings)
 
         self.kernel_manager = kernel_manager
         self.notebook_manager = notebook_manager
         self.cluster_manager = cluster_manager
         self.ipython_app = ipython_app
         self.read_only = self.ipython_app.read_only
         self.log = log
 
 
 #-----------------------------------------------------------------------------
 # Aliases and Flags
 #-----------------------------------------------------------------------------
 
 flags = dict(ipkernel_flags)
 flags['no-browser']=(
     {'NotebookApp' : {'open_browser' : False}},
     "Don't open the notebook in a browser after startup."
 )
 flags['no-mathjax']=(
     {'NotebookApp' : {'enable_mathjax' : False}},
     """Disable MathJax
     
     MathJax is the javascript library IPython uses to render math/LaTeX. It is
     very large, so you may want to disable it if you have a slow internet
     connection, or for offline use of the notebook.
     
     When disabled, equations etc. will appear as their untransformed TeX source.
     """
 )
 flags['read-only'] = (
     {'NotebookApp' : {'read_only' : True}},
     """Allow read-only access to notebooks.
     
     When using a password to protect the notebook server, this flag
     allows unauthenticated clients to view the notebook list, and
     individual notebooks, but not edit them, start kernels, or run
     code.
     
     If no password is set, the server will be entirely read-only.
     """
 )
 
 # Add notebook manager flags
 flags.update(boolean_flag('script', 'NotebookManager.save_script',
                'Auto-save a .py script everytime the .ipynb notebook is saved',
                'Do not auto-save .py scripts for every notebook'))
 
 # the flags that are specific to the frontend
 # these must be scrubbed before being passed to the kernel,
 # or it will raise an error on unrecognized flags
 notebook_flags = ['no-browser', 'no-mathjax', 'read-only', 'script', 'no-script']
 
 aliases = dict(ipkernel_aliases)
 
 aliases.update({
     'ip': 'NotebookApp.ip',
     'port': 'NotebookApp.port',
     'port-retries': 'NotebookApp.port_retries',
     'keyfile': 'NotebookApp.keyfile',
     'certfile': 'NotebookApp.certfile',
     'notebook-dir': 'NotebookManager.notebook_dir',
     'browser': 'NotebookApp.browser',
 })
 
 # remove ipkernel flags that are singletons, and don't make sense in
 # multi-kernel evironment:
 aliases.pop('f', None)
 
 notebook_aliases = [u'port', u'port-retries', u'ip', u'keyfile', u'certfile',
                     u'notebook-dir']
 
 #-----------------------------------------------------------------------------
 # NotebookApp
 #-----------------------------------------------------------------------------
 
 class NotebookApp(BaseIPythonApplication):
 
     name = 'ipython-notebook'
     default_config_file_name='ipython_notebook_config.py'
     
     description = """
         The IPython HTML Notebook.
         
         This launches a Tornado based HTML Notebook Server that serves up an
         HTML5/Javascript Notebook client.
     """
     examples = _examples
     
     classes = IPythonConsoleApp.classes + [MappingKernelManager, NotebookManager]
     flags = Dict(flags)
     aliases = Dict(aliases)
 
     kernel_argv = List(Unicode)
 
     log_level = Enum((0,10,20,30,40,50,'DEBUG','INFO','WARN','ERROR','CRITICAL'),
                     default_value=logging.INFO,
                     config=True,
                     help="Set the log level by value or name.")
 
     # create requested profiles by default, if they don't exist:
     auto_create = Bool(True)
 
     # file to be opened in the notebook server
     file_to_run = Unicode('')
 
     # Network related information.
 
     ip = Unicode(LOCALHOST, config=True,
         help="The IP address the notebook server will listen on."
     )
 
     def _ip_changed(self, name, old, new):
         if new == u'*': self.ip = u''
 
     port = Integer(8888, config=True,
         help="The port the notebook server will listen on."
     )
     port_retries = Integer(50, config=True,
         help="The number of additional ports to try if the specified port is not available."
     )
 
     certfile = Unicode(u'', config=True, 
         help="""The full path to an SSL/TLS certificate file."""
     )
     
     keyfile = Unicode(u'', config=True, 
         help="""The full path to a private key file for usage with SSL/TLS."""
     )
 
     password = Unicode(u'', config=True,
                       help="""Hashed password to use for web authentication.
 
                       To generate, type in a python/IPython shell:
 
                         from IPython.lib import passwd; passwd()
 
                       The string should be of the form type:salt:hashed-password.
                       """
     )
 
     open_browser = Bool(True, config=True,
                         help="""Whether to open in a browser after starting.
                         The specific browser used is platform dependent and
                         determined by the python standard library `webbrowser`
                         module, unless it is overridden using the --browser
                         (NotebookApp.browser) configuration option.
                         """)
 
     browser = Unicode(u'', config=True,
                       help="""Specify what command to use to invoke a web
                       browser when opening the notebook. If not specified, the
                       default browser will be determined by the `webbrowser`
                       standard library module, which allows setting of the
                       BROWSER environment variable to override it.
                       """)
     
     read_only = Bool(False, config=True,
         help="Whether to prevent editing/execution of notebooks."
     )
     
     webapp_settings = Dict(config=True,
             help="Supply overrides for the tornado.web.Application that the "
                  "IPython notebook uses.")
     
     enable_mathjax = Bool(True, config=True,
         help="""Whether to enable MathJax for typesetting math/TeX
 
         MathJax is the javascript library IPython uses to render math/LaTeX. It is
         very large, so you may want to disable it if you have a slow internet
         connection, or for offline use of the notebook.
 
         When disabled, equations etc. will appear as their untransformed TeX source.
         """
     )
     def _enable_mathjax_changed(self, name, old, new):
         """set mathjax url to empty if mathjax is disabled"""
         if not new:
             self.mathjax_url = u''
 
     base_project_url = Unicode('/', config=True,
                                help='''The base URL for the notebook server''')
     base_kernel_url = Unicode('/', config=True,
                                help='''The base URL for the kernel server''')
     websocket_host = Unicode("", config=True,
         help="""The hostname for the websocket server."""
     )
 
     mathjax_url = Unicode("", config=True,
         help="""The url for MathJax.js."""
     )
     def _mathjax_url_default(self):
         if not self.enable_mathjax:
             return u''
         static_path = self.webapp_settings.get("static_path", os.path.join(os.path.dirname(__file__), "static"))
         static_url_prefix = self.webapp_settings.get("static_url_prefix",
                                                      "/static/")
         if os.path.exists(os.path.join(static_path, 'mathjax', "MathJax.js")):
             self.log.info("Using local MathJax")
             return static_url_prefix+u"mathjax/MathJax.js"
         else:
             if self.certfile:
                 # HTTPS: load from Rackspace CDN, because SSL certificate requires it
                 base = u"https://c328740.ssl.cf1.rackcdn.com"
             else:
                 base = u"http://cdn.mathjax.org"
             
             url = base + u"/mathjax/latest/MathJax.js"
             self.log.info("Using MathJax from CDN: %s", url)
             return url
     
     def _mathjax_url_changed(self, name, old, new):
         if new and not self.enable_mathjax:
             # enable_mathjax=False overrides mathjax_url
             self.mathjax_url = u''
         else:
             self.log.info("Using MathJax: %s", new)
 
     def parse_command_line(self, argv=None):
         super(NotebookApp, self).parse_command_line(argv)
         if argv is None:
             argv = sys.argv[1:]
 
         # Scrub frontend-specific flags
         self.kernel_argv = swallow_argv(argv, notebook_aliases, notebook_flags)
         # Kernel should inherit default config file from frontend
         self.kernel_argv.append("--KernelApp.parent_appname='%s'"%self.name)
 
         if self.extra_args:
             self.file_to_run = os.path.abspath(self.extra_args[0])
             self.config.NotebookManager.notebook_dir = os.path.dirname(self.file_to_run)
 
     def init_configurables(self):
         # force Session default to be secure
         default_secure(self.config)
         # Create a KernelManager and start a kernel.
         self.kernel_manager = MappingKernelManager(
             config=self.config, log=self.log, kernel_argv=self.kernel_argv,
             connection_dir = self.profile_dir.security_dir,
         )
         self.notebook_manager = NotebookManager(config=self.config, log=self.log)
         self.notebook_manager.list_notebooks()
         self.cluster_manager = ClusterManager(config=self.config, log=self.log)
         self.cluster_manager.update_profiles()
 
     def init_logging(self):
         # This prevents double log messages because tornado use a root logger that
         # self.log is a child of. The logging module dipatches log messages to a log
         # and all of its ancenstors until propagate is set to False.
         self.log.propagate = False
     
     def init_webapp(self):
         """initialize tornado webapp and httpserver"""
         self.web_app = NotebookWebApplication(
             self, self.kernel_manager, self.notebook_manager, 
             self.cluster_manager, self.log,
             self.base_project_url, self.webapp_settings
         )
         if self.certfile:
             ssl_options = dict(certfile=self.certfile)
             if self.keyfile:
                 ssl_options['keyfile'] = self.keyfile
         else:
             ssl_options = None
         self.web_app.password = self.password
         self.http_server = httpserver.HTTPServer(self.web_app, ssl_options=ssl_options)
         if ssl_options is None and not self.ip and not (self.read_only and not self.password):
             self.log.critical('WARNING: the notebook server is listening on all IP addresses '
                               'but not using any encryption or authentication. This is highly '
                               'insecure and not recommended.')
 
         success = None
         for port in random_ports(self.port, self.port_retries+1):
             try:
                 self.http_server.listen(port, self.ip)
             except socket.error, e:
                 if e.errno != errno.EADDRINUSE:
                     raise
                 self.log.info('The port %i is already in use, trying another random port.' % port)
             else:
                 self.port = port
                 success = True
                 break
         if not success:
             self.log.critical('ERROR: the notebook server could not be started because '
                               'no available port could be found.')
             self.exit(1)
     
     def init_signal(self):
         # FIXME: remove this check when pyzmq dependency is >= 2.1.11
         # safely extract zmq version info:
         try:
             zmq_v = zmq.pyzmq_version_info()
         except AttributeError:
             zmq_v = [ int(n) for n in re.findall(r'\d+', zmq.__version__) ]
             if 'dev' in zmq.__version__:
                 zmq_v.append(999)
             zmq_v = tuple(zmq_v)
         if zmq_v >= (2,1,9):
             # This won't work with 2.1.7 and
             # 2.1.9-10 will log ugly 'Interrupted system call' messages,
             # but it will work
             signal.signal(signal.SIGINT, self._handle_sigint)
         signal.signal(signal.SIGTERM, self._signal_stop)
     
     def _handle_sigint(self, sig, frame):
         """SIGINT handler spawns confirmation dialog"""
         # register more forceful signal handler for ^C^C case
         signal.signal(signal.SIGINT, self._signal_stop)
         # request confirmation dialog in bg thread, to avoid
         # blocking the App
         thread = threading.Thread(target=self._confirm_exit)
         thread.daemon = True
         thread.start()
     
     def _restore_sigint_handler(self):
         """callback for restoring original SIGINT handler"""
         signal.signal(signal.SIGINT, self._handle_sigint)
     
     def _confirm_exit(self):
         """confirm shutdown on ^C
         
         A second ^C, or answering 'y' within 5s will cause shutdown,
         otherwise original SIGINT handler will be restored.
         """
         # FIXME: remove this delay when pyzmq dependency is >= 2.1.11
         time.sleep(0.1)
         sys.stdout.write("Shutdown Notebook Server (y/[n])? ")
         sys.stdout.flush()
         r,w,x = select.select([sys.stdin], [], [], 5)
         if r:
             line = sys.stdin.readline()
             if line.lower().startswith('y'):
                 self.log.critical("Shutdown confirmed")
                 ioloop.IOLoop.instance().stop()
                 return
         else:
             print "No answer for 5s:",
         print "resuming operation..."
         # no answer, or answer is no:
         # set it back to original SIGINT handler
         # use IOLoop.add_callback because signal.signal must be called
         # from main thread
         ioloop.IOLoop.instance().add_callback(self._restore_sigint_handler)
     
     def _signal_stop(self, sig, frame):
         self.log.critical("received signal %s, stopping", sig)
         ioloop.IOLoop.instance().stop()
     
     @catch_config_error
     def initialize(self, argv=None):
         self.init_logging()
         super(NotebookApp, self).initialize(argv)
         self.init_configurables()
         self.init_webapp()
         self.init_signal()
 
     def cleanup_kernels(self):
         """shutdown all kernels
         
         The kernels will shutdown themselves when this process no longer exists,
         but explicit shutdown allows the KernelManagers to cleanup the connection files.
         """
         self.log.info('Shutting down kernels')
         km = self.kernel_manager
-        # copy list, since kill_kernel deletes keys
+        # copy list, since shutdown_kernel deletes keys
         for kid in list(km.kernel_ids):
-            km.kill_kernel(kid)
+            km.shutdown_kernel(kid)
 
     def start(self):
         ip = self.ip if self.ip else '[all ip addresses on your system]'
         proto = 'https' if self.certfile else 'http'
         info = self.log.info
         info("The IPython Notebook is running at: %s://%s:%i%s" %
              (proto, ip, self.port,self.base_project_url) )
         info("Use Control-C to stop this server and shut down all kernels.")
 
         if self.open_browser:
             ip = self.ip or '127.0.0.1'
             if self.browser:
                 browser = webbrowser.get(self.browser)
             else:
                 browser = webbrowser.get()
 
             if self.file_to_run:
                 filename, _ = os.path.splitext(os.path.basename(self.file_to_run))
                 for nb in self.notebook_manager.list_notebooks():
                     if filename == nb['name']:
                         url = nb['notebook_id']
                         break
                 else:
                     url = ''
             else:
                 url = ''
             b = lambda : browser.open("%s://%s:%i%s%s" % (proto, ip,
                                         self.port, self.base_project_url, url),
                                     new=2)
             threading.Thread(target=b).start()
         try:
             ioloop.IOLoop.instance().start()
         except KeyboardInterrupt:
             info("Interrupted...")
         finally:
             self.cleanup_kernels()
     
 
 #-----------------------------------------------------------------------------
 # Main entry point
 #-----------------------------------------------------------------------------
 
 def launch_new_instance():
     app = NotebookApp.instance()
     app.initialize()
     app.start()