Merge upstream

IPython/Extensions/ipy_completers.py

@@ -1,359 +1,359 b''
 #!/usr/bin/env python
 
 """ Implementations for various useful completers
 
 See Extensions/ipy_stock_completers.py on examples of how to enable a completer,
 but the basic idea is to do:
 
 ip.set_hook('complete_command', svn_completer, str_key = 'svn')
 
 """
 import IPython.ipapi
 import glob,os,shlex,sys
 import inspect
 from time import time
 ip = IPython.ipapi.get()
 
 try:
     set
 except:
     from sets import Set as set
 
 TIMEOUT_STORAGE = 3 #Time in seconds after which the rootmodules will be stored
 TIMEOUT_GIVEUP = 20 #Time in seconds after which we give up
 
 def quick_completer(cmd, completions):
     """ Easily create a trivial completer for a command.
 
     Takes either a list of completions, or all completions in string
     (that will be split on whitespace)
     
     Example::
     
         [d:\ipython]|1> import ipy_completers                                       
         [d:\ipython]|2> ipy_completers.quick_completer('foo', ['bar','baz'])        
         [d:\ipython]|3> foo b<TAB>
         bar baz                                                                     
         [d:\ipython]|3> foo ba
     """
     if isinstance(completions, basestring):
         
         completions = completions.split()
     def do_complete(self,event):
         return completions
     
     ip.set_hook('complete_command',do_complete, str_key = cmd)
     
 def getRootModules():
     """
     Returns a list containing the names of all the modules available in the
     folders of the pythonpath.
     """
     modules = []
     if ip.db.has_key('rootmodules'):
         return ip.db['rootmodules']
     t = time()
     store = False
     for path in sys.path:
         modules += moduleList(path)        
         if time() - t >= TIMEOUT_STORAGE and not store:
             store = True
             print "\nCaching the list of root modules, please wait!" 
             print "(This will only be done once - type '%rehashx' to " + \
             "reset cache!)"
             print
         if time() - t > TIMEOUT_GIVEUP:
             print "This is taking too long, we give up."
             print
             ip.db['rootmodules'] = []
             return []
     
     modules += sys.builtin_module_names
       
     modules = list(set(modules))
     if '__init__' in modules:
         modules.remove('__init__')
     modules = list(set(modules))
     if store:
         ip.db['rootmodules'] = modules
     return modules
 
 def moduleList(path):
     """
     Return the list containing the names of the modules available in the given
     folder.
     """
 
     if os.path.isdir(path):
         folder_list = os.listdir(path)
     else:
         folder_list = []
     #folder_list = glob.glob(os.path.join(path,'*'))
     folder_list = [p for p in folder_list  \
        if os.path.exists(os.path.join(path, p,'__init__.py'))\
            or p[-3:] in ('.py','.so')\
-           or p[-4:] in ('.pyc','.pyo')]
+           or p[-4:] in ('.pyc','.pyo','.pyd')]
 
     folder_list = [os.path.basename(p).split('.')[0] for p in folder_list]
     return folder_list
 
 def moduleCompletion(line):
     """
     Returns a list containing the completion possibilities for an import line.
     The line looks like this :
     'import xml.d'
     'from xml.dom import'
     """
     def tryImport(mod, only_modules=False):
         def isImportable(module, attr):
             if only_modules:
                 return inspect.ismodule(getattr(module, attr))
             else:
                 return not(attr[:2] == '__' and attr[-2:] == '__')
         try:
             m = __import__(mod)
         except:
             return []
         mods = mod.split('.')
         for module in mods[1:]:
             m = getattr(m,module)
         if (not hasattr(m, '__file__')) or (not only_modules) or\
            (hasattr(m, '__file__') and '__init__' in m.__file__):
             completion_list = [attr for attr in dir(m) if isImportable(m, attr)]
         completion_list.extend(getattr(m,'__all__',[]))
         if hasattr(m, '__file__') and '__init__' in m.__file__:
             completion_list.extend(moduleList(os.path.dirname(m.__file__)))
         completion_list = list(set(completion_list))
         if '__init__' in completion_list:
             completion_list.remove('__init__')
         return completion_list
 
     words = line.split(' ')
     if len(words) == 3 and words[0] == 'from':
         return ['import ']
     if len(words) < 3 and (words[0] in ['import','from']) :
         if len(words) == 1:
             return getRootModules()
         mod = words[1].split('.')
         if len(mod) < 2:
             return getRootModules()
         completion_list = tryImport('.'.join(mod[:-1]), True)
         completion_list = ['.'.join(mod[:-1] + [el]) for el in completion_list]
         return completion_list
     if len(words) >= 3 and words[0] == 'from':
         mod = words[1]
         return tryImport(mod)
 
 def vcs_completer(commands, event):
     """ utility to make writing typical version control app completers easier
 
     VCS command line apps typically have the format:
 
     [sudo ]PROGNAME [help] [command] file file...
 
     """
 
 
     cmd_param = event.line.split()
     if event.line.endswith(' '):
         cmd_param.append('')
 
     if cmd_param[0] == 'sudo':
         cmd_param = cmd_param[1:]
 
     if len(cmd_param) == 2 or 'help' in cmd_param:
         return commands.split()
 
     return ip.IP.Completer.file_matches(event.symbol)
 
 
 pkg_cache = None
 
 def module_completer(self,event):
     """ Give completions after user has typed 'import ...' or 'from ...'"""
 
     # This works in all versions of python.  While 2.5 has
     # pkgutil.walk_packages(), that particular routine is fairly dangerous,
     # since it imports *EVERYTHING* on sys.path.  That is: a) very slow b) full
     # of possibly problematic side effects.
     # This search the folders in the sys.path for available modules.
 
     return moduleCompletion(event.line)
 
 
 svn_commands = """\
 add blame praise annotate ann cat checkout co cleanup commit ci copy
 cp delete del remove rm diff di export help ? h import info list ls
 lock log merge mkdir move mv rename ren propdel pdel pd propedit pedit
 pe propget pget pg proplist plist pl propset pset ps resolved revert
 status stat st switch sw unlock update
 """
 
 def svn_completer(self,event):
     return vcs_completer(svn_commands, event)
 
 
 hg_commands = """
 add addremove annotate archive backout branch branches bundle cat
 clone commit copy diff export grep heads help identify import incoming
 init locate log manifest merge outgoing parents paths pull push
 qapplied qclone qcommit qdelete qdiff qfold qguard qheader qimport
 qinit qnew qnext qpop qprev qpush qrefresh qrename qrestore qsave
 qselect qseries qtop qunapplied recover remove rename revert rollback
 root serve showconfig status strip tag tags tip unbundle update verify
 version
 """
 
 def hg_completer(self,event):
     """ Completer for mercurial commands """
 
     return vcs_completer(hg_commands, event)
 
 
 
 __bzr_commands = None
 
 def bzr_commands():
     global __bzr_commands
     if __bzr_commands is not None:
         return __bzr_commands
     out = os.popen('bzr help commands')
     __bzr_commands = [l.split()[0] for l in out]
     return __bzr_commands                
 
 def bzr_completer(self,event):
     """ Completer for bazaar commands """
     cmd_param = event.line.split()
     if event.line.endswith(' '):
         cmd_param.append('')
 
     if len(cmd_param) > 2:
         cmd = cmd_param[1]
         param = cmd_param[-1]
         output_file = (param == '--output=')
         if cmd == 'help':
             return bzr_commands()
         elif cmd in ['bundle-revisions','conflicts',
                      'deleted','nick','register-branch',
                      'serve','unbind','upgrade','version',
                      'whoami'] and not output_file:
             return []
         else:
             # the rest are probably file names
             return ip.IP.Completer.file_matches(event.symbol)
 
     return bzr_commands()
 
 
 def shlex_split(x):
     """Helper function to split lines into segments."""
     #shlex.split raise exception if syntax error in sh syntax
     #for example if no closing " is found. This function keeps dropping
     #the last character of the line until shlex.split does not raise
     #exception. Adds end of the line to the result of shlex.split
     #example: %run "c:/python  -> ['%run','"c:/python']
     endofline=[]
     while x!="":
         try:
             comps=shlex.split(x)
             if len(endofline)>=1:
                 comps.append("".join(endofline))
             return comps
         except ValueError:
             endofline=[x[-1:]]+endofline
             x=x[:-1]
     return ["".join(endofline)]
 
 def runlistpy(self, event):
     comps = shlex_split(event.line)
     relpath = (len(comps) > 1 and comps[-1] or '').strip("'\"")
 
     #print "\nev=",event  # dbg
     #print "rp=",relpath  # dbg
     #print 'comps=',comps  # dbg
 
     lglob = glob.glob
     isdir = os.path.isdir
     if relpath.startswith('~'):
         relpath = os.path.expanduser(relpath)
     dirs = [f.replace('\\','/') + "/" for f in lglob(relpath+'*')
             if isdir(f)]
 
     # Find if the user has already typed the first filename, after which we
     # should complete on all files, since after the first one other files may
     # be arguments to the input script.
     #filter(
     if filter(lambda f: f.endswith('.py') or f.endswith('.ipy') or
               f.endswith('.pyw'),comps):
         pys =  [f.replace('\\','/') for f in lglob('*')]
     else:
         pys =  [f.replace('\\','/')
                 for f in lglob(relpath+'*.py') + lglob(relpath+'*.ipy') +
                 lglob(relpath + '*.pyw')]
     return dirs + pys
 
 
 def cd_completer(self, event):
     relpath = event.symbol
     #print event # dbg
     if '-b' in event.line:
         # return only bookmark completions
         bkms = self.db.get('bookmarks',{})
         return bkms.keys()
 
     
     if event.symbol == '-':
         width_dh = str(len(str(len(ip.user_ns['_dh']) + 1)))
         # jump in directory history by number
         fmt = '-%0' + width_dh +'d [%s]'
         ents = [ fmt % (i,s) for i,s in enumerate(ip.user_ns['_dh'])]
         if len(ents) > 1:
             return ents
         return []
 
     if relpath.startswith('~'):
         relpath = os.path.expanduser(relpath).replace('\\','/')
     found = []
     for d in [f.replace('\\','/') + '/' for f in glob.glob(relpath+'*')
               if os.path.isdir(f)]:
         if ' ' in d:
             # we don't want to deal with any of that, complex code
             # for this is elsewhere
             raise IPython.ipapi.TryNext
         found.append( d )
 
     if not found:
         if os.path.isdir(relpath):
             return [relpath]
         raise IPython.ipapi.TryNext
     return found
 
 def apt_get_packages(prefix):
     out = os.popen('apt-cache pkgnames')
     for p in out:
         if p.startswith(prefix):
             yield p.rstrip()
     
     
 apt_commands = """\
 update upgrade install remove purge source build-dep dist-upgrade
 dselect-upgrade clean autoclean check"""
 
 def apt_completer(self, event):
     """ Completer for apt-get (uses apt-cache internally)
 
     """
 
 
     cmd_param = event.line.split()
     if event.line.endswith(' '):
         cmd_param.append('')
 
     if cmd_param[0] == 'sudo':
         cmd_param = cmd_param[1:]
 
     if len(cmd_param) == 2 or 'help' in cmd_param:
         return apt_commands.split()
 
     return list(apt_get_packages(event.symbol))
 

IPython/Magic.py

@@ -1,3296 +1,3311 b''
 # -*- coding: utf-8 -*-
 """Magic functions for InteractiveShell.
 
 $Id: Magic.py 2996 2008-01-30 06:31:39Z fperez $"""
 
 #*****************************************************************************
 #       Copyright (C) 2001 Janko Hauser <[e-mail]> and
 #       Copyright (C) 2001-2006 Fernando Perez <[e-mail]>
 #
 #  Distributed under the terms of the BSD License.  The full license is in
 #  the file COPYING, distributed as part of this software.
 #*****************************************************************************
 
 #****************************************************************************
 # Modules and globals
 
 from IPython import Release
 __author__  = '%s <%s>\n%s <%s>' % \
               ( Release.authors['Janko'] + Release.authors['Fernando'] )
 __license__ = Release.license
 
 # Python standard modules
 import __builtin__
 import bdb
 import inspect
 import os
 import pdb
 import pydoc
 import sys
 import re
 import tempfile
 import time
 import cPickle as pickle
 import textwrap
 from cStringIO import StringIO
 from getopt import getopt,GetoptError
 from pprint import pprint, pformat
 from sets import Set
 
 # cProfile was added in Python2.5
 try:
     import cProfile as profile
     import pstats
 except ImportError:
     # profile isn't bundled by default in Debian for license reasons
     try:
         import profile,pstats
     except ImportError:
         profile = pstats = None
 
 # Homebrewed
 import IPython
 from IPython import Debugger, OInspect, wildcard
 from IPython.FakeModule import FakeModule
 from IPython.Itpl import Itpl, itpl, printpl,itplns
 from IPython.PyColorize import Parser
 from IPython.ipstruct import Struct
 from IPython.macro import Macro
 from IPython.genutils import *
 from IPython import platutils
 import IPython.generics
 import IPython.ipapi
 from IPython.ipapi import UsageError
 #***************************************************************************
 # Utility functions
 def on_off(tag):
     """Return an ON/OFF string for a 1/0 input. Simple utility function."""
     return ['OFF','ON'][tag]
 
 class Bunch: pass
 
 def compress_dhist(dh):
     head, tail = dh[:-10], dh[-10:]
 
     newhead = []
     done = Set()
     for h in head:
         if h in done:
             continue
         newhead.append(h)
         done.add(h)
 
     return newhead + tail        
         
 
 #***************************************************************************
 # Main class implementing Magic functionality
 class Magic:
     """Magic functions for InteractiveShell.
 
     Shell functions which can be reached as %function_name. All magic
     functions should accept a string, which they can parse for their own
     needs. This can make some functions easier to type, eg `%cd ../`
     vs. `%cd("../")`
 
     ALL definitions MUST begin with the prefix magic_. The user won't need it
     at the command line, but it is is needed in the definition. """
 
     # class globals
     auto_status = ['Automagic is OFF, % prefix IS needed for magic functions.',
                    'Automagic is ON, % prefix NOT needed for magic functions.']
 
     #......................................................................
     # some utility functions
 
     def __init__(self,shell):
         
         self.options_table = {}
         if profile is None:
             self.magic_prun = self.profile_missing_notice
         self.shell = shell
 
         # namespace for holding state we may need
         self._magic_state = Bunch()
 
     def profile_missing_notice(self, *args, **kwargs):
         error("""\
 The profile module could not be found.  If you are a Debian user,
 it has been removed from the standard Debian package because of its non-free
 license. To use profiling, please install"python2.3-profiler" from non-free.""")
 
     def default_option(self,fn,optstr):
         """Make an entry in the options_table for fn, with value optstr"""
 
         if fn not in self.lsmagic():
             error("%s is not a magic function" % fn)
         self.options_table[fn] = optstr
 
     def lsmagic(self):
         """Return a list of currently available magic functions.
 
         Gives a list of the bare names after mangling (['ls','cd', ...], not
         ['magic_ls','magic_cd',...]"""
 
         # FIXME. This needs a cleanup, in the way the magics list is built.
         
         # magics in class definition
         class_magic = lambda fn: fn.startswith('magic_') and \
                       callable(Magic.__dict__[fn])
         # in instance namespace (run-time user additions)
         inst_magic =  lambda fn: fn.startswith('magic_') and \
                      callable(self.__dict__[fn])
         # and bound magics by user (so they can access self):
         inst_bound_magic =  lambda fn: fn.startswith('magic_') and \
                            callable(self.__class__.__dict__[fn])
         magics = filter(class_magic,Magic.__dict__.keys()) + \
                  filter(inst_magic,self.__dict__.keys()) + \
                  filter(inst_bound_magic,self.__class__.__dict__.keys())
         out = []
-        for fn in magics:
+        for fn in Set(magics):
             out.append(fn.replace('magic_','',1))
         out.sort()
         return out
     
     def extract_input_slices(self,slices,raw=False):
         """Return as a string a set of input history slices.
 
         Inputs:
 
           - slices: the set of slices is given as a list of strings (like
           ['1','4:8','9'], since this function is for use by magic functions
           which get their arguments as strings.
 
         Optional inputs:
 
           - raw(False): by default, the processed input is used.  If this is
           true, the raw input history is used instead.
 
         Note that slices can be called with two notations:
 
         N:M -> standard python form, means including items N...(M-1).
 
         N-M -> include items N..M (closed endpoint)."""
 
         if raw:
             hist = self.shell.input_hist_raw
         else:
             hist = self.shell.input_hist
 
         cmds = []
         for chunk in slices:
             if ':' in chunk:
                 ini,fin = map(int,chunk.split(':'))
             elif '-' in chunk:
                 ini,fin = map(int,chunk.split('-'))
                 fin += 1
             else:
                 ini = int(chunk)
                 fin = ini+1
             cmds.append(hist[ini:fin])
         return cmds
         
     def _ofind(self, oname, namespaces=None):
         """Find an object in the available namespaces.
 
         self._ofind(oname) -> dict with keys: found,obj,ospace,ismagic
 
         Has special code to detect magic functions.
         """
         
         oname = oname.strip()
 
         alias_ns = None
         if namespaces is None:
             # Namespaces to search in:
             # Put them in a list. The order is important so that we
             # find things in the same order that Python finds them.
             namespaces = [ ('Interactive', self.shell.user_ns),
                            ('IPython internal', self.shell.internal_ns),
                            ('Python builtin', __builtin__.__dict__),
                            ('Alias', self.shell.alias_table),
                            ]
             alias_ns = self.shell.alias_table
 
         # initialize results to 'null'
         found = 0; obj = None;  ospace = None;  ds = None;
         ismagic = 0; isalias = 0; parent = None
 
         # Look for the given name by splitting it in parts.  If the head is
         # found, then we look for all the remaining parts as members, and only
         # declare success if we can find them all.
         oname_parts = oname.split('.')
         oname_head, oname_rest = oname_parts[0],oname_parts[1:]
         for nsname,ns in namespaces:
             try:
                 obj = ns[oname_head]
             except KeyError:
                 continue
             else:
                 #print 'oname_rest:', oname_rest  # dbg
                 for part in oname_rest:
                     try:
                         parent = obj
                         obj = getattr(obj,part)
                     except:
                         # Blanket except b/c some badly implemented objects
                         # allow __getattr__ to raise exceptions other than
                         # AttributeError, which then crashes IPython.
                         break
                 else:
                     # If we finish the for loop (no break), we got all members
                     found = 1
                     ospace = nsname
                     if ns == alias_ns:
                         isalias = 1
                     break  # namespace loop
 
         # Try to see if it's magic
         if not found:
             if oname.startswith(self.shell.ESC_MAGIC):
                 oname = oname[1:]
             obj = getattr(self,'magic_'+oname,None)
             if obj is not None:
                 found = 1
                 ospace = 'IPython internal'
                 ismagic = 1
 
         # Last try: special-case some literals like '', [], {}, etc:
         if not found and oname_head in ["''",'""','[]','{}','()']:
             obj = eval(oname_head)
             found = 1
             ospace = 'Interactive'
             
         return {'found':found, 'obj':obj, 'namespace':ospace,
                 'ismagic':ismagic, 'isalias':isalias, 'parent':parent}
     
     def arg_err(self,func):
         """Print docstring if incorrect arguments were passed"""
         print 'Error in arguments:'
         print OInspect.getdoc(func)
 
     def format_latex(self,strng):
         """Format a string for latex inclusion."""
 
         # Characters that need to be escaped for latex:
         escape_re = re.compile(r'(%|_|\$|#|&)',re.MULTILINE)
         # Magic command names as headers:
         cmd_name_re = re.compile(r'^(%s.*?):' % self.shell.ESC_MAGIC,
                                  re.MULTILINE)
         # Magic commands 
         cmd_re = re.compile(r'(?P<cmd>%s.+?\b)(?!\}\}:)' % self.shell.ESC_MAGIC,
                             re.MULTILINE)
         # Paragraph continue
         par_re = re.compile(r'\\$',re.MULTILINE)
 
         # The "\n" symbol
         newline_re = re.compile(r'\\n')
 
         # Now build the string for output:
         #strng = cmd_name_re.sub(r'\n\\texttt{\\textsl{\\large \1}}:',strng)
         strng = cmd_name_re.sub(r'\n\\bigskip\n\\texttt{\\textbf{ \1}}:',
                                 strng)
         strng = cmd_re.sub(r'\\texttt{\g<cmd>}',strng)
         strng = par_re.sub(r'\\\\',strng)
         strng = escape_re.sub(r'\\\1',strng)
         strng = newline_re.sub(r'\\textbackslash{}n',strng)
         return strng
 
     def format_screen(self,strng):
         """Format a string for screen printing.
 
         This removes some latex-type format codes."""
         # Paragraph continue
         par_re = re.compile(r'\\$',re.MULTILINE)
         strng = par_re.sub('',strng)
         return strng
 
     def parse_options(self,arg_str,opt_str,*long_opts,**kw):
         """Parse options passed to an argument string.
 
         The interface is similar to that of getopt(), but it returns back a
         Struct with the options as keys and the stripped argument string still
         as a string.
 
         arg_str is quoted as a true sys.argv vector by using shlex.split.
         This allows us to easily expand variables, glob files, quote
         arguments, etc.
 
         Options:
           -mode: default 'string'. If given as 'list', the argument string is
           returned as a list (split on whitespace) instead of a string.
 
           -list_all: put all option values in lists. Normally only options
           appearing more than once are put in a list.
 
           -posix (True): whether to split the input line in POSIX mode or not,
           as per the conventions outlined in the shlex module from the
           standard library."""
  
         # inject default options at the beginning of the input line
         caller = sys._getframe(1).f_code.co_name.replace('magic_','')
         arg_str = '%s %s' % (self.options_table.get(caller,''),arg_str)
         
         mode = kw.get('mode','string')
         if mode not in ['string','list']:
             raise ValueError,'incorrect mode given: %s' % mode
         # Get options
         list_all = kw.get('list_all',0)
         posix = kw.get('posix',True)
 
         # Check if we have more than one argument to warrant extra processing:
         odict = {}  # Dictionary with options
         args = arg_str.split()
         if len(args) >= 1:
             # If the list of inputs only has 0 or 1 thing in it, there's no
             # need to look for options
             argv = arg_split(arg_str,posix)
             # Do regular option processing
             try:
                 opts,args = getopt(argv,opt_str,*long_opts)
             except GetoptError,e:
                 raise UsageError('%s ( allowed: "%s" %s)' % (e.msg,opt_str, 
                                         " ".join(long_opts)))
             for o,a in opts:
                 if o.startswith('--'):
                     o = o[2:]
                 else:
                     o = o[1:]
                 try:
                     odict[o].append(a)
                 except AttributeError:
                     odict[o] = [odict[o],a]
                 except KeyError:
                     if list_all:
                         odict[o] = [a]
                     else:
                         odict[o] = a
 
         # Prepare opts,args for return
         opts = Struct(odict)
         if mode == 'string':
             args = ' '.join(args)
 
         return opts,args
     
     #......................................................................
     # And now the actual magic functions
 
     # Functions for IPython shell work (vars,funcs, config, etc)
     def magic_lsmagic(self, parameter_s = ''):
         """List currently available magic functions."""
         mesc = self.shell.ESC_MAGIC
         print 'Available magic functions:\n'+mesc+\
               ('  '+mesc).join(self.lsmagic())
         print '\n' + Magic.auto_status[self.shell.rc.automagic]
         return None
         
     def magic_magic(self, parameter_s = ''):
-        """Print information about the magic function system."""
+        """Print information about the magic function system.
+        
+        Supported formats: -latex, -brief, -rest        
+        """
 
         mode = ''
         try:
             if parameter_s.split()[0] == '-latex':
                 mode = 'latex'
             if parameter_s.split()[0] == '-brief':
                 mode = 'brief'
+            if parameter_s.split()[0] == '-rest':
+                mode = 'rest'
+                rest_docs = []
         except:
             pass
 
         magic_docs = []
         for fname in self.lsmagic():
             mname = 'magic_' + fname
             for space in (Magic,self,self.__class__):
                 try:
                     fn = space.__dict__[mname]
                 except KeyError:
                     pass
                 else:
                     break
             if mode == 'brief':
                 # only first line
                 if fn.__doc__:                    
                     fndoc = fn.__doc__.split('\n',1)[0]
                 else:
                     fndoc = 'No documentation'
             else:
-                fndoc = fn.__doc__
+                fndoc = fn.__doc__.rstrip()
+                
+            if mode == 'rest':
+                rest_docs.append('**%s%s**::\n\n\t%s\n\n' %(self.shell.ESC_MAGIC,
+                                                    fname,fndoc))
+                
+            else:
+                magic_docs.append('%s%s:\n\t%s\n' %(self.shell.ESC_MAGIC,
+                                                    fname,fndoc))
                 
-            magic_docs.append('%s%s:\n\t%s\n' %(self.shell.ESC_MAGIC,
-                                                fname,fndoc))
         magic_docs = ''.join(magic_docs)
 
+        if mode == 'rest':
+            return "".join(rest_docs)
+        
         if mode == 'latex':
             print self.format_latex(magic_docs)
             return
         else:
             magic_docs = self.format_screen(magic_docs)
         if mode == 'brief':
             return magic_docs
         
         outmsg = """
 IPython's 'magic' functions
 ===========================
 
 The magic function system provides a series of functions which allow you to
 control the behavior of IPython itself, plus a lot of system-type
 features. All these functions are prefixed with a % character, but parameters
 are given without parentheses or quotes.
 
 NOTE: If you have 'automagic' enabled (via the command line option or with the
 %automagic function), you don't need to type in the % explicitly.  By default,
 IPython ships with automagic on, so you should only rarely need the % escape.
 
 Example: typing '%cd mydir' (without the quotes) changes you working directory
 to 'mydir', if it exists.
 
 You can define your own magic functions to extend the system. See the supplied
 ipythonrc and example-magic.py files for details (in your ipython
 configuration directory, typically $HOME/.ipython/).
 
 You can also define your own aliased names for magic functions. In your
 ipythonrc file, placing a line like:
 
   execute __IPYTHON__.magic_pf = __IPYTHON__.magic_profile
 
 will define %pf as a new name for %profile.
 
 You can also call magics in code using the ipmagic() function, which IPython
 automatically adds to the builtin namespace.  Type 'ipmagic?' for details.
 
 For a list of the available magic functions, use %lsmagic. For a description
 of any of them, type %magic_name?, e.g. '%cd?'.
 
 Currently the magic system has the following functions:\n"""
 
         mesc = self.shell.ESC_MAGIC
         outmsg = ("%s\n%s\n\nSummary of magic functions (from %slsmagic):"
                   "\n\n%s%s\n\n%s" % (outmsg,
                                      magic_docs,mesc,mesc,
                                      ('  '+mesc).join(self.lsmagic()),
                                      Magic.auto_status[self.shell.rc.automagic] ) )
 
         page(outmsg,screen_lines=self.shell.rc.screen_length)
   
 
     def magic_autoindent(self, parameter_s = ''):
         """Toggle autoindent on/off (if available)."""
 
         self.shell.set_autoindent()
         print "Automatic indentation is:",['OFF','ON'][self.shell.autoindent]
 
 
     def magic_automagic(self, parameter_s = ''):
         """Make magic functions callable without having to type the initial %.
 
         Without argumentsl toggles on/off (when off, you must call it as
         %automagic, of course).  With arguments it sets the value, and you can
         use any of (case insensitive):
 
          - on,1,True: to activate
 
          - off,0,False: to deactivate.
 
         Note that magic functions have lowest priority, so if there's a
         variable whose name collides with that of a magic fn, automagic won't
         work for that function (you get the variable instead). However, if you
         delete the variable (del var), the previously shadowed magic function
         becomes visible to automagic again."""
 
         rc = self.shell.rc
         arg = parameter_s.lower()
         if parameter_s in ('on','1','true'):
             rc.automagic = True
         elif parameter_s in ('off','0','false'):
             rc.automagic = False
         else:
             rc.automagic = not rc.automagic
         print '\n' + Magic.auto_status[rc.automagic]
 
 
     def magic_autocall(self, parameter_s = ''):
         """Make functions callable without having to type parentheses.
 
         Usage:
 
            %autocall [mode]
 
         The mode can be one of: 0->Off, 1->Smart, 2->Full.  If not given, the
         value is toggled on and off (remembering the previous state).
 
         In more detail, these values mean:
 
         0 -> fully disabled
 
         1 -> active, but do not apply if there are no arguments on the line.
 
         In this mode, you get:
 
         In [1]: callable
         Out[1]: <built-in function callable>
 
         In [2]: callable 'hello'
         ------> callable('hello')
         Out[2]: False
 
         2 -> Active always.  Even if no arguments are present, the callable
         object is called:
 
         In [4]: callable
         ------> callable()
 
         Note that even with autocall off, you can still use '/' at the start of
         a line to treat the first argument on the command line as a function
         and add parentheses to it:
 
         In [8]: /str 43
         ------> str(43)
         Out[8]: '43'
         """
 
         rc = self.shell.rc
 
         if parameter_s:
             arg = int(parameter_s)
         else:
             arg = 'toggle'
 
         if not arg in (0,1,2,'toggle'):
             error('Valid modes: (0->Off, 1->Smart, 2->Full')
             return
 
         if arg in (0,1,2):
             rc.autocall = arg
         else: # toggle
             if rc.autocall:
                 self._magic_state.autocall_save = rc.autocall
                 rc.autocall = 0
             else:
                 try:
                     rc.autocall = self._magic_state.autocall_save
                 except AttributeError:
                     rc.autocall = self._magic_state.autocall_save = 1
 
         print "Automatic calling is:",['OFF','Smart','Full'][rc.autocall]
 
     def magic_system_verbose(self, parameter_s = ''):
         """Set verbose printing of system calls.
 
         If called without an argument, act as a toggle"""
 
         if parameter_s:
             val = bool(eval(parameter_s))
         else:
             val = None
             
         self.shell.rc_set_toggle('system_verbose',val)
         print "System verbose printing is:",\
               ['OFF','ON'][self.shell.rc.system_verbose]
 
 
     def magic_page(self, parameter_s=''):
         """Pretty print the object and display it through a pager.
         
         %page [options] OBJECT
 
         If no object is given, use _ (last output).
         
         Options:
 
           -r: page str(object), don't pretty-print it."""
 
         # After a function contributed by Olivier Aubert, slightly modified.
 
         # Process options/args
         opts,args = self.parse_options(parameter_s,'r')
         raw = 'r' in opts
 
         oname = args and args or '_'
         info = self._ofind(oname)
         if info['found']:
             txt = (raw and str or pformat)( info['obj'] )
             page(txt)
         else:
             print 'Object `%s` not found' % oname
 
     def magic_profile(self, parameter_s=''):
         """Print your currently active IPyhton profile."""
         if self.shell.rc.profile:
             printpl('Current IPython profile: $self.shell.rc.profile.')
         else:
             print 'No profile active.'
 
     def magic_pinfo(self, parameter_s='', namespaces=None):
         """Provide detailed information about an object.
     
         '%pinfo object' is just a synonym for object? or ?object."""
     
         #print 'pinfo par: <%s>' % parameter_s  # dbg
     
         
         # detail_level: 0 -> obj? , 1 -> obj??
         detail_level = 0
         # We need to detect if we got called as 'pinfo pinfo foo', which can
         # happen if the user types 'pinfo foo?' at the cmd line.
         pinfo,qmark1,oname,qmark2 = \
                re.match('(pinfo )?(\?*)(.*?)(\??$)',parameter_s).groups()
         if pinfo or qmark1 or qmark2:
             detail_level = 1
         if "*" in oname:
             self.magic_psearch(oname)
         else:
             self._inspect('pinfo', oname, detail_level=detail_level,
                           namespaces=namespaces)
 
     def magic_pdef(self, parameter_s='', namespaces=None):
         """Print the definition header for any callable object.
 
         If the object is a class, print the constructor information."""
         self._inspect('pdef',parameter_s, namespaces)
 
     def magic_pdoc(self, parameter_s='', namespaces=None):
         """Print the docstring for an object.
 
         If the given object is a class, it will print both the class and the
         constructor docstrings."""
         self._inspect('pdoc',parameter_s, namespaces)
 
     def magic_psource(self, parameter_s='', namespaces=None):
         """Print (or run through pager) the source code for an object."""
         self._inspect('psource',parameter_s, namespaces)
 
     def magic_pfile(self, parameter_s=''):
         """Print (or run through pager) the file where an object is defined.
 
         The file opens at the line where the object definition begins. IPython
         will honor the environment variable PAGER if set, and otherwise will
         do its best to print the file in a convenient form.
 
         If the given argument is not an object currently defined, IPython will
         try to interpret it as a filename (automatically adding a .py extension
         if needed). You can thus use %pfile as a syntax highlighting code
         viewer."""
 
         # first interpret argument as an object name
         out = self._inspect('pfile',parameter_s)
         # if not, try the input as a filename
         if out == 'not found':
             try:
                 filename = get_py_filename(parameter_s)
             except IOError,msg:
                 print msg
                 return
             page(self.shell.inspector.format(file(filename).read()))
 
     def _inspect(self,meth,oname,namespaces=None,**kw):
         """Generic interface to the inspector system.
 
         This function is meant to be called by pdef, pdoc & friends."""
 
         #oname = oname.strip()
         #print '1- oname: <%r>' % oname  # dbg
         try:
             oname = oname.strip().encode('ascii')
             #print '2- oname: <%r>' % oname  # dbg
         except UnicodeEncodeError:
             print 'Python identifiers can only contain ascii characters.'
             return 'not found'
             
         info = Struct(self._ofind(oname, namespaces))
         
         if info.found:
             try:
                 IPython.generics.inspect_object(info.obj)
                 return
             except IPython.ipapi.TryNext:
                 pass
             # Get the docstring of the class property if it exists.
             path = oname.split('.')
             root = '.'.join(path[:-1])
             if info.parent is not None:
                 try:
                     target = getattr(info.parent, '__class__') 
                     # The object belongs to a class instance. 
                     try: 
                         target = getattr(target, path[-1])
                         # The class defines the object. 
                         if isinstance(target, property):
                             oname = root + '.__class__.' + path[-1]
                             info = Struct(self._ofind(oname))
                     except AttributeError: pass
                 except AttributeError: pass
                         
             pmethod = getattr(self.shell.inspector,meth)
             formatter = info.ismagic and self.format_screen or None
             if meth == 'pdoc':
                 pmethod(info.obj,oname,formatter)
             elif meth == 'pinfo':
                 pmethod(info.obj,oname,formatter,info,**kw)
             else:
                 pmethod(info.obj,oname)
         else:
             print 'Object `%s` not found.' % oname
             return 'not found'  # so callers can take other action
         
     def magic_psearch(self, parameter_s=''):
         """Search for object in namespaces by wildcard.
 
         %psearch [options] PATTERN [OBJECT TYPE]
 
         Note: ? can be used as a synonym for %psearch, at the beginning or at
         the end: both a*? and ?a* are equivalent to '%psearch a*'.  Still, the
         rest of the command line must be unchanged (options come first), so
         for example the following forms are equivalent
 
         %psearch -i a* function
         -i a* function?
         ?-i a* function
 
         Arguments:
         
           PATTERN
 
           where PATTERN is a string containing * as a wildcard similar to its
           use in a shell.  The pattern is matched in all namespaces on the
           search path. By default objects starting with a single _ are not
           matched, many IPython generated objects have a single
           underscore. The default is case insensitive matching. Matching is
           also done on the attributes of objects and not only on the objects
           in a module.
 
           [OBJECT TYPE]
 
           Is the name of a python type from the types module. The name is
           given in lowercase without the ending type, ex. StringType is
           written string. By adding a type here only objects matching the
           given type are matched. Using all here makes the pattern match all
           types (this is the default).
 
         Options:
 
           -a: makes the pattern match even objects whose names start with a
           single underscore.  These names are normally ommitted from the
           search.
 
           -i/-c: make the pattern case insensitive/sensitive.  If neither of
           these options is given, the default is read from your ipythonrc
           file.  The option name which sets this value is
           'wildcards_case_sensitive'.  If this option is not specified in your
           ipythonrc file, IPython's internal default is to do a case sensitive
           search.
 
           -e/-s NAMESPACE: exclude/search a given namespace.  The pattern you
           specifiy can be searched in any of the following namespaces:
           'builtin', 'user', 'user_global','internal', 'alias', where
           'builtin' and 'user' are the search defaults.  Note that you should
           not use quotes when specifying namespaces.
 
           'Builtin' contains the python module builtin, 'user' contains all
           user data, 'alias' only contain the shell aliases and no python
           objects, 'internal' contains objects used by IPython.  The
           'user_global' namespace is only used by embedded IPython instances,
           and it contains module-level globals.  You can add namespaces to the
           search with -s or exclude them with -e (these options can be given
           more than once).
     
         Examples:
        
         %psearch a*            -> objects beginning with an a
         %psearch -e builtin a* -> objects NOT in the builtin space starting in a
         %psearch a* function   -> all functions beginning with an a
         %psearch re.e*         -> objects beginning with an e in module re
         %psearch r*.e*         -> objects that start with e in modules starting in r
         %psearch r*.* string   -> all strings in modules beginning with r
 
         Case sensitve search:
        
         %psearch -c a*         list all object beginning with lower case a
 
         Show objects beginning with a single _:
        
         %psearch -a _*         list objects beginning with a single underscore"""
         try:
             parameter_s = parameter_s.encode('ascii')
         except UnicodeEncodeError:
             print 'Python identifiers can only contain ascii characters.'
             return
 
         # default namespaces to be searched
         def_search = ['user','builtin']
 
         # Process options/args
         opts,args = self.parse_options(parameter_s,'cias:e:',list_all=True)
         opt = opts.get
         shell = self.shell
         psearch = shell.inspector.psearch
 
         # select case options
         if opts.has_key('i'):
             ignore_case = True
         elif opts.has_key('c'):
             ignore_case = False
         else:
             ignore_case = not shell.rc.wildcards_case_sensitive
 
         # Build list of namespaces to search from user options
         def_search.extend(opt('s',[]))
         ns_exclude = ns_exclude=opt('e',[])
         ns_search = [nm for nm in def_search if nm not in ns_exclude]
         
         # Call the actual search
         try:
             psearch(args,shell.ns_table,ns_search,
                     show_all=opt('a'),ignore_case=ignore_case)
         except:
             shell.showtraceback()
 
     def magic_who_ls(self, parameter_s=''):
         """Return a sorted list of all interactive variables.
 
         If arguments are given, only variables of types matching these
         arguments are returned."""
 
         user_ns = self.shell.user_ns
         internal_ns = self.shell.internal_ns
         user_config_ns = self.shell.user_config_ns
         out = []
         typelist = parameter_s.split()
 
         for i in user_ns:
             if not (i.startswith('_') or i.startswith('_i')) \
                    and not (i in internal_ns or i in user_config_ns):
                 if typelist:
                     if type(user_ns[i]).__name__ in typelist:
                         out.append(i)
                 else:
                     out.append(i)
         out.sort()
         return out
         
     def magic_who(self, parameter_s=''):
         """Print all interactive variables, with some minimal formatting.
 
         If any arguments are given, only variables whose type matches one of
         these are printed.  For example:
 
           %who function str
 
         will only list functions and strings, excluding all other types of
         variables.  To find the proper type names, simply use type(var) at a
         command line to see how python prints type names.  For example:
 
           In [1]: type('hello')\\
           Out[1]: <type 'str'>
 
         indicates that the type name for strings is 'str'.
 
         %who always excludes executed names loaded through your configuration
         file and things which are internal to IPython.
 
         This is deliberate, as typically you may load many modules and the
         purpose of %who is to show you only what you've manually defined."""
 
         varlist = self.magic_who_ls(parameter_s)
         if not varlist:
             if parameter_s:
                 print 'No variables match your requested type.'
             else:
                 print 'Interactive namespace is empty.'
             return
 
         # if we have variables, move on...
         count = 0
         for i in varlist:
             print i+'\t',
             count += 1
             if count > 8:
                 count = 0
                 print
         print
 
     def magic_whos(self, parameter_s=''):
         """Like %who, but gives some extra information about each variable.
 
         The same type filtering of %who can be applied here.
 
         For all variables, the type is printed. Additionally it prints:
         
           - For {},[],(): their length.
 
           - For numpy and Numeric arrays, a summary with shape, number of
           elements, typecode and size in memory.
 
           - Everything else: a string representation, snipping their middle if
           too long."""
         
         varnames = self.magic_who_ls(parameter_s)
         if not varnames:
             if parameter_s:
                 print 'No variables match your requested type.'
             else:
                 print 'Interactive namespace is empty.'
             return
 
         # if we have variables, move on...
 
         # for these types, show len() instead of data:
         seq_types = [types.DictType,types.ListType,types.TupleType]
 
         # for numpy/Numeric arrays, display summary info
         try:
             import numpy
         except ImportError:
             ndarray_type = None
         else:
             ndarray_type = numpy.ndarray.__name__
         try:
             import Numeric
         except ImportError:
             array_type = None
         else:
             array_type = Numeric.ArrayType.__name__
 
         # Find all variable names and types so we can figure out column sizes
         def get_vars(i):
             return self.shell.user_ns[i]
         
         # some types are well known and can be shorter
         abbrevs = {'IPython.macro.Macro' : 'Macro'}
         def type_name(v):
             tn = type(v).__name__
             return abbrevs.get(tn,tn)
             
         varlist = map(get_vars,varnames)
 
         typelist = []
         for vv in varlist:
             tt = type_name(vv)
 
             if tt=='instance':
                 typelist.append( abbrevs.get(str(vv.__class__),
                                              str(vv.__class__)))
             else:
                 typelist.append(tt)
 
         # column labels and # of spaces as separator
         varlabel = 'Variable'
         typelabel = 'Type'
         datalabel = 'Data/Info'
         colsep = 3
         # variable format strings
         vformat    = "$vname.ljust(varwidth)$vtype.ljust(typewidth)"
         vfmt_short = '$vstr[:25]<...>$vstr[-25:]'
         aformat    = "%s: %s elems, type `%s`, %s bytes"
         # find the size of the columns to format the output nicely
         varwidth = max(max(map(len,varnames)), len(varlabel)) + colsep
         typewidth = max(max(map(len,typelist)), len(typelabel)) + colsep
         # table header
         print varlabel.ljust(varwidth) + typelabel.ljust(typewidth) + \
               ' '+datalabel+'\n' + '-'*(varwidth+typewidth+len(datalabel)+1)
         # and the table itself
         kb = 1024
         Mb = 1048576  # kb**2
         for vname,var,vtype in zip(varnames,varlist,typelist):
             print itpl(vformat),
             if vtype in seq_types:
                 print len(var)
             elif vtype in [array_type,ndarray_type]:
                 vshape = str(var.shape).replace(',','').replace(' ','x')[1:-1]
                 if vtype==ndarray_type:
                     # numpy
                     vsize  = var.size
                     vbytes = vsize*var.itemsize
                     vdtype = var.dtype
                 else:
                     # Numeric
                     vsize  = Numeric.size(var)
                     vbytes = vsize*var.itemsize()
                     vdtype = var.typecode()
                     
                 if vbytes < 100000:
                     print aformat % (vshape,vsize,vdtype,vbytes)
                 else:
                     print aformat % (vshape,vsize,vdtype,vbytes),
                     if vbytes < Mb:
                         print '(%s kb)' % (vbytes/kb,)
                     else:
                         print '(%s Mb)' % (vbytes/Mb,)
             else:
                 try:
                     vstr = str(var)
                 except UnicodeEncodeError:
                     vstr = unicode(var).encode(sys.getdefaultencoding(),
                                                'backslashreplace')
                 vstr = vstr.replace('\n','\\n')
                 if len(vstr) < 50:
                     print vstr
                 else:
                     printpl(vfmt_short)
                 
     def magic_reset(self, parameter_s=''):
         """Resets the namespace by removing all names defined by the user.
 
         Input/Output history are left around in case you need them."""
 
         ans = self.shell.ask_yes_no(
           "Once deleted, variables cannot be recovered. Proceed (y/[n])? ")
         if not ans:
             print 'Nothing done.'
             return
         user_ns = self.shell.user_ns
         for i in self.magic_who_ls():
             del(user_ns[i])
             
         # Also flush the private list of module references kept for script
         # execution protection
         self.shell._user_main_modules[:] = []
 
     def magic_logstart(self,parameter_s=''):
         """Start logging anywhere in a session.
 
         %logstart [-o|-r|-t] [log_name [log_mode]]
 
         If no name is given, it defaults to a file named 'ipython_log.py' in your
         current directory, in 'rotate' mode (see below).
 
         '%logstart name' saves to file 'name' in 'backup' mode.  It saves your
         history up to that point and then continues logging.
 
         %logstart takes a second optional parameter: logging mode. This can be one
         of (note that the modes are given unquoted):\\
           append: well, that says it.\\
           backup: rename (if exists) to name~ and start name.\\
           global: single logfile in your home dir, appended to.\\
           over  : overwrite existing log.\\
           rotate: create rotating logs name.1~, name.2~, etc.
 
         Options:
 
           -o: log also IPython's output.  In this mode, all commands which
           generate an Out[NN] prompt are recorded to the logfile, right after
           their corresponding input line.  The output lines are always
           prepended with a '#[Out]# ' marker, so that the log remains valid
           Python code.
 
           Since this marker is always the same, filtering only the output from
           a log is very easy, using for example a simple awk call:
 
             awk -F'#\\[Out\\]# ' '{if($2) {print $2}}' ipython_log.py
 
           -r: log 'raw' input.  Normally, IPython's logs contain the processed
           input, so that user lines are logged in their final form, converted
           into valid Python.  For example, %Exit is logged as
           '_ip.magic("Exit").  If the -r flag is given, all input is logged
           exactly as typed, with no transformations applied.
 
           -t: put timestamps before each input line logged (these are put in
           comments)."""
         
         opts,par = self.parse_options(parameter_s,'ort')
         log_output = 'o' in opts
         log_raw_input = 'r' in opts
         timestamp = 't' in opts
 
         rc = self.shell.rc
         logger = self.shell.logger
 
         # if no args are given, the defaults set in the logger constructor by
         # ipytohn remain valid
         if par:
             try:
                 logfname,logmode = par.split()
             except:
                 logfname = par
                 logmode = 'backup'
         else:
             logfname = logger.logfname
             logmode = logger.logmode
         # put logfname into rc struct as if it had been called on the command
         # line, so it ends up saved in the log header Save it in case we need
         # to restore it...
         old_logfile = rc.opts.get('logfile','')  
         if logfname:
             logfname = os.path.expanduser(logfname)
         rc.opts.logfile = logfname
         loghead = self.shell.loghead_tpl % (rc.opts,rc.args)
         try:
             started  = logger.logstart(logfname,loghead,logmode,
                                        log_output,timestamp,log_raw_input)
         except:
             rc.opts.logfile = old_logfile
             warn("Couldn't start log: %s" % sys.exc_info()[1])
         else:
             # log input history up to this point, optionally interleaving
             # output if requested
 
             if timestamp:
                 # disable timestamping for the previous history, since we've
                 # lost those already (no time machine here).
                 logger.timestamp = False
 
             if log_raw_input:
                 input_hist = self.shell.input_hist_raw
             else:
                 input_hist = self.shell.input_hist
                 
             if log_output:
                 log_write = logger.log_write
                 output_hist = self.shell.output_hist
                 for n in range(1,len(input_hist)-1):
                     log_write(input_hist[n].rstrip())
                     if n in output_hist:
                         log_write(repr(output_hist[n]),'output')
             else:
                 logger.log_write(input_hist[1:])
             if timestamp:
                 # re-enable timestamping
                 logger.timestamp = True
                 
             print ('Activating auto-logging. '
                    'Current session state plus future input saved.')
             logger.logstate()
 
     def magic_logstop(self,parameter_s=''):
         """Fully stop logging and close log file.
 
         In order to start logging again, a new %logstart call needs to be made,
         possibly (though not necessarily) with a new filename, mode and other
         options."""
         self.logger.logstop()
 
     def magic_logoff(self,parameter_s=''):
         """Temporarily stop logging.
 
         You must have previously started logging."""
         self.shell.logger.switch_log(0)
         
     def magic_logon(self,parameter_s=''):
         """Restart logging.
 
         This function is for restarting logging which you've temporarily
         stopped with %logoff. For starting logging for the first time, you
         must use the %logstart function, which allows you to specify an
         optional log filename."""
         
         self.shell.logger.switch_log(1)
     
     def magic_logstate(self,parameter_s=''):
         """Print the status of the logging system."""
 
         self.shell.logger.logstate()
         
     def magic_pdb(self, parameter_s=''):
         """Control the automatic calling of the pdb interactive debugger.
 
         Call as '%pdb on', '%pdb 1', '%pdb off' or '%pdb 0'. If called without
         argument it works as a toggle.
 
         When an exception is triggered, IPython can optionally call the
         interactive pdb debugger after the traceback printout. %pdb toggles
         this feature on and off.
 
         The initial state of this feature is set in your ipythonrc
         configuration file (the variable is called 'pdb').
 
         If you want to just activate the debugger AFTER an exception has fired,
         without having to type '%pdb on' and rerunning your code, you can use
         the %debug magic."""
 
         par = parameter_s.strip().lower()
 
         if par:
             try:
                 new_pdb = {'off':0,'0':0,'on':1,'1':1}[par]
             except KeyError:
                 print ('Incorrect argument. Use on/1, off/0, '
                        'or nothing for a toggle.')
                 return
         else:
             # toggle
             new_pdb = not self.shell.call_pdb
 
         # set on the shell
         self.shell.call_pdb = new_pdb
         print 'Automatic pdb calling has been turned',on_off(new_pdb)
 
     def magic_debug(self, parameter_s=''):
         """Activate the interactive debugger in post-mortem mode.
 
         If an exception has just occurred, this lets you inspect its stack
         frames interactively.  Note that this will always work only on the last
         traceback that occurred, so you must call this quickly after an
         exception that you wish to inspect has fired, because if another one
         occurs, it clobbers the previous one.
 
         If you want IPython to automatically do this on every exception, see
         the %pdb magic for more details.
         """
         
         self.shell.debugger(force=True)
 
     def magic_prun(self, parameter_s ='',user_mode=1,
                    opts=None,arg_lst=None,prog_ns=None):
 
         """Run a statement through the python code profiler.
 
         Usage:\\
           %prun [options] statement
 
         The given statement (which doesn't require quote marks) is run via the
         python profiler in a manner similar to the profile.run() function.
         Namespaces are internally managed to work correctly; profile.run
         cannot be used in IPython because it makes certain assumptions about
         namespaces which do not hold under IPython.
 
         Options:
 
         -l <limit>: you can place restrictions on what or how much of the
         profile gets printed. The limit value can be:
 
           * A string: only information for function names containing this string
           is printed.
 
           * An integer: only these many lines are printed.
 
           * A float (between 0 and 1): this fraction of the report is printed
           (for example, use a limit of 0.4 to see the topmost 40% only).
 
         You can combine several limits with repeated use of the option. For
         example, '-l __init__ -l 5' will print only the topmost 5 lines of
         information about class constructors.
 
         -r: return the pstats.Stats object generated by the profiling. This
         object has all the information about the profile in it, and you can
         later use it for further analysis or in other functions.
 
        -s <key>: sort profile by given key. You can provide more than one key
         by using the option several times: '-s key1 -s key2 -s key3...'. The
         default sorting key is 'time'.
 
         The following is copied verbatim from the profile documentation
         referenced below:
 
         When more than one key is provided, additional keys are used as
         secondary criteria when the there is equality in all keys selected
         before them.
         
         Abbreviations can be used for any key names, as long as the
         abbreviation is unambiguous.  The following are the keys currently
         defined:
 
                 Valid Arg       Meaning\\
                   "calls"      call count\\
                   "cumulative" cumulative time\\
                   "file"       file name\\
                   "module"     file name\\
                   "pcalls"     primitive call count\\
                   "line"       line number\\
                   "name"       function name\\
                   "nfl"        name/file/line\\
                   "stdname"    standard name\\
                   "time"       internal time
 
         Note that all sorts on statistics are in descending order (placing
         most time consuming items first), where as name, file, and line number
         searches are in ascending order (i.e., alphabetical). The subtle
         distinction between "nfl" and "stdname" is that the standard name is a
         sort of the name as printed, which means that the embedded line
         numbers get compared in an odd way.  For example, lines 3, 20, and 40
         would (if the file names were the same) appear in the string order
         "20" "3" and "40".  In contrast, "nfl" does a numeric compare of the
         line numbers.  In fact, sort_stats("nfl") is the same as
         sort_stats("name", "file", "line").
 
         -T <filename>: save profile results as shown on screen to a text
         file. The profile is still shown on screen.
 
         -D <filename>: save (via dump_stats) profile statistics to given
         filename. This data is in a format understod by the pstats module, and
         is generated by a call to the dump_stats() method of profile
         objects. The profile is still shown on screen.
 
         If you want to run complete programs under the profiler's control, use
         '%run -p [prof_opts] filename.py [args to program]' where prof_opts
         contains profiler specific options as described here.
         
         You can read the complete documentation for the profile module with:\\
           In [1]: import profile; profile.help() """
 
         opts_def = Struct(D=[''],l=[],s=['time'],T=[''])
         # protect user quote marks
         parameter_s = parameter_s.replace('"',r'\"').replace("'",r"\'")
         
         if user_mode:  # regular user call
             opts,arg_str = self.parse_options(parameter_s,'D:l:rs:T:',
                                               list_all=1)
             namespace = self.shell.user_ns
         else:  # called to run a program by %run -p
             try:
                 filename = get_py_filename(arg_lst[0])
             except IOError,msg:
                 error(msg)
                 return
 
             arg_str = 'execfile(filename,prog_ns)'
             namespace = locals()
 
         opts.merge(opts_def)
         
         prof = profile.Profile()
         try:
             prof = prof.runctx(arg_str,namespace,namespace)
             sys_exit = ''
         except SystemExit:
             sys_exit = """*** SystemExit exception caught in code being profiled."""
 
         stats = pstats.Stats(prof).strip_dirs().sort_stats(*opts.s)
 
         lims = opts.l
         if lims:
             lims = []  # rebuild lims with ints/floats/strings
             for lim in opts.l:
                 try:
                     lims.append(int(lim))
                 except ValueError:
                     try:
                         lims.append(float(lim))
                     except ValueError:
                         lims.append(lim)
                     
         # Trap output.
         stdout_trap = StringIO()
 
         if hasattr(stats,'stream'):
             # In newer versions of python, the stats object has a 'stream'
             # attribute to write into.
             stats.stream = stdout_trap
             stats.print_stats(*lims)
         else:
             # For older versions, we manually redirect stdout during printing
             sys_stdout = sys.stdout
             try:
                 sys.stdout = stdout_trap
                 stats.print_stats(*lims)
             finally:
                 sys.stdout = sys_stdout
                 
         output = stdout_trap.getvalue()
         output = output.rstrip()
 
         page(output,screen_lines=self.shell.rc.screen_length)
         print sys_exit,
 
         dump_file = opts.D[0]
         text_file = opts.T[0]
         if dump_file:
             prof.dump_stats(dump_file)
             print '\n*** Profile stats marshalled to file',\
                   `dump_file`+'.',sys_exit
         if text_file:
             pfile = file(text_file,'w')
             pfile.write(output)
             pfile.close()
             print '\n*** Profile printout saved to text file',\
                   `text_file`+'.',sys_exit
 
         if opts.has_key('r'):
             return stats
         else:
             return None
 
     def magic_run(self, parameter_s ='',runner=None):
         """Run the named file inside IPython as a program.
 
         Usage:\\
           %run [-n -i -t [-N<N>] -d [-b<N>] -p [profile options]] file [args]
         
         Parameters after the filename are passed as command-line arguments to
         the program (put in sys.argv). Then, control returns to IPython's
         prompt.
 
         This is similar to running at a system prompt:\\
           $ python file args\\
         but with the advantage of giving you IPython's tracebacks, and of
         loading all variables into your interactive namespace for further use
         (unless -p is used, see below).
 
         The file is executed in a namespace initially consisting only of
         __name__=='__main__' and sys.argv constructed as indicated. It thus
         sees its environment as if it were being run as a stand-alone program
         (except for sharing global objects such as previously imported
         modules). But after execution, the IPython interactive namespace gets
         updated with all variables defined in the program (except for __name__
         and sys.argv). This allows for very convenient loading of code for
         interactive work, while giving each program a 'clean sheet' to run in.
 
         Options:
         
         -n: __name__ is NOT set to '__main__', but to the running file's name
         without extension (as python does under import).  This allows running
         scripts and reloading the definitions in them without calling code
         protected by an ' if __name__ == "__main__" ' clause.
 
         -i: run the file in IPython's namespace instead of an empty one. This
         is useful if you are experimenting with code written in a text editor
         which depends on variables defined interactively.
 
         -e: ignore sys.exit() calls or SystemExit exceptions in the script
         being run.  This is particularly useful if IPython is being used to
         run unittests, which always exit with a sys.exit() call.  In such
         cases you are interested in the output of the test results, not in
         seeing a traceback of the unittest module.
 
         -t: print timing information at the end of the run.  IPython will give
         you an estimated CPU time consumption for your script, which under
         Unix uses the resource module to avoid the wraparound problems of
         time.clock().  Under Unix, an estimate of time spent on system tasks
         is also given (for Windows platforms this is reported as 0.0).
 
         If -t is given, an additional -N<N> option can be given, where <N>
         must be an integer indicating how many times you want the script to
         run.  The final timing report will include total and per run results.
 
         For example (testing the script uniq_stable.py):
 
             In [1]: run -t uniq_stable
 
             IPython CPU timings (estimated):\\
               User  :    0.19597 s.\\
               System:        0.0 s.\\
 
             In [2]: run -t -N5 uniq_stable
 
             IPython CPU timings (estimated):\\
             Total runs performed: 5\\
               Times :      Total       Per run\\
               User  :   0.910862 s,  0.1821724 s.\\
               System:        0.0 s,        0.0 s.
 
         -d: run your program under the control of pdb, the Python debugger.
         This allows you to execute your program step by step, watch variables,
         etc.  Internally, what IPython does is similar to calling:
         
           pdb.run('execfile("YOURFILENAME")')
 
         with a breakpoint set on line 1 of your file.  You can change the line
         number for this automatic breakpoint to be <N> by using the -bN option
         (where N must be an integer).  For example:
 
           %run -d -b40 myscript
 
         will set the first breakpoint at line 40 in myscript.py.  Note that
         the first breakpoint must be set on a line which actually does
         something (not a comment or docstring) for it to stop execution.
 
         When the pdb debugger starts, you will see a (Pdb) prompt.  You must
         first enter 'c' (without qoutes) to start execution up to the first
         breakpoint.
 
         Entering 'help' gives information about the use of the debugger.  You
         can easily see pdb's full documentation with "import pdb;pdb.help()"
         at a prompt.
 
         -p: run program under the control of the Python profiler module (which
         prints a detailed report of execution times, function calls, etc).
 
         You can pass other options after -p which affect the behavior of the
         profiler itself. See the docs for %prun for details.
 
         In this mode, the program's variables do NOT propagate back to the
         IPython interactive namespace (because they remain in the namespace
         where the profiler executes them).
 
         Internally this triggers a call to %prun, see its documentation for
         details on the options available specifically for profiling.
 
         There is one special usage for which the text above doesn't apply:
         if the filename ends with .ipy, the file is run as ipython script,
         just as if the commands were written on IPython prompt.
         """
 
         # get arguments and set sys.argv for program to be run.
         opts,arg_lst = self.parse_options(parameter_s,'nidtN:b:pD:l:rs:T:e',
                                           mode='list',list_all=1)
 
         try:
             filename = get_py_filename(arg_lst[0])
         except IndexError:
             warn('you must provide at least a filename.')
             print '\n%run:\n',OInspect.getdoc(self.magic_run)
             return
         except IOError,msg:
             error(msg)
             return
 
         if filename.lower().endswith('.ipy'):
             self.api.runlines(open(filename).read())
             return
         
         # Control the response to exit() calls made by the script being run
         exit_ignore = opts.has_key('e')
         
         # Make sure that the running script gets a proper sys.argv as if it
         # were run from a system shell.
         save_argv = sys.argv # save it for later restoring
         sys.argv = [filename]+ arg_lst[1:]  # put in the proper filename
 
         if opts.has_key('i'):
             # Run in user's interactive namespace
             prog_ns = self.shell.user_ns
             __name__save = self.shell.user_ns['__name__']
             prog_ns['__name__'] = '__main__'
             main_mod = FakeModule(prog_ns)
         else:
             # Run in a fresh, empty namespace
             if opts.has_key('n'):
                 name = os.path.splitext(os.path.basename(filename))[0]
             else:
                 name = '__main__'
             main_mod = FakeModule()
             prog_ns = main_mod.__dict__
             prog_ns['__name__'] = name
             # The shell MUST hold a reference to main_mod so after %run exits,
             # the python deletion mechanism doesn't zero it out (leaving
             # dangling references)
             self.shell._user_main_modules.append(main_mod)
 
         # Since '%run foo' emulates 'python foo.py' at the cmd line, we must
         # set the __file__ global in the script's namespace
         prog_ns['__file__'] = filename
 
         # pickle fix.  See iplib for an explanation.  But we need to make sure
         # that, if we overwrite __main__, we replace it at the end
         if prog_ns['__name__'] == '__main__':
             restore_main = sys.modules['__main__']
         else:
             restore_main = False
 
         sys.modules[prog_ns['__name__']] = main_mod
         
         stats = None
         try:
             self.shell.savehist()
 
             if opts.has_key('p'):
                 stats = self.magic_prun('',0,opts,arg_lst,prog_ns)
             else:
                 if opts.has_key('d'):
                     deb = Debugger.Pdb(self.shell.rc.colors)
                     # reset Breakpoint state, which is moronically kept
                     # in a class
                     bdb.Breakpoint.next = 1
                     bdb.Breakpoint.bplist = {}
                     bdb.Breakpoint.bpbynumber = [None]
                     # Set an initial breakpoint to stop execution
                     maxtries = 10
                     bp = int(opts.get('b',[1])[0])
                     checkline = deb.checkline(filename,bp)
                     if not checkline:
                         for bp in range(bp+1,bp+maxtries+1):
                             if deb.checkline(filename,bp):
                                 break
                         else:
                             msg = ("\nI failed to find a valid line to set "
                                    "a breakpoint\n"
                                    "after trying up to line: %s.\n"
                                    "Please set a valid breakpoint manually "
                                    "with the -b option." % bp)
                             error(msg)
                             return
                     # if we find a good linenumber, set the breakpoint
                     deb.do_break('%s:%s' % (filename,bp))
                     # Start file run
                     print "NOTE: Enter 'c' at the",
                     print "%s prompt to start your script." % deb.prompt
                     try:
                         deb.run('execfile("%s")' % filename,prog_ns)
                         
                     except:
                         etype, value, tb = sys.exc_info()
                         # Skip three frames in the traceback: the %run one,
                         # one inside bdb.py, and the command-line typed by the
                         # user (run by exec in pdb itself).
                         self.shell.InteractiveTB(etype,value,tb,tb_offset=3)
                 else:
                     if runner is None:
                         runner = self.shell.safe_execfile
                     if opts.has_key('t'):
                         # timed execution
                         try:
                             nruns = int(opts['N'][0])
                             if nruns < 1:
                                 error('Number of runs must be >=1')
                                 return
                         except (KeyError):
                             nruns = 1
                         if nruns == 1:
                             t0 = clock2()
                             runner(filename,prog_ns,prog_ns,
                                    exit_ignore=exit_ignore)
                             t1 = clock2()
                             t_usr = t1[0]-t0[0]
                             t_sys = t1[1]-t1[1]
                             print "\nIPython CPU timings (estimated):"
                             print "  User  : %10s s." % t_usr
                             print "  System: %10s s." % t_sys
                         else:
                             runs = range(nruns)
                             t0 = clock2()
                             for nr in runs:
                                 runner(filename,prog_ns,prog_ns,
                                        exit_ignore=exit_ignore)
                             t1 = clock2()
                             t_usr = t1[0]-t0[0]
                             t_sys = t1[1]-t1[1]
                             print "\nIPython CPU timings (estimated):"
                             print "Total runs performed:",nruns
                             print "  Times : %10s    %10s" % ('Total','Per run')
                             print "  User  : %10s s, %10s s." % (t_usr,t_usr/nruns)
                             print "  System: %10s s, %10s s." % (t_sys,t_sys/nruns)
                             
                     else:
                         # regular execution
                         runner(filename,prog_ns,prog_ns,exit_ignore=exit_ignore)
                 if opts.has_key('i'):
                     self.shell.user_ns['__name__'] = __name__save
                 else:
                     # update IPython interactive namespace
                     del prog_ns['__name__']
                     self.shell.user_ns.update(prog_ns)
         finally:
             sys.argv = save_argv
             if restore_main:
                 sys.modules['__main__'] = restore_main
             self.shell.reloadhist()
                 
         return stats
 
     def magic_runlog(self, parameter_s =''):
         """Run files as logs.
 
         Usage:\\
           %runlog file1 file2 ...
 
         Run the named files (treating them as log files) in sequence inside
         the interpreter, and return to the prompt.  This is much slower than
         %run because each line is executed in a try/except block, but it
         allows running files with syntax errors in them.
 
         Normally IPython will guess when a file is one of its own logfiles, so
         you can typically use %run even for logs. This shorthand allows you to
         force any file to be treated as a log file."""
 
         for f in parameter_s.split():
             self.shell.safe_execfile(f,self.shell.user_ns,
                                      self.shell.user_ns,islog=1)
 
     def magic_timeit(self, parameter_s =''):
         """Time execution of a Python statement or expression
 
         Usage:\\
           %timeit [-n<N> -r<R> [-t|-c]] statement
 
         Time execution of a Python statement or expression using the timeit
         module.
 
         Options:
         -n<N>: execute the given statement <N> times in a loop. If this value
         is not given, a fitting value is chosen. 
         
         -r<R>: repeat the loop iteration <R> times and take the best result.
         Default: 3
         
         -t: use time.time to measure the time, which is the default on Unix.
         This function measures wall time.
         
         -c: use time.clock to measure the time, which is the default on
         Windows and measures wall time. On Unix, resource.getrusage is used
         instead and returns the CPU user time.
 
         -p<P>: use a precision of <P> digits to display the timing result.
         Default: 3
 
         
         Examples:\\
           In [1]: %timeit pass
           10000000 loops, best of 3: 53.3 ns per loop
 
           In [2]: u = None
 
           In [3]: %timeit u is None
           10000000 loops, best of 3: 184 ns per loop
 
           In [4]: %timeit -r 4 u == None
           1000000 loops, best of 4: 242 ns per loop
 
           In [5]: import time
 
           In [6]: %timeit -n1 time.sleep(2)
           1 loops, best of 3: 2 s per loop
           
 
         The times reported by %timeit will be slightly higher than those
         reported by the timeit.py script when variables are accessed. This is
         due to the fact that %timeit executes the statement in the namespace
         of the shell, compared with timeit.py, which uses a single setup
         statement to import function or create variables. Generally, the bias
         does not matter as long as results from timeit.py are not mixed with
         those from %timeit."""
 
         import timeit
         import math
 
         units = ["s", "ms", "\xc2\xb5s", "ns"]
         scaling = [1, 1e3, 1e6, 1e9]
 
         opts, stmt = self.parse_options(parameter_s,'n:r:tcp:',
                                         posix=False)
         if stmt == "":
             return
         timefunc = timeit.default_timer
         number = int(getattr(opts, "n", 0))
         repeat = int(getattr(opts, "r", timeit.default_repeat))
         precision = int(getattr(opts, "p", 3))
         if hasattr(opts, "t"):
             timefunc = time.time
         if hasattr(opts, "c"):
             timefunc = clock
 
         timer = timeit.Timer(timer=timefunc)
         # this code has tight coupling to the inner workings of timeit.Timer,
         # but is there a better way to achieve that the code stmt has access
         # to the shell namespace?
 
         src = timeit.template % {'stmt': timeit.reindent(stmt, 8),
                                  'setup': "pass"}
         # Track compilation time so it can be reported if too long
         # Minimum time above which compilation time will be reported
         tc_min = 0.1
         
         t0 = clock()
         code = compile(src, "<magic-timeit>", "exec")
         tc = clock()-t0
         
         ns = {}
         exec code in self.shell.user_ns, ns
         timer.inner = ns["inner"]
         
         if number == 0:
             # determine number so that 0.2 <= total time < 2.0
             number = 1
             for i in range(1, 10):
                 number *= 10
                 if timer.timeit(number) >= 0.2:
                     break
         
         best = min(timer.repeat(repeat, number)) / number
 
         if best > 0.0:
             order = min(-int(math.floor(math.log10(best)) // 3), 3)
         else:
             order = 3
         print "%d loops, best of %d: %.*g %s per loop" % (number, repeat,
                                                           precision,
                                                           best * scaling[order],
                                                           units[order])
         if tc > tc_min:
             print "Compiler time: %.2f s" % tc
         
     def magic_time(self,parameter_s = ''):
         """Time execution of a Python statement or expression.
 
         The CPU and wall clock times are printed, and the value of the
         expression (if any) is returned.  Note that under Win32, system time
         is always reported as 0, since it can not be measured.
 
         This function provides very basic timing functionality.  In Python
         2.3, the timeit module offers more control and sophistication, so this
         could be rewritten to use it (patches welcome).
         
         Some examples:
 
           In [1]: time 2**128
           CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
           Wall time: 0.00
           Out[1]: 340282366920938463463374607431768211456L
 
           In [2]: n = 1000000
 
           In [3]: time sum(range(n))
           CPU times: user 1.20 s, sys: 0.05 s, total: 1.25 s
           Wall time: 1.37
           Out[3]: 499999500000L
 
           In [4]: time print 'hello world'
           hello world
           CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
           Wall time: 0.00
 
           Note that the time needed by Python to compile the given expression
           will be reported if it is more than 0.1s.  In this example, the
           actual exponentiation is done by Python at compilation time, so while
           the expression can take a noticeable amount of time to compute, that
           time is purely due to the compilation:
 
           In [5]: time 3**9999;
           CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
           Wall time: 0.00 s
 
           In [6]: time 3**999999;
           CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
           Wall time: 0.00 s
           Compiler : 0.78 s
           """
         
         # fail immediately if the given expression can't be compiled
         
         expr = self.shell.prefilter(parameter_s,False)
 
         # Minimum time above which compilation time will be reported
         tc_min = 0.1
         
         try:
             mode = 'eval'
             t0 = clock()
             code = compile(expr,'<timed eval>',mode)
             tc = clock()-t0
         except SyntaxError:
             mode = 'exec'
             t0 = clock()
             code = compile(expr,'<timed exec>',mode)
             tc = clock()-t0
         # skew measurement as little as possible
         glob = self.shell.user_ns
         clk = clock2
         wtime = time.time
         # time execution
         wall_st = wtime()
         if mode=='eval':
             st = clk()
             out = eval(code,glob)
             end = clk()
         else:
             st = clk()
             exec code in glob
             end = clk()
             out = None
         wall_end = wtime()
         # Compute actual times and report
         wall_time = wall_end-wall_st
         cpu_user = end[0]-st[0]
         cpu_sys = end[1]-st[1]
         cpu_tot = cpu_user+cpu_sys
         print "CPU times: user %.2f s, sys: %.2f s, total: %.2f s" % \
               (cpu_user,cpu_sys,cpu_tot)
         print "Wall time: %.2f s" % wall_time
         if tc > tc_min:
             print "Compiler : %.2f s" % tc
         return out
 
     def magic_macro(self,parameter_s = ''):
         """Define a set of input lines as a macro for future re-execution.
 
         Usage:\\
           %macro [options] name n1-n2 n3-n4 ... n5 .. n6 ...
 
         Options:
         
           -r: use 'raw' input.  By default, the 'processed' history is used,
           so that magics are loaded in their transformed version to valid
           Python.  If this option is given, the raw input as typed as the
           command line is used instead.
 
         This will define a global variable called `name` which is a string
         made of joining the slices and lines you specify (n1,n2,... numbers
         above) from your input history into a single string. This variable
         acts like an automatic function which re-executes those lines as if
         you had typed them. You just type 'name' at the prompt and the code
         executes.
 
         The notation for indicating number ranges is: n1-n2 means 'use line
         numbers n1,...n2' (the endpoint is included).  That is, '5-7' means
         using the lines numbered 5,6 and 7.
 
         Note: as a 'hidden' feature, you can also use traditional python slice
         notation, where N:M means numbers N through M-1.
 
         For example, if your history contains (%hist prints it):
         
           44: x=1\\
           45: y=3\\
           46: z=x+y\\
           47: print x\\
           48: a=5\\
           49: print 'x',x,'y',y\\
 
         you can create a macro with lines 44 through 47 (included) and line 49
         called my_macro with:
 
           In [51]: %macro my_macro 44-47 49
 
         Now, typing `my_macro` (without quotes) will re-execute all this code
         in one pass.
 
         You don't need to give the line-numbers in order, and any given line
         number can appear multiple times. You can assemble macros with any
         lines from your input history in any order.
 
         The macro is a simple object which holds its value in an attribute,
         but IPython's display system checks for macros and executes them as
         code instead of printing them when you type their name.
 
         You can view a macro's contents by explicitly printing it with:
         
           'print macro_name'.
 
         For one-off cases which DON'T contain magic function calls in them you
         can obtain similar results by explicitly executing slices from your
         input history with:
 
           In [60]: exec In[44:48]+In[49]"""
 
         opts,args = self.parse_options(parameter_s,'r',mode='list')
         if not args:
             macs = [k for k,v in self.shell.user_ns.items() if isinstance(v, Macro)]
             macs.sort()
             return macs
         if len(args) == 1:
             raise UsageError(
                 "%macro insufficient args; usage '%macro name n1-n2 n3-4...")
         name,ranges = args[0], args[1:]
         
         #print 'rng',ranges  # dbg
         lines = self.extract_input_slices(ranges,opts.has_key('r'))
         macro = Macro(lines)
         self.shell.user_ns.update({name:macro})
         print 'Macro `%s` created. To execute, type its name (without quotes).' % name
         print 'Macro contents:'
         print macro,
 
     def magic_save(self,parameter_s = ''):
         """Save a set of lines to a given filename.
 
         Usage:\\
           %save [options] filename n1-n2 n3-n4 ... n5 .. n6 ...
 
         Options:
         
           -r: use 'raw' input.  By default, the 'processed' history is used,
           so that magics are loaded in their transformed version to valid
           Python.  If this option is given, the raw input as typed as the
           command line is used instead.
 
         This function uses the same syntax as %macro for line extraction, but
         instead of creating a macro it saves the resulting string to the
         filename you specify.
 
         It adds a '.py' extension to the file if you don't do so yourself, and
         it asks for confirmation before overwriting existing files."""
 
         opts,args = self.parse_options(parameter_s,'r',mode='list')
         fname,ranges = args[0], args[1:]
         if not fname.endswith('.py'):
             fname += '.py'
         if os.path.isfile(fname):
             ans = raw_input('File `%s` exists. Overwrite (y/[N])? ' % fname)
             if ans.lower() not in ['y','yes']:
                 print 'Operation cancelled.'
                 return
         cmds = ''.join(self.extract_input_slices(ranges,opts.has_key('r')))
         f = file(fname,'w')
         f.write(cmds)
         f.close()
         print 'The following commands were written to file `%s`:' % fname
         print cmds
 
     def _edit_macro(self,mname,macro):
         """open an editor with the macro data in a file"""
         filename = self.shell.mktempfile(macro.value)
         self.shell.hooks.editor(filename)
 
         # and make a new macro object, to replace the old one
         mfile = open(filename)
         mvalue = mfile.read()
         mfile.close()
         self.shell.user_ns[mname] = Macro(mvalue)
 
     def magic_ed(self,parameter_s=''):
         """Alias to %edit."""
         return self.magic_edit(parameter_s)
 
     def magic_edit(self,parameter_s='',last_call=['','']):
         """Bring up an editor and execute the resulting code.
 
         Usage:
           %edit [options] [args]
 
         %edit runs IPython's editor hook.  The default version of this hook is
         set to call the __IPYTHON__.rc.editor command.  This is read from your
         environment variable $EDITOR.  If this isn't found, it will default to
         vi under Linux/Unix and to notepad under Windows.  See the end of this
         docstring for how to change the editor hook.
 
         You can also set the value of this editor via the command line option
         '-editor' or in your ipythonrc file. This is useful if you wish to use
         specifically for IPython an editor different from your typical default
         (and for Windows users who typically don't set environment variables).
 
         This command allows you to conveniently edit multi-line code right in
         your IPython session.
         
         If called without arguments, %edit opens up an empty editor with a
         temporary file and will execute the contents of this file when you
         close it (don't forget to save it!).
 
 
         Options:
 
         -n <number>: open the editor at a specified line number.  By default,
         the IPython editor hook uses the unix syntax 'editor +N filename', but
         you can configure this by providing your own modified hook if your
         favorite editor supports line-number specifications with a different
         syntax.
         
         -p: this will call the editor with the same data as the previous time
         it was used, regardless of how long ago (in your current session) it
         was.
 
         -r: use 'raw' input.  This option only applies to input taken from the
         user's history.  By default, the 'processed' history is used, so that
         magics are loaded in their transformed version to valid Python.  If
         this option is given, the raw input as typed as the command line is
         used instead.  When you exit the editor, it will be executed by
         IPython's own processor.
         
         -x: do not execute the edited code immediately upon exit. This is
         mainly useful if you are editing programs which need to be called with
         command line arguments, which you can then do using %run.
 
 
         Arguments:
 
         If arguments are given, the following possibilites exist:
 
         - The arguments are numbers or pairs of colon-separated numbers (like
         1 4:8 9). These are interpreted as lines of previous input to be
         loaded into the editor. The syntax is the same of the %macro command.
 
         - If the argument doesn't start with a number, it is evaluated as a
         variable and its contents loaded into the editor. You can thus edit
         any string which contains python code (including the result of
         previous edits).
 
         - If the argument is the name of an object (other than a string),
         IPython will try to locate the file where it was defined and open the
         editor at the point where it is defined. You can use `%edit function`
         to load an editor exactly at the point where 'function' is defined,
         edit it and have the file be executed automatically.
 
         If the object is a macro (see %macro for details), this opens up your
         specified editor with a temporary file containing the macro's data.
         Upon exit, the macro is reloaded with the contents of the file.
 
         Note: opening at an exact line is only supported under Unix, and some
         editors (like kedit and gedit up to Gnome 2.8) do not understand the
         '+NUMBER' parameter necessary for this feature. Good editors like
         (X)Emacs, vi, jed, pico and joe all do.
 
         - If the argument is not found as a variable, IPython will look for a
         file with that name (adding .py if necessary) and load it into the
         editor. It will execute its contents with execfile() when you exit,
         loading any code in the file into your interactive namespace.
 
         After executing your code, %edit will return as output the code you
         typed in the editor (except when it was an existing file). This way
         you can reload the code in further invocations of %edit as a variable,
         via _<NUMBER> or Out[<NUMBER>], where <NUMBER> is the prompt number of
         the output.
 
         Note that %edit is also available through the alias %ed.
 
         This is an example of creating a simple function inside the editor and
         then modifying it. First, start up the editor:
 
         In [1]: ed\\
         Editing... done. Executing edited code...\\
         Out[1]: 'def foo():\\n    print "foo() was defined in an editing session"\\n'
 
         We can then call the function foo():
         
         In [2]: foo()\\
         foo() was defined in an editing session
 
         Now we edit foo.  IPython automatically loads the editor with the
         (temporary) file where foo() was previously defined:
         
         In [3]: ed foo\\
         Editing... done. Executing edited code...
 
         And if we call foo() again we get the modified version:
         
         In [4]: foo()\\
         foo() has now been changed!
 
         Here is an example of how to edit a code snippet successive
         times. First we call the editor:
 
         In [8]: ed\\
         Editing... done. Executing edited code...\\
         hello\\
         Out[8]: "print 'hello'\\n"
 
         Now we call it again with the previous output (stored in _):
 
         In [9]: ed _\\
         Editing... done. Executing edited code...\\
         hello world\\
         Out[9]: "print 'hello world'\\n"
 
         Now we call it with the output #8 (stored in _8, also as Out[8]):
 
         In [10]: ed _8\\
         Editing... done. Executing edited code...\\
         hello again\\
         Out[10]: "print 'hello again'\\n"
 
 
         Changing the default editor hook:
 
         If you wish to write your own editor hook, you can put it in a
         configuration file which you load at startup time.  The default hook
         is defined in the IPython.hooks module, and you can use that as a
         starting example for further modifications.  That file also has
         general instructions on how to set a new hook for use once you've
         defined it."""
         
         # FIXME: This function has become a convoluted mess.  It needs a
         # ground-up rewrite with clean, simple logic.
 
         def make_filename(arg):
             "Make a filename from the given args"
             try:
                 filename = get_py_filename(arg)
             except IOError:
                 if args.endswith('.py'):
                     filename = arg
                 else:
                     filename = None
             return filename
 
         # custom exceptions
         class DataIsObject(Exception): pass
 
         opts,args = self.parse_options(parameter_s,'prxn:')
         # Set a few locals from the options for convenience:
         opts_p = opts.has_key('p')
         opts_r = opts.has_key('r')
         
         # Default line number value
         lineno = opts.get('n',None)
 
         if opts_p:
             args = '_%s' % last_call[0]
             if not self.shell.user_ns.has_key(args):
                 args = last_call[1]
             
         # use last_call to remember the state of the previous call, but don't
         # let it be clobbered by successive '-p' calls.
         try:
             last_call[0] = self.shell.outputcache.prompt_count
             if not opts_p:
                 last_call[1] = parameter_s
         except:
             pass
 
         # by default this is done with temp files, except when the given
         # arg is a filename
         use_temp = 1
 
         if re.match(r'\d',args):
             # Mode where user specifies ranges of lines, like in %macro.
             # This means that you can't edit files whose names begin with
             # numbers this way. Tough.
             ranges = args.split()
             data = ''.join(self.extract_input_slices(ranges,opts_r))
         elif args.endswith('.py'):
             filename = make_filename(args)
             data = ''
             use_temp = 0
         elif args:
             try:
                 # Load the parameter given as a variable. If not a string,
                 # process it as an object instead (below)
 
                 #print '*** args',args,'type',type(args)  # dbg
                 data = eval(args,self.shell.user_ns)
                 if not type(data) in StringTypes:
                     raise DataIsObject
 
             except (NameError,SyntaxError):
                 # given argument is not a variable, try as a filename
                 filename = make_filename(args)
                 if filename is None:
                     warn("Argument given (%s) can't be found as a variable "
                          "or as a filename." % args)
                     return
 
                 data = ''
                 use_temp = 0
             except DataIsObject:
 
                 # macros have a special edit function
                 if isinstance(data,Macro):
                     self._edit_macro(args,data)
                     return
                                 
                 # For objects, try to edit the file where they are defined
                 try:
                     filename = inspect.getabsfile(data)
                     if 'fakemodule' in filename.lower() and inspect.isclass(data):                     
                         # class created by %edit? Try to find source
                         # by looking for method definitions instead, the
                         # __module__ in those classes is FakeModule.
                         attrs = [getattr(data, aname) for aname in dir(data)]
                         for attr in attrs:
                             if not inspect.ismethod(attr):
                                 continue
                             filename = inspect.getabsfile(attr)
                             if filename and 'fakemodule' not in filename.lower():
                                 # change the attribute to be the edit target instead
                                 data = attr 
                                 break
                     
                     datafile = 1
                 except TypeError:
                     filename = make_filename(args)
                     datafile = 1
                     warn('Could not find file where `%s` is defined.\n'
                          'Opening a file named `%s`' % (args,filename))
                 # Now, make sure we can actually read the source (if it was in
                 # a temp file it's gone by now).
                 if datafile:
                     try:
                         if lineno is None:
                             lineno = inspect.getsourcelines(data)[1]
                     except IOError:
                         filename = make_filename(args)
                         if filename is None:
                             warn('The file `%s` where `%s` was defined cannot '
                                  'be read.' % (filename,data))
                             return
                 use_temp = 0
         else:
             data = ''
 
         if use_temp:
             filename = self.shell.mktempfile(data)
             print 'IPython will make a temporary file named:',filename
 
         # do actual editing here
         print 'Editing...',
         sys.stdout.flush()
         self.shell.hooks.editor(filename,lineno)
         if opts.has_key('x'):  # -x prevents actual execution
             print
         else:
             print 'done. Executing edited code...'
             if opts_r:
                 self.shell.runlines(file_read(filename))
             else:
                 self.shell.safe_execfile(filename,self.shell.user_ns,
                                          self.shell.user_ns)
         if use_temp:
             try:
                 return open(filename).read()
             except IOError,msg:
                 if msg.filename == filename:
                     warn('File not found. Did you forget to save?')
                     return
                 else:
                     self.shell.showtraceback()
 
     def magic_xmode(self,parameter_s = ''):
         """Switch modes for the exception handlers.
 
         Valid modes: Plain, Context and Verbose.
 
         If called without arguments, acts as a toggle."""
 
         def xmode_switch_err(name):
             warn('Error changing %s exception modes.\n%s' %
                  (name,sys.exc_info()[1]))
 
         shell = self.shell
         new_mode = parameter_s.strip().capitalize()
         try:
             shell.InteractiveTB.set_mode(mode=new_mode)
             print 'Exception reporting mode:',shell.InteractiveTB.mode
         except:
             xmode_switch_err('user')
 
         # threaded shells use a special handler in sys.excepthook
         if shell.isthreaded:
             try:
                 shell.sys_excepthook.set_mode(mode=new_mode)
             except:
                 xmode_switch_err('threaded')
             
     def magic_colors(self,parameter_s = ''):
         """Switch color scheme for prompts, info system and exception handlers.
 
         Currently implemented schemes: NoColor, Linux, LightBG.
 
         Color scheme names are not case-sensitive."""
 
         def color_switch_err(name):
             warn('Error changing %s color schemes.\n%s' %
                  (name,sys.exc_info()[1]))
             
         
         new_scheme = parameter_s.strip()
         if not new_scheme:
             raise UsageError(
                 "%colors: you must specify a color scheme. See '%colors?'")
             return
         # local shortcut
         shell = self.shell
 
         import IPython.rlineimpl as readline
 
         if not readline.have_readline and sys.platform == "win32":
             msg = """\
 Proper color support under MS Windows requires the pyreadline library.
 You can find it at:
 http://ipython.scipy.org/moin/PyReadline/Intro
 Gary's readline needs the ctypes module, from:
 http://starship.python.net/crew/theller/ctypes
 (Note that ctypes is already part of Python versions 2.5 and newer).
 
 Defaulting color scheme to 'NoColor'"""
             new_scheme = 'NoColor'
             warn(msg)
         
         # readline option is 0
         if not shell.has_readline:
             new_scheme = 'NoColor'
             
         # Set prompt colors
         try:
             shell.outputcache.set_colors(new_scheme)
         except:
             color_switch_err('prompt')
         else:
             shell.rc.colors = \
                        shell.outputcache.color_table.active_scheme_name
         # Set exception colors
         try:
             shell.InteractiveTB.set_colors(scheme = new_scheme)
             shell.SyntaxTB.set_colors(scheme = new_scheme)
         except:
             color_switch_err('exception')
 
         # threaded shells use a verbose traceback in sys.excepthook
         if shell.isthreaded:
             try:
                 shell.sys_excepthook.set_colors(scheme=new_scheme)
             except:
                 color_switch_err('system exception handler')
         
         # Set info (for 'object?') colors
         if shell.rc.color_info:
             try:
                 shell.inspector.set_active_scheme(new_scheme)
             except:
                 color_switch_err('object inspector')
         else:
             shell.inspector.set_active_scheme('NoColor')
                 
     def magic_color_info(self,parameter_s = ''):
         """Toggle color_info.
 
         The color_info configuration parameter controls whether colors are
         used for displaying object details (by things like %psource, %pfile or
         the '?' system). This function toggles this value with each call.
 
         Note that unless you have a fairly recent pager (less works better
         than more) in your system, using colored object information displays
         will not work properly. Test it and see."""
         
         self.shell.rc.color_info = 1 - self.shell.rc.color_info
         self.magic_colors(self.shell.rc.colors)
         print 'Object introspection functions have now coloring:',
         print ['OFF','ON'][self.shell.rc.color_info]
 
     def magic_Pprint(self, parameter_s=''):
         """Toggle pretty printing on/off."""
         
         self.shell.rc.pprint = 1 - self.shell.rc.pprint
         print 'Pretty printing has been turned', \
               ['OFF','ON'][self.shell.rc.pprint]
         
     def magic_exit(self, parameter_s=''):
         """Exit IPython, confirming if configured to do so.
 
         You can configure whether IPython asks for confirmation upon exit by
         setting the confirm_exit flag in the ipythonrc file."""
 
         self.shell.exit()
 
     def magic_quit(self, parameter_s=''):
         """Exit IPython, confirming if configured to do so (like %exit)"""
 
         self.shell.exit()
         
     def magic_Exit(self, parameter_s=''):
         """Exit IPython without confirmation."""
 
         self.shell.exit_now = True
 
     #......................................................................
     # Functions to implement unix shell-type things
     
     def magic_alias(self, parameter_s = ''):
         """Define an alias for a system command.
 
         '%alias alias_name cmd' defines 'alias_name' as an alias for 'cmd'
 
         Then, typing 'alias_name params' will execute the system command 'cmd
         params' (from your underlying operating system).
 
         Aliases have lower precedence than magic functions and Python normal
         variables, so if 'foo' is both a Python variable and an alias, the
         alias can not be executed until 'del foo' removes the Python variable.
 
         You can use the %l specifier in an alias definition to represent the
         whole line when the alias is called.  For example:
 
           In [2]: alias all echo "Input in brackets: <%l>"\\
           In [3]: all hello world\\
           Input in brackets: <hello world>
 
         You can also define aliases with parameters using %s specifiers (one
         per parameter):
         
           In [1]: alias parts echo first %s second %s\\
           In [2]: %parts A B\\
           first A second B\\
           In [3]: %parts A\\
           Incorrect number of arguments: 2 expected.\\
           parts is an alias to: 'echo first %s second %s'
 
         Note that %l and %s are mutually exclusive.  You can only use one or
         the other in your aliases.
 
         Aliases expand Python variables just like system calls using ! or !! 
         do: all expressions prefixed with '$' get expanded.  For details of
         the semantic rules, see PEP-215:
         http://www.python.org/peps/pep-0215.html.  This is the library used by
         IPython for variable expansion.  If you want to access a true shell
         variable, an extra $ is necessary to prevent its expansion by IPython:
 
         In [6]: alias show echo\\
         In [7]: PATH='A Python string'\\
         In [8]: show $PATH\\
         A Python string\\
         In [9]: show $$PATH\\
         /usr/local/lf9560/bin:/usr/local/intel/compiler70/ia32/bin:...
 
         You can use the alias facility to acess all of $PATH.  See the %rehash
         and %rehashx functions, which automatically create aliases for the
         contents of your $PATH.
 
         If called with no parameters, %alias prints the current alias table."""
 
         par = parameter_s.strip()
         if not par:
             stored = self.db.get('stored_aliases', {} )
             atab = self.shell.alias_table
             aliases = atab.keys()
             aliases.sort()
             res = []
             showlast = []
             for alias in aliases:
                 special = False
                 try:
                     tgt = atab[alias][1]
                 except (TypeError, AttributeError):
                     # unsubscriptable? probably a callable
                     tgt = atab[alias]
                     special = True
                 # 'interesting' aliases
                 if (alias in stored or
                     special or 
                     alias.lower() != os.path.splitext(tgt)[0].lower() or
                     ' ' in tgt):
                     showlast.append((alias, tgt))
                 else:
                     res.append((alias, tgt ))                
             
             # show most interesting aliases last
             res.extend(showlast)
             print "Total number of aliases:",len(aliases)
             return res
         try:
             alias,cmd = par.split(None,1)
         except:
             print OInspect.getdoc(self.magic_alias)
         else:
             nargs = cmd.count('%s')
             if nargs>0 and cmd.find('%l')>=0:
                 error('The %s and %l specifiers are mutually exclusive '
                       'in alias definitions.')
             else:  # all looks OK
                 self.shell.alias_table[alias] = (nargs,cmd)
                 self.shell.alias_table_validate(verbose=0)
     # end magic_alias
 
     def magic_unalias(self, parameter_s = ''):
         """Remove an alias"""
 
         aname = parameter_s.strip()
         if aname in self.shell.alias_table:
             del self.shell.alias_table[aname]
         stored = self.db.get('stored_aliases', {} )
         if aname in stored:
             print "Removing %stored alias",aname
             del stored[aname]
             self.db['stored_aliases'] = stored
             
 
     def magic_rehashx(self, parameter_s = ''):
         """Update the alias table with all executable files in $PATH.
 
         This version explicitly checks that every entry in $PATH is a file
         with execute access (os.X_OK), so it is much slower than %rehash.
 
         Under Windows, it checks executability as a match agains a
         '|'-separated string of extensions, stored in the IPython config
         variable win_exec_ext.  This defaults to 'exe|com|bat'.
         
         This function also resets the root module cache of module completer,
         used on slow filesystems.
         """
         
         
         ip = self.api
 
         # for the benefit of module completer in ipy_completers.py
         del ip.db['rootmodules']
         
         path = [os.path.abspath(os.path.expanduser(p)) for p in 
             os.environ.get('PATH','').split(os.pathsep)]
         path = filter(os.path.isdir,path)
         
         alias_table = self.shell.alias_table
         syscmdlist = []
         if os.name == 'posix':
             isexec = lambda fname:os.path.isfile(fname) and \
                      os.access(fname,os.X_OK)
         else:
 
             try:
                 winext = os.environ['pathext'].replace(';','|').replace('.','')
             except KeyError:
                 winext = 'exe|com|bat|py'
             if 'py' not in winext:
                 winext += '|py'
             execre = re.compile(r'(.*)\.(%s)$' % winext,re.IGNORECASE)
             isexec = lambda fname:os.path.isfile(fname) and execre.match(fname)
         savedir = os.getcwd()
         try:
             # write the whole loop for posix/Windows so we don't have an if in
             # the innermost part
             if os.name == 'posix':
                 for pdir in path:
                     os.chdir(pdir)
                     for ff in os.listdir(pdir):
                         if isexec(ff) and ff not in self.shell.no_alias:
                             # each entry in the alias table must be (N,name),
                             # where N is the number of positional arguments of the
                             # alias.
                             alias_table[ff] = (0,ff)
                             syscmdlist.append(ff)
             else:
                 for pdir in path:
                     os.chdir(pdir)
                     for ff in os.listdir(pdir):
                         base, ext = os.path.splitext(ff)
                         if isexec(ff) and base.lower() not in self.shell.no_alias:
                             if ext.lower() == '.exe':
                                 ff = base
                             alias_table[base.lower()] = (0,ff)
                             syscmdlist.append(ff)
             # Make sure the alias table doesn't contain keywords or builtins
             self.shell.alias_table_validate()
             # Call again init_auto_alias() so we get 'rm -i' and other
             # modified aliases since %rehashx will probably clobber them
             
             # no, we don't want them. if %rehashx clobbers them, good,
             # we'll probably get better versions
             # self.shell.init_auto_alias()
             db = ip.db
             db['syscmdlist'] = syscmdlist
         finally:
             os.chdir(savedir)
         
     def magic_pwd(self, parameter_s = ''):
         """Return the current working directory path."""
         return os.getcwd()
 
     def magic_cd(self, parameter_s=''):
         """Change the current working directory.
 
         This command automatically maintains an internal list of directories
         you visit during your IPython session, in the variable _dh. The
         command %dhist shows this history nicely formatted. You can also
         do 'cd -<tab>' to see directory history conveniently.
 
         Usage:
 
           cd 'dir': changes to directory 'dir'.
 
           cd -: changes to the last visited directory.
 
           cd -<n>: changes to the n-th directory in the directory history.
 
           cd -b <bookmark_name>: jump to a bookmark set by %bookmark
              (note: cd <bookmark_name> is enough if there is no
               directory <bookmark_name>, but a bookmark with the name exists.)
               'cd -b <tab>' allows you to tab-complete bookmark names. 
 
         Options:
 
         -q: quiet.  Do not print the working directory after the cd command is
         executed.  By default IPython's cd command does print this directory,
         since the default prompts do not display path information.
         
         Note that !cd doesn't work for this purpose because the shell where
         !command runs is immediately discarded after executing 'command'."""
 
         parameter_s = parameter_s.strip()
         #bkms = self.shell.persist.get("bookmarks",{})
 
         oldcwd = os.getcwd()
         numcd = re.match(r'(-)(\d+)$',parameter_s)
         # jump in directory history by number
         if numcd:
             nn = int(numcd.group(2))
             try:
                 ps = self.shell.user_ns['_dh'][nn]
             except IndexError:
                 print 'The requested directory does not exist in history.'
                 return
             else:
                 opts = {}
         else:
             #turn all non-space-escaping backslashes to slashes, 
             # for c:\windows\directory\names\
             parameter_s = re.sub(r'\\(?! )','/', parameter_s)            
             opts,ps = self.parse_options(parameter_s,'qb',mode='string')
         # jump to previous
         if ps == '-':
             try:
                 ps = self.shell.user_ns['_dh'][-2]
             except IndexError:
                 raise UsageError('%cd -: No previous directory to change to.')
         # jump to bookmark if needed
         else:
             if not os.path.isdir(ps) or opts.has_key('b'):
                 bkms = self.db.get('bookmarks', {})
             
                 if bkms.has_key(ps):
                     target = bkms[ps]
                     print '(bookmark:%s) -> %s' % (ps,target)
                     ps = target
                 else:
                     if opts.has_key('b'):
                         raise UsageError("Bookmark '%s' not found.  "
                               "Use '%%bookmark -l' to see your bookmarks." % ps)
             
         # at this point ps should point to the target dir
         if ps:
             try:                
                 os.chdir(os.path.expanduser(ps))
                 if self.shell.rc.term_title:
                     #print 'set term title:',self.shell.rc.term_title  # dbg
                     ttitle = 'IPy ' + abbrev_cwd()
                     platutils.set_term_title(ttitle)
             except OSError:
                 print sys.exc_info()[1]
             else:
                 cwd = os.getcwd()
                 dhist = self.shell.user_ns['_dh']
                 if oldcwd != cwd:
                     dhist.append(cwd)
                     self.db['dhist'] = compress_dhist(dhist)[-100:]
                 
         else:
             os.chdir(self.shell.home_dir)
             if self.shell.rc.term_title:
                 platutils.set_term_title("IPy ~")
             cwd = os.getcwd()
             dhist = self.shell.user_ns['_dh']
             
             if oldcwd != cwd:
                 dhist.append(cwd)
                 self.db['dhist'] = compress_dhist(dhist)[-100:]
         if not 'q' in opts and self.shell.user_ns['_dh']:
             print self.shell.user_ns['_dh'][-1]
 
 
     def magic_env(self, parameter_s=''):
         """List environment variables."""
         
         return os.environ.data
 
     def magic_pushd(self, parameter_s=''):
         """Place the current dir on stack and change directory.
         
         Usage:\\
           %pushd ['dirname']
         """
         
         dir_s = self.shell.dir_stack
         tgt = os.path.expanduser(parameter_s)
         cwd = os.getcwd().replace(self.home_dir,'~')
         if tgt:
             self.magic_cd(parameter_s)
         dir_s.insert(0,cwd)
         return self.magic_dirs()
 
     def magic_popd(self, parameter_s=''):
         """Change to directory popped off the top of the stack.
         """
         if not self.shell.dir_stack:
             raise UsageError("%popd on empty stack")
         top = self.shell.dir_stack.pop(0)
         self.magic_cd(top)
         print "popd ->",top
 
     def magic_dirs(self, parameter_s=''):
         """Return the current directory stack."""
 
         return self.shell.dir_stack
 
     def magic_dhist(self, parameter_s=''):
         """Print your history of visited directories.
 
         %dhist       -> print full history\\
         %dhist n     -> print last n entries only\\
         %dhist n1 n2 -> print entries between n1 and n2 (n1 not included)\\
 
         This history is automatically maintained by the %cd command, and
         always available as the global list variable _dh. You can use %cd -<n>
         to go to directory number <n>.
         
         Note that most of time, you should view directory history by entering
         cd -<TAB>.
         
         """
 
         dh = self.shell.user_ns['_dh']
         if parameter_s:
             try:
                 args = map(int,parameter_s.split())
             except:
                 self.arg_err(Magic.magic_dhist)
                 return
             if len(args) == 1:
                 ini,fin = max(len(dh)-(args[0]),0),len(dh)
             elif len(args) == 2:
                 ini,fin = args
             else:
                 self.arg_err(Magic.magic_dhist)
                 return
         else:
             ini,fin = 0,len(dh)
         nlprint(dh,
                 header = 'Directory history (kept in _dh)',
                 start=ini,stop=fin)
 
 
     def magic_sc(self, parameter_s=''):
         """Shell capture - execute a shell command and capture its output.
 
         DEPRECATED. Suboptimal, retained for backwards compatibility.
         
         You should use the form 'var = !command' instead. Example:
          
          "%sc -l myfiles = ls ~" should now be written as
             
          "myfiles = !ls ~"
          
         myfiles.s, myfiles.l and myfiles.n still apply as documented
         below.
 
         --
         %sc [options] varname=command
 
         IPython will run the given command using commands.getoutput(), and
         will then update the user's interactive namespace with a variable
         called varname, containing the value of the call.  Your command can
         contain shell wildcards, pipes, etc.
 
         The '=' sign in the syntax is mandatory, and the variable name you
         supply must follow Python's standard conventions for valid names.
         
         (A special format without variable name exists for internal use)
 
         Options:
 
           -l: list output.  Split the output on newlines into a list before
           assigning it to the given variable.  By default the output is stored
           as a single string.
 
           -v: verbose.  Print the contents of the variable.
 
         In most cases you should not need to split as a list, because the
         returned value is a special type of string which can automatically
         provide its contents either as a list (split on newlines) or as a
         space-separated string.  These are convenient, respectively, either
         for sequential processing or to be passed to a shell command.
 
         For example:
 
             # Capture into variable a
             In [9]: sc a=ls *py
 
             # a is a string with embedded newlines
             In [10]: a
             Out[10]: 'setup.py\nwin32_manual_post_install.py'
 
             # which can be seen as a list:
             In [11]: a.l
             Out[11]: ['setup.py', 'win32_manual_post_install.py']
 
             # or as a whitespace-separated string:
             In [12]: a.s
             Out[12]: 'setup.py win32_manual_post_install.py'
 
             # a.s is useful to pass as a single command line:
             In [13]: !wc -l $a.s
               146 setup.py
               130 win32_manual_post_install.py
               276 total
 
             # while the list form is useful to loop over:
             In [14]: for f in a.l:
                ....:      !wc -l $f
                ....:
             146 setup.py
             130 win32_manual_post_install.py
 
         Similiarly, the lists returned by the -l option are also special, in
         the sense that you can equally invoke the .s attribute on them to
         automatically get a whitespace-separated string from their contents:
 
             In [1]: sc -l b=ls *py
 
             In [2]: b
             Out[2]: ['setup.py', 'win32_manual_post_install.py']
 
             In [3]: b.s
             Out[3]: 'setup.py win32_manual_post_install.py'
 
         In summary, both the lists and strings used for ouptut capture have
         the following special attributes:
 
             .l (or .list) : value as list.
             .n (or .nlstr): value as newline-separated string.
             .s (or .spstr): value as space-separated string.
         """
 
         opts,args = self.parse_options(parameter_s,'lv')
         # Try to get a variable name and command to run
         try:
             # the variable name must be obtained from the parse_options
             # output, which uses shlex.split to strip options out.
             var,_ = args.split('=',1)
             var = var.strip()
             # But the the command has to be extracted from the original input
             # parameter_s, not on what parse_options returns, to avoid the
             # quote stripping which shlex.split performs on it.
             _,cmd = parameter_s.split('=',1)
         except ValueError:
             var,cmd = '',''
         # If all looks ok, proceed
         out,err = self.shell.getoutputerror(cmd)
         if err:
             print >> Term.cerr,err
         if opts.has_key('l'):
             out = SList(out.split('\n'))
         else:
             out = LSString(out)
         if opts.has_key('v'):
             print '%s ==\n%s' % (var,pformat(out))
         if var:
             self.shell.user_ns.update({var:out})
         else:
             return out
 
     def magic_sx(self, parameter_s=''):
         """Shell execute - run a shell command and capture its output.
 
         %sx command
 
         IPython will run the given command using commands.getoutput(), and
         return the result formatted as a list (split on '\\n').  Since the
         output is _returned_, it will be stored in ipython's regular output
         cache Out[N] and in the '_N' automatic variables.
 
         Notes:
 
         1) If an input line begins with '!!', then %sx is automatically
         invoked.  That is, while:
           !ls
         causes ipython to simply issue system('ls'), typing
           !!ls
         is a shorthand equivalent to:
           %sx ls
         
         2) %sx differs from %sc in that %sx automatically splits into a list,
         like '%sc -l'.  The reason for this is to make it as easy as possible
         to process line-oriented shell output via further python commands.
         %sc is meant to provide much finer control, but requires more
         typing.
 
         3) Just like %sc -l, this is a list with special attributes:
 
           .l (or .list) : value as list.
           .n (or .nlstr): value as newline-separated string.
           .s (or .spstr): value as whitespace-separated string.
 
         This is very useful when trying to use such lists as arguments to
         system commands."""
 
         if parameter_s:
             out,err = self.shell.getoutputerror(parameter_s)
             if err:
                 print >> Term.cerr,err
             return SList(out.split('\n'))
 
     def magic_bg(self, parameter_s=''):
         """Run a job in the background, in a separate thread.
 
         For example,
 
           %bg myfunc(x,y,z=1)
 
         will execute 'myfunc(x,y,z=1)' in a background thread.  As soon as the
         execution starts, a message will be printed indicating the job
         number.  If your job number is 5, you can use
 
           myvar = jobs.result(5)  or  myvar = jobs[5].result
 
         to assign this result to variable 'myvar'.
 
         IPython has a job manager, accessible via the 'jobs' object.  You can
         type jobs? to get more information about it, and use jobs.<TAB> to see
         its attributes.  All attributes not starting with an underscore are
         meant for public use.
 
         In particular, look at the jobs.new() method, which is used to create
         new jobs.  This magic %bg function is just a convenience wrapper
         around jobs.new(), for expression-based jobs.  If you want to create a
         new job with an explicit function object and arguments, you must call
         jobs.new() directly.
 
         The jobs.new docstring also describes in detail several important
         caveats associated with a thread-based model for background job
         execution.  Type jobs.new? for details.
 
         You can check the status of all jobs with jobs.status().
 
         The jobs variable is set by IPython into the Python builtin namespace.
         If you ever declare a variable named 'jobs', you will shadow this
         name.  You can either delete your global jobs variable to regain
         access to the job manager, or make a new name and assign it manually
         to the manager (stored in IPython's namespace).  For example, to
         assign the job manager to the Jobs name, use:
 
           Jobs = __builtins__.jobs"""
         
         self.shell.jobs.new(parameter_s,self.shell.user_ns)
         
     def magic_r(self, parameter_s=''):
         """Repeat previous input.
 
         Note: Consider using the more powerfull %rep instead!
         
         If given an argument, repeats the previous command which starts with
         the same string, otherwise it just repeats the previous input.
 
         Shell escaped commands (with ! as first character) are not recognized
         by this system, only pure python code and magic commands.
         """
 
         start = parameter_s.strip()
         esc_magic = self.shell.ESC_MAGIC
         # Identify magic commands even if automagic is on (which means
         # the in-memory version is different from that typed by the user).
         if self.shell.rc.automagic:
             start_magic = esc_magic+start
         else:
             start_magic = start
         # Look through the input history in reverse
         for n in range(len(self.shell.input_hist)-2,0,-1):
             input = self.shell.input_hist[n]
             # skip plain 'r' lines so we don't recurse to infinity
             if input != '_ip.magic("r")\n' and \
                    (input.startswith(start) or input.startswith(start_magic)):
                 #print 'match',`input`  # dbg
                 print 'Executing:',input,
                 self.shell.runlines(input)
                 return
         print 'No previous input matching `%s` found.' % start
 
     
     def magic_bookmark(self, parameter_s=''):
         """Manage IPython's bookmark system.
 
         %bookmark <name>       - set bookmark to current dir
         %bookmark <name> <dir> - set bookmark to <dir>
         %bookmark -l           - list all bookmarks
         %bookmark -d <name>    - remove bookmark
         %bookmark -r           - remove all bookmarks
 
         You can later on access a bookmarked folder with:
           %cd -b <name>
         or simply '%cd <name>' if there is no directory called <name> AND
         there is such a bookmark defined.
 
         Your bookmarks persist through IPython sessions, but they are
         associated with each profile."""
 
         opts,args = self.parse_options(parameter_s,'drl',mode='list')
         if len(args) > 2:
             raise UsageError("%bookmark: too many arguments")
 
         bkms = self.db.get('bookmarks',{})
             
         if opts.has_key('d'):
             try:
                 todel = args[0]
             except IndexError:
                 raise UsageError(
                     "%bookmark -d: must provide a bookmark to delete")
             else:
                 try:
                     del bkms[todel]
                 except KeyError:
                     raise UsageError(
                         "%%bookmark -d: Can't delete bookmark '%s'" % todel)
 
         elif opts.has_key('r'):
             bkms = {}
         elif opts.has_key('l'):
             bks = bkms.keys()
             bks.sort()
             if bks:
                 size = max(map(len,bks))
             else:
                 size = 0
             fmt = '%-'+str(size)+'s -> %s'
             print 'Current bookmarks:'
             for bk in bks:
                 print fmt % (bk,bkms[bk])
         else:
             if not args:
                 raise UsageError("%bookmark: You must specify the bookmark name")
             elif len(args)==1:
                 bkms[args[0]] = os.getcwd()
             elif len(args)==2:
                 bkms[args[0]] = args[1]
         self.db['bookmarks'] = bkms
 
     def magic_pycat(self, parameter_s=''):
         """Show a syntax-highlighted file through a pager.
 
         This magic is similar to the cat utility, but it will assume the file
         to be Python source and will show it with syntax highlighting. """
         
         try:
             filename = get_py_filename(parameter_s)
             cont = file_read(filename)
         except IOError:
             try:
                 cont = eval(parameter_s,self.user_ns)
             except NameError:
                 cont = None
         if cont is None:
             print "Error: no such file or variable"
             return
             
         page(self.shell.pycolorize(cont),
              screen_lines=self.shell.rc.screen_length)
 
     def magic_cpaste(self, parameter_s=''):
         """Allows you to paste & execute a pre-formatted code block from clipboard
         
         You must terminate the block with '--' (two minus-signs) alone on the
         line. You can also provide your own sentinel with '%paste -s %%' ('%%' 
         is the new sentinel for this operation)
         
         The block is dedented prior to execution to enable execution of method
         definitions. '>' and '+' characters at the beginning of a line are
         ignored, to allow pasting directly from e-mails or diff files. The
         executed block is also assigned to variable named 'pasted_block' for
         later editing with '%edit pasted_block'.
         
         You can also pass a variable name as an argument, e.g. '%cpaste foo'.
         This assigns the pasted block to variable 'foo' as string, without 
         dedenting or executing it.
         
         Do not be alarmed by garbled output on Windows (it's a readline bug). 
         Just press enter and type -- (and press enter again) and the block 
         will be what was just pasted.
         
         IPython statements (magics, shell escapes) are not supported (yet).
         """
         opts,args = self.parse_options(parameter_s,'s:',mode='string')
         par = args.strip()
         sentinel = opts.get('s','--')
 
         strip_from_start = [re.compile(e) for e in 
                             ['^(.?>)+','^In \[\d+\]:','^\++']]         
         from IPython import iplib
         lines = []
         print "Pasting code; enter '%s' alone on the line to stop." % sentinel
         while 1:
             l = iplib.raw_input_original(':')
             if l ==sentinel:
                 break
             
             for pat in strip_from_start: 
                 l = pat.sub('',l)
             lines.append(l)
                          
         block = "\n".join(lines) + '\n'
         #print "block:\n",block
         if not par:
             b = textwrap.dedent(block)
             exec b in self.user_ns            
             self.user_ns['pasted_block'] = b
         else:
             self.user_ns[par] = block
             print "Block assigned to '%s'" % par
             
     def magic_quickref(self,arg):
         """ Show a quick reference sheet """
         import IPython.usage
         qr = IPython.usage.quick_reference + self.magic_magic('-brief')
         
         page(qr)
         
     def magic_upgrade(self,arg):
         """ Upgrade your IPython installation
         
         This will copy the config files that don't yet exist in your 
         ipython dir from the system config dir. Use this after upgrading 
         IPython if you don't wish to delete your .ipython dir.
 
         Call with -nolegacy to get rid of ipythonrc* files (recommended for
         new users)
 
         """
         ip = self.getapi()
         ipinstallation = path(IPython.__file__).dirname()
         upgrade_script = '%s "%s"' % (sys.executable,ipinstallation / 'upgrade_dir.py')
         src_config = ipinstallation / 'UserConfig'
         userdir = path(ip.options.ipythondir)
         cmd = '%s "%s" "%s"' % (upgrade_script, src_config, userdir)
         print ">",cmd
         shell(cmd)
         if arg == '-nolegacy':
             legacy = userdir.files('ipythonrc*')
             print "Nuking legacy files:",legacy
             
             [p.remove() for p in legacy]
             suffix = (sys.platform == 'win32' and '.ini' or '')
             (userdir / ('ipythonrc' + suffix)).write_text('# Empty, see ipy_user_conf.py\n')
 
 
     def magic_doctest_mode(self,parameter_s=''):
         """Toggle doctest mode on and off.
 
         This mode allows you to toggle the prompt behavior between normal
         IPython prompts and ones that are as similar to the default IPython
         interpreter as possible.
 
         It also supports the pasting of code snippets that have leading '>>>'
         and '...' prompts in them.  This means that you can paste doctests from
         files or docstrings (even if they have leading whitespace), and the
         code will execute correctly.  You can then use '%history -tn' to see
         the translated history without line numbers; this will give you the
         input after removal of all the leading prompts and whitespace, which
         can be pasted back into an editor.
 
         With these features, you can switch into this mode easily whenever you
         need to do testing and changes to doctests, without having to leave
         your existing IPython session.
         """
 
         # XXX - Fix this to have cleaner activate/deactivate calls.
         from IPython.Extensions import InterpreterPasteInput as ipaste
         from IPython.ipstruct import Struct
 
         # Shorthands
         shell = self.shell
         oc = shell.outputcache
         rc = shell.rc
         meta = shell.meta
         # dstore is a data store kept in the instance metadata bag to track any
         # changes we make, so we can undo them later.
         dstore = meta.setdefault('doctest_mode',Struct())
         save_dstore = dstore.setdefault
 
         # save a few values we'll need to recover later
         mode = save_dstore('mode',False)
         save_dstore('rc_pprint',rc.pprint)
         save_dstore('xmode',shell.InteractiveTB.mode)
         save_dstore('rc_separate_out',rc.separate_out)
         save_dstore('rc_separate_out2',rc.separate_out2)
         save_dstore('rc_prompts_pad_left',rc.prompts_pad_left)
 
         if mode == False:
             # turn on
             ipaste.activate_prefilter()
 
             oc.prompt1.p_template = '>>> '
             oc.prompt2.p_template = '... '
             oc.prompt_out.p_template = ''
 
             oc.output_sep = ''
             oc.output_sep2 = ''
 
             oc.prompt1.pad_left = oc.prompt2.pad_left = \
                                   oc.prompt_out.pad_left = False
 
             rc.pprint = False
 
             shell.magic_xmode('Plain')
 
         else:
             # turn off
             ipaste.deactivate_prefilter()
 
             oc.prompt1.p_template = rc.prompt_in1
             oc.prompt2.p_template = rc.prompt_in2
             oc.prompt_out.p_template = rc.prompt_out
 
             oc.output_sep = dstore.rc_separate_out
             oc.output_sep2 = dstore.rc_separate_out2
 
             oc.prompt1.pad_left = oc.prompt2.pad_left = \
                          oc.prompt_out.pad_left = dstore.rc_prompts_pad_left
 
             rc.pprint = dstore.rc_pprint
 
             shell.magic_xmode(dstore.xmode)
 
         # Store new mode and inform
         dstore.mode = bool(1-int(mode))
         print 'Doctest mode is:',
         print ['OFF','ON'][dstore.mode]
 
 # end Magic

IPython/external/mglob.py

@@ -1,203 +1,203 b''
 #!/usr/bin/env python
 
 r""" mglob - enhanced file list expansion module
 
 Use as stand-alone utility (for xargs, `backticks` etc.), 
 or a globbing library for own python programs. Globbing the sys.argv is something 
 that almost every Windows script has to perform manually, and this module is here
 to help with that task. Also Unix users will benefit from enhanced modes 
 such as recursion, exclusion, directory omission...
 
 Unlike glob.glob, directories are not included in the glob unless specified 
 with 'dir:'
 
 'expand' is the function to use in python programs. Typical use
 to expand argv (esp. in windows)::
 
     try:
         import mglob 
         files = mglob.expand(sys.argv[1:])
     except ImportError:
         print "mglob not found; try 'easy_install mglob' for extra features"
         files = sys.argv[1:] 
 
 Note that for unix, shell expands *normal* wildcards (*.cpp, etc.) in argv.
 Therefore, you might want to use quotes with normal wildcards to prevent this 
 expansion, in order for mglob to see the wildcards and get the wanted behaviour.
 Not quoting the wildcards is harmless and typically has equivalent results, though.
 
 Author: Ville Vainio <[e-mail]>
 License: MIT Open Source license
 
 """
 
 #Assigned in variable for "usage" printing convenience"
 
 globsyntax = """\
-This program allows specifying filenames with "mglob" mechanism.
-Supported syntax in globs (wilcard matching patterns)::
-
- *.cpp ?ellowo*                
-     - obvious. Differs from normal glob in that dirs are not included.
-       Unix users might want to write this as: "*.cpp" "?ellowo*"
- rec:/usr/share=*.txt,*.doc    
-     - get all *.txt and *.doc under /usr/share, 
-       recursively
- rec:/usr/share
-     - All files under /usr/share, recursively
- rec:*.py
-     - All .py files under current working dir, recursively
- foo                           
-     - File or dir foo
- !*.bak readme*                   
-     - readme*, exclude files ending with .bak
- !.svn/ !.hg/ !*_Data/ rec:.
-     - Skip .svn, .hg, foo_Data dirs (and their subdirs) in recurse.
-       Trailing / is the key, \ does not work!
- dir:foo                       
-     - the directory foo if it exists (not files in foo)
- dir:*                         
-     - all directories in current folder
- foo.py bar.* !h* rec:*.py
-     - Obvious. !h* exclusion only applies for rec:*.py.
-       foo.py is *not* included twice.
- @filelist.txt
-     - All files listed in 'filelist.txt' file, on separate lines.
+    This program allows specifying filenames with "mglob" mechanism.
+    Supported syntax in globs (wilcard matching patterns)::
+    
+     *.cpp ?ellowo*                
+         - obvious. Differs from normal glob in that dirs are not included.
+           Unix users might want to write this as: "*.cpp" "?ellowo*"
+     rec:/usr/share=*.txt,*.doc    
+         - get all *.txt and *.doc under /usr/share, 
+           recursively
+     rec:/usr/share
+         - All files under /usr/share, recursively
+     rec:*.py
+         - All .py files under current working dir, recursively
+     foo                           
+         - File or dir foo
+     !*.bak readme*                   
+         - readme*, exclude files ending with .bak
+     !.svn/ !.hg/ !*_Data/ rec:.
+         - Skip .svn, .hg, foo_Data dirs (and their subdirs) in recurse.
+           Trailing / is the key, \ does not work!
+     dir:foo                       
+         - the directory foo if it exists (not files in foo)
+     dir:*                         
+         - all directories in current folder
+     foo.py bar.* !h* rec:*.py
+         - Obvious. !h* exclusion only applies for rec:*.py.
+           foo.py is *not* included twice.
+     @filelist.txt
+         - All files listed in 'filelist.txt' file, on separate lines.
  """
 
 
 __version__ = "0.2"
 
 
 import os,glob,fnmatch,sys
 from sets import Set as set
 
                 
 def expand(flist,exp_dirs = False):
     """ Expand the glob(s) in flist.
     
     flist may be either a whitespace-separated list of globs/files
     or an array of globs/files.
     
     if exp_dirs is true, directory names in glob are expanded to the files
     contained in them - otherwise, directory names are returned as is.
     
     """
     if isinstance(flist, basestring):
         flist = flist.split()
     done_set = set()
     denied_set = set()
 
     def recfind(p, pats = ["*"]):
         denied_dirs = ["*" + d+"*" for d in denied_set if d.endswith("/")]
         #print "de", denied_dirs
         for (dp,dnames,fnames) in os.walk(p):
             # see if we should ignore the whole directory
             dp_norm = dp.replace("\\","/") + "/"
             deny = False
             #print "dp",dp
             for deny_pat in denied_dirs:
                 if fnmatch.fnmatch( dp_norm, deny_pat):
                     deny = True
                     break
             if deny:
                 continue
 
                     
             for f in fnames:
                 matched = False
                 for p in pats:
                     if fnmatch.fnmatch(f,p):
                         matched = True
                         break
                 if matched:
                     yield os.path.join(dp,f)            
 
     def once_filter(seq):
         for it in seq:
             p = os.path.abspath(it)
             if p in done_set:
                 continue
             done_set.add(p)
             deny = False
             for deny_pat in denied_set:
                 if fnmatch.fnmatch(os.path.basename(p), deny_pat):
                     deny = True
                     break
             if not deny:
                 yield it
         return
             
     res = []
 
     for ent in flist:
         ent = os.path.expanduser(os.path.expandvars(ent))
         if ent.lower().startswith('rec:'):
             fields = ent[4:].split('=')            
             if len(fields) == 2:
                 pth, patlist = fields
             elif len(fields) == 1:
                 if os.path.isdir(fields[0]):
                     # single arg is dir
                     pth, patlist = fields[0], '*'
                 else: 
                     # single arg is pattern
                     pth, patlist = '.', fields[0]
                     
             elif len(fields) == 0:
                 pth, pathlist = '.','*'
                 
             pats = patlist.split(',')
             res.extend(once_filter(recfind(pth, pats)))
         # filelist
         elif ent.startswith('@') and os.path.isfile(ent[1:]):
             res.extend(once_filter(open(ent[1:]).read().splitlines()))
         # exclusion
         elif ent.startswith('!'):
             denied_set.add(ent[1:])
         # glob only dirs
         elif ent.lower().startswith('dir:'):
             res.extend(once_filter(filter(os.path.isdir,glob.glob(ent[4:]))))
             
         # get all files in the specified dir
         elif os.path.isdir(ent) and exp_dirs:
             res.extend(once_filter(filter(os.path.isfile,glob.glob(ent + os.sep+"*"))))
             
         # glob only files
 
         elif '*' in ent or '?' in ent:
             res.extend(once_filter(filter(os.path.isfile,glob.glob(ent))))
 
         else:
             res.extend(once_filter([ent]))
     return res
             
             
 def test():
     assert (
         expand("*.py ~/.ipython/*.py rec:/usr/share/doc-base") == 
         expand( ['*.py', '~/.ipython/*.py', 'rec:/usr/share/doc-base'] ) 
         )
     
 def main():
     if len(sys.argv) < 2:
         print globsyntax
         return
     
     print "\n".join(expand(sys.argv[1:])),
 
 def mglob_f(self, arg):
     from IPython.genutils import SList
     if arg.strip():
         return SList(expand(arg))
     print "Please specify pattern!"
     print globsyntax
 
 def init_ipython(ip):
     """ register %mglob for IPython """
     mglob_f.__doc__ = globsyntax
     ip.expose_magic("mglob",mglob_f)  
     
 # test()
 if __name__ == "__main__":
     main()

doc/source/ipython.rst

@@ -1,5456 +1,5860 b''
 .. IPython documentation master file, created by sphinx-quickstart.py on Mon Mar 24 17:01:34 2008.
    You can adapt this file completely to your liking, but it should at least
    contain the root 'toctree' directive.
 
-Welcome to IPython's documentation!
-===================================
+IPython documentation
+=====================
 
 Contents:
 
 .. toctree::
    :maxdepth: 2
 
 Indices and tables
 ==================
 
 * :ref:`genindex`
 * :ref:`modindex`
 * :ref:`search`
 
 Overview
 ========
 
 One of Python's most useful features is its interactive interpreter.
 This system allows very fast testing of ideas without the overhead of
 creating test files as is typical in most programming languages.
 However, the interpreter supplied with the standard Python distribution
 is somewhat limited for extended interactive use.
 
 IPython is a free software project (released under the BSD license)
 which tries to:
 
    1. Provide an interactive shell superior to Python's default. IPython
       has many features for object introspection, system shell access,
       and its own special command system for adding functionality when
       working interactively. It tries to be a very efficient environment
       both for Python code development and for exploration of problems
       using Python objects (in situations like data analysis).
    2. Serve as an embeddable, ready to use interpreter for your own
       programs. IPython can be started with a single call from inside
       another program, providing access to the current namespace. This
       can be very useful both for debugging purposes and for situations
       where a blend of batch-processing and interactive exploration are
       needed.
    3. Offer a flexible framework which can be used as the base
       environment for other systems with Python as the underlying
       language. Specifically scientific environments like Mathematica,
       IDL and Matlab inspired its design, but similar ideas can be
       useful in many fields.
    4. Allow interactive testing of threaded graphical toolkits. IPython
       has support for interactive, non-blocking control of GTK, Qt and
       WX applications via special threading flags. The normal Python
       shell can only do this for Tkinter applications.
 
 
 Main features
 -------------
 
 * Dynamic object introspection. One can access docstrings, function
   definition prototypes, source code, source files and other details
   of any object accessible to the interpreter with a single
   keystroke ('?', and using '??' provides additional detail).
 * Searching through modules and namespaces with '*' wildcards, both
   when using the '?' system and via the %psearch command.
 * Completion in the local namespace, by typing TAB at the prompt.
-  This works for keywords, methods, variables and files in the
+  This works for keywords, modules, methods, variables and files in the
   current directory. This is supported via the readline library, and
-  full access to configuring readline's behavior is provided.
+  full access to configuring readline's behavior is provided. 
+  Custom completers can be implemented easily for different purposes
+  (system commands, magic arguments etc.)
 * Numbered input/output prompts with command history (persistent
   across sessions and tied to each profile), full searching in this
   history and caching of all input and output.
 * User-extensible 'magic' commands. A set of commands prefixed with
   % is available for controlling IPython itself and provides
   directory control, namespace information and many aliases to
   common system shell commands.
 * Alias facility for defining your own system aliases.
 * Complete system shell access. Lines starting with ! are passed
-  directly to the system shell, and using !! captures shell output
-  into python variables for further use.
+  directly to the system shell, and using !! or var = !cmd 
+  captures shell output into python variables for further use.
 * Background execution of Python commands in a separate thread.
   IPython has an internal job manager called jobs, and a
   conveninence backgrounding magic function called %bg.
 * The ability to expand python variables when calling the system
   shell. In a shell command, any python variable prefixed with $ is
   expanded. A double $$ allows passing a literal $ to the shell (for
   access to shell and environment variables like $PATH).
 * Filesystem navigation, via a magic %cd command, along with a
   persistent bookmark system (using %bookmark) for fast access to
   frequently visited directories.
 * A lightweight persistence framework via the %store command, which
   allows you to save arbitrary Python variables. These get restored
   automatically when your session restarts.
 * Automatic indentation (optional) of code as you type (through the
   readline library).
 * Macro system for quickly re-executing multiple lines of previous
   input with a single name. Macros can be stored persistently via
   %store and edited via %edit.
 * Session logging (you can then later use these logs as code in your
   programs). Logs can optionally timestamp all input, and also store
   session output (marked as comments, so the log remains valid
   Python source code).
 * Session restoring: logs can be replayed to restore a previous
   session to the state where you left it.
 * Verbose and colored exception traceback printouts. Easier to parse
   visually, and in verbose mode they produce a lot of useful
   debugging information (basically a terminal version of the cgitb
   module).
 * Auto-parentheses: callable objects can be executed without
   parentheses: 'sin 3' is automatically converted to 'sin(3)'.
 * Auto-quoting: using ',' or ';' as the first character forces
   auto-quoting of the rest of the line: ',my_function a b' becomes
   automatically 'my_function("a","b")', while ';my_function a b'
   becomes 'my_function("a b")'.
 * Extensible input syntax. You can define filters that pre-process
   user input to simplify input in special situations. This allows
   for example pasting multi-line code fragments which start with
   '>>>' or '...' such as those from other python sessions or the
   standard Python documentation.
 * Flexible configuration system. It uses a configuration file which
   allows permanent setting of all command-line options, module
   loading, code and file execution. The system allows recursive file
   inclusion, so you can have a base file with defaults and layers
   which load other customizations for particular projects.
 * Embeddable. You can call IPython as a python shell inside your own
   python programs. This can be used both for debugging code or for
   providing interactive abilities to your programs with knowledge
   about the local namespaces (very useful in debugging and data
   analysis situations).
 * Easy debugger access. You can set IPython to call up an enhanced
   version of the Python debugger (pdb) every time there is an
   uncaught exception. This drops you inside the code which triggered
   the exception with all the data live and it is possible to
   navigate the stack to rapidly isolate the source of a bug. The
   %run magic command -with the -d option- can run any script under
   pdb's control, automatically setting initial breakpoints for you.
   This version of pdb has IPython-specific improvements, including
-  tab-completion and traceback coloring support.
+  tab-completion and traceback coloring support. For even easier
+  debugger access, try %debug after seeing an exception. winpdb is 
+  also supported, see ipy_winpdb extension.
 * Profiler support. You can run single statements (similar to
   profile.run()) or complete programs under the profiler's control.
   While this is possible with standard cProfile or profile modules,
   IPython wraps this functionality with magic commands (see '%prun'
   and '%run -p') convenient for rapid interactive work.
 * Doctest support. The special %doctest_mode command toggles a mode
   that allows you to paste existing doctests (with leading '>>>'
   prompts and whitespace) and uses doctest-compatible prompts and
   output, so you can use IPython sessions as doctest code.
 
 
 Portability and Python requirements
 -----------------------------------
 
 Python requirements: IPython requires with Python version 2.3 or newer.
 If you are still using Python 2.2 and can not upgrade, the last version
 of IPython which worked with Python 2.2 was 0.6.15, so you will have to
 use that.
 
 IPython is developed under Linux, but it should work in any reasonable
 Unix-type system (tested OK under Solaris and the BSD family, for which
 a port exists thanks to Dryice Liu).
 
 Mac OS X: it works, apparently without any problems (thanks to Jim Boyle
 at Lawrence Livermore for the information). Thanks to Andrea Riciputi,
 Fink support is available.
 
 CygWin: it works mostly OK, though some users have reported problems
 with prompt coloring. No satisfactory solution to this has been found so
 far, you may want to disable colors permanently in the ipythonrc
 configuration file if you experience problems. If you have proper color
 support under cygwin, please post to the IPython mailing list so this
 issue can be resolved for all users.
 
-Windows: it works well under Windows XP/2k, and I suspect NT should
-behave similarly. Section 2.3 <node2.html#sub:Under-Windows> describes
+Windows: it works well under Windows Vista/XP/2k, and I suspect NT should
+behave similarly. Section "Installation under windows" describes
 installation details for Windows, including some additional tools needed
 on this platform.
 
 Windows 9x support is present, and has been reported to work fine (at
 least on WinME).
 
-Note, that I have very little access to and experience with Windows
-development. However, an excellent group of Win32 users (led by Ville
-Vainio), consistently contribute bugfixes and platform-specific
-enhancements, so they more than make up for my deficiencies on that
-front. In fact, Win32 users report using IPython as a system shell (see
-Sec. 12 <node12.html#sec:IPython-as-shell> for details), as it offers a
-level of control and features which the default cmd.exe doesn't provide.
-
-
 Location
 ========
 
 IPython is generously hosted at http://ipython.scipy.org by the
 Enthought, Inc and the SciPy project. This site offers downloads,
 subversion access, mailing lists and a bug tracking system. I am very
 grateful to Enthought (http://www.enthought.com) and all of the SciPy
 team for their contribution.
 
 Installation
 ============
 
 Instant instructions
 --------------------
 
 If you are of the impatient kind, under Linux/Unix simply untar/unzip
 the download, then install with 'python setup.py install'. Under
 Windows, double-click on the provided .exe binary installer.
 
-Then, take a look at Sections 3 <node3.html#sec:good_config> for
-configuring things optimally and 4 <node4.html#sec:quick_tips> for quick
-tips on efficient use of IPython. You can later refer to the rest of the
-manual for all the gory details.
+Then, take a look at Customization_ section for configuring things
+optimally and `Quick tips`_ for quick tips on efficient use of
+IPython. You can later refer to the rest of the manual for all the
+gory details.
 
-See the notes in sec. 2.4 <#sec:upgrade> for upgrading IPython versions.
+See the notes in upgrading_ section for upgrading IPython versions.
 
 
     Detailed Unix instructions (Linux, Mac OS X, etc.)
 
 For RPM based systems, simply install the supplied package in the usual
 manner. If you download the tar archive, the process is:
 
    1. Unzip/untar the ipython-XXX.tar.gz file wherever you want (XXX is
       the version number). It will make a directory called ipython-XXX.
       Change into that directory where you will find the files README
       and setup.py. Once you've completed the installation, you can
       safely remove this directory.
    2. If you are installing over a previous installation of version
       0.2.0 or earlier, first remove your $HOME/.ipython directory,
       since the configuration file format has changed somewhat (the '='
       were removed from all option specifications). Or you can call
       ipython with the -upgrade option and it will do this automatically
       for you.
    3. IPython uses distutils, so you can install it by simply typing at
       the system prompt (don't type the $)::
       
       	$ python setup.py install
       	
       Note that this assumes you have root access to your machine. If
       you don't have root access or don't want IPython to go in the
       default python directories, you'll need to use the ``--home`` option
       (or ``--prefix``). For example::
       
       	$ python setup.py install --home $HOME/local
       	
       will install IPython into $HOME/local and its subdirectories
       (creating them if necessary).
       You can type::
       
       	$ python setup.py --help
       	
       for more details.
       
       Note that if you change the default location for ``--home`` at
       installation, IPython may end up installed at a location which is
       not part of your $PYTHONPATH environment variable. In this case,
       you'll need to configure this variable to include the actual
       directory where the IPython/ directory ended (typically the value
       you give to ``--home`` plus /lib/python).
 
 
 Mac OSX information
 -------------------
 
 Under OSX, there is a choice you need to make. Apple ships its own build
 of Python, which lives in the core OSX filesystem hierarchy. You can
 also manually install a separate Python, either purely by hand
 (typically in /usr/local) or by using Fink, which puts everything under
 /sw. Which route to follow is a matter of personal preference, as I've
 seen users who favor each of the approaches. Here I will simply list the
 known installation issues under OSX, along with their solutions.
 
 This page: http://geosci.uchicago.edu/~tobis/pylab.html contains
 information on this topic, with additional details on how to make
 IPython and matplotlib play nicely under OSX.
 
+To run IPython and readline on OSX "Leopard" system python, see the 
+wiki page at http://ipython.scipy.org/moin/InstallationOSXLeopard
+
 
 GUI problems
 ------------
 
 The following instructions apply to an install of IPython under OSX from
 unpacking the .tar.gz distribution and installing it for the default
 Python interpreter shipped by Apple. If you are using a fink install,
 fink will take care of these details for you, by installing IPython
 against fink's Python.
 
 IPython offers various forms of support for interacting with graphical
 applications from the command line, from simple Tk apps (which are in
 principle always supported by Python) to interactive control of WX, Qt
 and GTK apps. Under OSX, however, this requires that ipython is
 installed by calling the special pythonw script at installation time,
 which takes care of coordinating things with Apple's graphical environment.
 
 So when installing under OSX, it is best to use the following command:: 
 
 	$ sudo pythonw setup.py install --install-scripts=/usr/local/bin
 
 or
 
 	$ sudo pythonw setup.py install --install-scripts=/usr/bin
 	
 depending on where you like to keep hand-installed executables.
 
 The resulting script will have an appropriate shebang line (the first
 line in the script whic begins with #!...) such that the ipython
 interpreter can interact with the OS X GUI. If the installed version
 does not work and has a shebang line that points to, for example, just
 /usr/bin/python, then you might have a stale, cached version in your
 build/scripts-<python-version> directory. Delete that directory and
 rerun the setup.py.
 
 It is also a good idea to use the special flag ``--install-scripts`` as
 indicated above, to ensure that the ipython scripts end up in a location
 which is part of your $PATH. Otherwise Apple's Python will put the
 scripts in an internal directory not available by default at the command
 line (if you use /usr/local/bin, you need to make sure this is in your
 $PATH, which may not be true by default).
 
 
 Readline problems
 -----------------
 
 By default, the Python version shipped by Apple does not include the
 readline library, so central to IPython's behavior. If you install
 IPython against Apple's Python, you will not have arrow keys, tab
 completion, etc. For Mac OSX 10.3 (Panther), you can find a prebuilt
 readline library here:
 http://pythonmac.org/packages/readline-5.0-py2.3-macosx10.3.zip
 
 If you are using OSX 10.4 (Tiger), after installing this package you
 need to either:
 
    1. move readline.so from /Library/Python/2.3 to
       /Library/Python/2.3/site-packages, or
    2. install http://pythonmac.org/packages/TigerPython23Compat.pkg.zip
 
 Users installing against Fink's Python or a properly hand-built one
 should not have this problem.
 
 
 DarwinPorts
 -----------
 
 I report here a message from an OSX user, who suggests an alternative
 means of using IPython under this operating system with good results.
 Please let me know of any updates that may be useful for this section.
 His message is reproduced verbatim below:
 
     From: Markus Banfi <markus.banfi-AT-mospheira.net> 
 
     As a MacOS X (10.4.2) user I prefer to install software using
     DawinPorts instead of Fink. I had no problems installing ipython
     with DarwinPorts. It's just: 
 
     sudo port install py-ipython 
 
     It automatically resolved all dependencies (python24, readline,
     py-readline). So far I did not encounter any problems with the
     DarwinPorts port of ipython. 
 
 
 
 Windows instructions
 --------------------
 
 Some of IPython's very useful features are:
 
     * Integrated readline support (Tab-based file, object and attribute
       completion, input history across sessions, editable command line,
       etc.)
     * Coloring of prompts, code and tracebacks.
 
+.. _pyreadline:
+
 These, by default, are only available under Unix-like operating systems.
 However, thanks to Gary Bishop's work, Windows XP/2k users can also
 benefit from them. His readline library originally implemented both GNU
 readline functionality and color support, so that IPython under Windows
 XP/2k can be as friendly and powerful as under Unix-like environments.
 
 This library, now named PyReadline, has been absorbed by the IPython
 team (Jörgen Stenarson, in particular), and it continues to be developed
 with new features, as well as being distributed directly from the
 IPython site.
 
 The PyReadline extension requires CTypes and the windows IPython
 installer needs PyWin32, so in all you need:
 
    1. PyWin32 from http://sourceforge.net/projects/pywin32.
    2. PyReadline for Windows from
       http://ipython.scipy.org/moin/PyReadline/Intro. That page contains
       further details on using and configuring the system to your liking.
    3. Finally, only if you are using Python 2.3 or 2.4, you need CTypes
       from http://starship.python.net/crew/theller/ctypes(you must use
       version 0.9.1 or newer). This package is included in Python 2.5,
       so you don't need to manually get it if your Python version is 2.5
       or newer.
 
 Warning about a broken readline-like library: several users have
 reported problems stemming from using the pseudo-readline library at
 http://newcenturycomputers.net/projects/readline.html. This is a broken
 library which, while called readline, only implements an incomplete
 subset of the readline API. Since it is still called readline, it fools
 IPython's detection mechanisms and causes unpredictable crashes later.
 If you wish to use IPython under Windows, you must NOT use this library,
 which for all purposes is (at least as of version 1.6) terminally broken.
 
 
 Installation procedure
 ----------------------
 
 Once you have the above installed, from the IPython download directory
 grab the ipython-XXX.win32.exe file, where XXX represents the version
 number. This is a regular windows executable installer, which you can
 simply double-click to install. It will add an entry for IPython to your
 Start Menu, as well as registering IPython in the Windows list of
 applications, so you can later uninstall it from the Control Panel.
 
 IPython tries to install the configuration information in a directory
 named .ipython (_ipython under Windows) located in your 'home'
 directory. IPython sets this directory by looking for a HOME environment
 variable; if such a variable does not exist, it uses HOMEDRIVE\HOMEPATH
 (these are always defined by Windows). This typically gives something
 like C:\Documents and Settings\YourUserName, but your local details may
 vary. In this directory you will find all the files that configure
 IPython's defaults, and you can put there your profiles and extensions.
 This directory is automatically added by IPython to sys.path, so
 anything you place there can be found by import statements.
 
 
 Upgrading
 ---------
 
 For an IPython upgrade, you should first uninstall the previous version.
 This will ensure that all files and directories (such as the
 documentation) which carry embedded version strings in their names are
 properly removed.
 
 
 Manual installation under Win32
 -------------------------------
 
 In case the automatic installer does not work for some reason, you can
 download the ipython-XXX.tar.gz file, which contains the full IPython
 source distribution (the popular WinZip can read .tar.gz files). After
 uncompressing the archive, you can install it at a command terminal just
 like any other Python module, by using 'python setup.py install'.
 
 After the installation, run the supplied win32_manual_post_install.py
 script, which creates the necessary Start Menu shortcuts for you.
 
 
+.. upgrading:
 
 Upgrading from a previous version
 ---------------------------------
 
-If you are upgrading from a previous version of IPython, after doing the
-routine installation described above, you should call IPython with the
--upgrade option the first time you run your new copy. This will
-automatically update your configuration directory while preserving
-copies of your old files. You can then later merge back any personal
-customizations you may have made into the new files. It is a good idea
-to do this as there may be new options available in the new
-configuration files which you will not have.
-
-Under Windows, if you don't know how to call python scripts with
-arguments from a command line, simply delete the old config directory
-and IPython will make a new one. Win2k and WinXP users will find it in
-C:\Documents and Settings\YourUserName\_ipython, and Win 9x users under
-C:\Program Files\IPython\_ipython.
+If you are upgrading from a previous version of IPython, you may want
+to upgrade the contents of your ~/.ipython directory. Just run
+%upgrade, look at the diffs and delete the suggested files manually,
+if you think you can lose the old versions. %upgrade will never
+overwrite or delete anything.
 
 Initial configuration of your environment
 =========================================
 
 This section will help you set various things in your environment for
 your IPython sessions to be as efficient as possible. All of IPython's
 configuration information, along with several example files, is stored
 in a directory named by default $HOME/.ipython. You can change this by
 defining the environment variable IPYTHONDIR, or at runtime with the
 command line option -ipythondir.
 
-If all goes well, the first time you run IPython it should automatically
-create a user copy of the config directory for you, based on its builtin
-defaults. You can look at the files it creates to learn more about
-configuring the system. The main file you will modify to configure
-IPython's behavior is called ipythonrc (with a .ini extension under
-Windows), included for reference in Sec. 7.1
-<node7.html#sec:ipytonrc-sample>. This file is very commented and has
-many variables you can change to suit your taste, you can find more
-details in Sec. 7 <node7.html#sec:customization>. Here we discuss the
-basic things you will want to make sure things are working properly from
-the beginning.
+If all goes well, the first time you run IPython it should
+automatically create a user copy of the config directory for you,
+based on its builtin defaults. You can look at the files it creates to
+learn more about configuring the system. The main file you will modify
+to configure IPython's behavior is called ipythonrc (with a .ini
+extension under Windows), included for reference in `ipythonrc`_ 
+section. This file is very commented and has many variables you can
+change to suit your taste, you can find more details in
+Sec. customization_. Here we discuss the basic things you will want to
+make sure things are working properly from the beginning.
 
 
+.. _Accessing help:
 
 Access to the Python help system
 --------------------------------
 
 This is true for Python in general (not just for IPython): you should
 have an environment variable called PYTHONDOCS pointing to the directory
 where your HTML Python documentation lives. In my system it's
 /usr/share/doc/python-docs-2.3.4/html, check your local details or ask
 your systems administrator.
 
 This is the directory which holds the HTML version of the Python
 manuals. Unfortunately it seems that different Linux distributions
 package these files differently, so you may have to look around a bit.
 Below I show the contents of this directory on my system for reference::
 
     [html]> ls 
     about.dat acks.html dist/ ext/ index.html lib/ modindex.html
     stdabout.dat tut/ about.html api/ doc/ icons/ inst/ mac/ ref/ style.css
 
 You should really make sure this variable is correctly set so that
 Python's pydoc-based help system works. It is a powerful and convenient
 system with full access to the Python manuals and all modules accessible
 to you.
 
 Under Windows it seems that pydoc finds the documentation automatically,
 so no extra setup appears necessary.
 
 
 Editor
 ------
 
 The %edit command (and its alias %ed) will invoke the editor set in your
 environment as EDITOR. If this variable is not set, it will default to
 vi under Linux/Unix and to notepad under Windows. You may want to set
 this variable properly and to a lightweight editor which doesn't take
 too long to start (that is, something other than a new instance of
 Emacs). This way you can edit multi-line code quickly and with the power
 of a real editor right inside IPython.
 
 If you are a dedicated Emacs user, you should set up the Emacs server so
 that new requests are handled by the original process. This means that
 almost no time is spent in handling the request (assuming an Emacs
 process is already running). For this to work, you need to set your
 EDITOR environment variable to 'emacsclient'. The code below, supplied
 by Francois Pinard, can then be used in your .emacs file to enable the
 server::
 
     (defvar server-buffer-clients) 
     (when (and (fboundp 'server-start) (string-equal (getenv "TERM") 'xterm)) 
       (server-start) 
       (defun fp-kill-server-with-buffer-routine () 
         (and server-buffer-clients (server-done))) 
       (add-hook 'kill-buffer-hook 'fp-kill-server-with-buffer-routine))
 
 You can also set the value of this editor via the commmand-line option
 '-editor' or in your ipythonrc file. This is useful if you wish to use
 specifically for IPython an editor different from your typical default
 (and for Windows users who tend to use fewer environment variables).
 
 
 Color
 -----
 
 The default IPython configuration has most bells and whistles turned on
 (they're pretty safe). But there's one that may cause problems on some
 systems: the use of color on screen for displaying information. This is
 very useful, since IPython can show prompts and exception tracebacks
 with various colors, display syntax-highlighted source code, and in
 general make it easier to visually parse information.
 
 The following terminals seem to handle the color sequences fine:
 
     * Linux main text console, KDE Konsole, Gnome Terminal, E-term,
       rxvt, xterm.
     * CDE terminal (tested under Solaris). This one boldfaces light colors.
-    * (X)Emacs buffers. See sec.3.4 <#sec:emacs> for more details on
+    * (X)Emacs buffers. See the emacs_ section for more details on
       using IPython with (X)Emacs.
-    * A Windows (XP/2k) command prompt with Gary Bishop's support
-      extensions. Gary's extensions are discussed in Sec. 2.3
-      <node2.html#sub:Under-Windows>.
+    * A Windows (XP/2k) command prompt with pyreadline_.
     * A Windows (XP/2k) CygWin shell. Although some users have reported
       problems; it is not clear whether there is an issue for everyone
       or only under specific configurations. If you have full color
       support under cygwin, please post to the IPython mailing list so
       this issue can be resolved for all users.
 
 These have shown problems:
 
     * Windows command prompt in WinXP/2k logged into a Linux machine via
       telnet or ssh.
     * Windows native command prompt in WinXP/2k, without Gary Bishop's
       extensions. Once Gary's readline library is installed, the normal
       WinXP/2k command prompt works perfectly.
 
 Currently the following color schemes are available:
 
     * NoColor: uses no color escapes at all (all escapes are empty '' ''
       strings). This 'scheme' is thus fully safe to use in any terminal.
     * Linux: works well in Linux console type environments: dark
       background with light fonts. It uses bright colors for
       information, so it is difficult to read if you have a light
       colored background.
     * LightBG: the basic colors are similar to those in the Linux scheme
       but darker. It is easy to read in terminals with light backgrounds.
 
 IPython uses colors for two main groups of things: prompts and
 tracebacks which are directly printed to the terminal, and the object
 introspection system which passes large sets of data through a pager.
 
 
 Input/Output prompts and exception tracebacks
 ---------------------------------------------
 
 You can test whether the colored prompts and tracebacks work on your
 system interactively by typing '%colors Linux' at the prompt (use
 '%colors LightBG' if your terminal has a light background). If the input
 prompt shows garbage like::
 
     [0;32mIn [[1;32m1[0;32m]: [0;00m
                                
 instead of (in color) something like::
     
     In [1]:
         
 this means that your terminal doesn't properly handle color escape
 sequences. You can go to a 'no color' mode by typing '%colors NoColor'.
 
 You can try using a different terminal emulator program (Emacs users,
 see below). To permanently set your color preferences, edit the file
 $HOME/.ipython/ipythonrc and set the colors option to the desired value.
 
 
 Object details (types, docstrings, source code, etc.)
 -----------------------------------------------------
 
-IPython has a set of special functions for studying the objects you are
-working with, discussed in detail in Sec. 6.4
-<node6.html#sec:dyn-object-info>. But this system relies on passing
-information which is longer than your screen through a data pager, such
-as the common Unix less and more programs. In order to be able to see
-this information in color, your pager needs to be properly configured. I
-strongly recommend using less instead of more, as it seems that more
-simply can not understand colored text correctly.
+IPython has a set of special functions for studying the objects you
+are working with, discussed in detail in Sec. `dynamic object
+information`_. But this system relies on passing information which is
+longer than your screen through a data pager, such as the common Unix
+less and more programs. In order to be able to see this information in
+color, your pager needs to be properly configured. I strongly
+recommend using less instead of more, as it seems that more simply can
+not understand colored text correctly.
 
 In order to configure less as your default pager, do the following:
 
    1. Set the environment PAGER variable to less.
    2. Set the environment LESS variable to -r (plus any other options
       you always want to pass to less by default). This tells less to
       properly interpret control sequences, which is how color
       information is given to your terminal.
 
 For the csh or tcsh shells, add to your ~/.cshrc file the lines::
 
     setenv PAGER less 
     setenv LESS -r
 
 There is similar syntax for other Unix shells, look at your system
 documentation for details.
 
 If you are on a system which lacks proper data pagers (such as Windows),
 IPython will use a very limited builtin pager.
 
+.. _emacs:
+
 (X)Emacs configuration
 ----------------------
 
 Thanks to the work of Alexander Schmolck and Prabhu Ramachandran,
 currently (X)Emacs and IPython get along very well.
 
 Important note: You will need to use a recent enough version of
 python-mode.el, along with the file ipython.el. You can check that the
 version you have of python-mode.el is new enough by either looking at
 the revision number in the file itself, or asking for it in (X)Emacs via
 M-x py-version. Versions 4.68 and newer contain the necessary fixes for
 proper IPython support.
 
 The file ipython.el is included with the IPython distribution, in the
 documentation directory (where this manual resides in PDF and HTML
 formats).
 
 Once you put these files in your Emacs path, all you need in your .emacs
 file is::
 
     (require 'ipython) 
 
 This should give you full support for executing code snippets via
 IPython, opening IPython as your Python shell via C-c !, etc.
 
 If you happen to get garbage instead of colored prompts as described in
 the previous section, you may need to set also in your .emacs file::
 
     (setq ansi-color-for-comint-mode t) 
 
 
 Notes:
 
     * There is one caveat you should be aware of: you must start the
       IPython shell before attempting to execute any code regions via
       ``C-c |``. Simply type C-c ! to start IPython before passing any code
       regions to the interpreter, and you shouldn't experience any
       problems.
       This is due to a bug in Python itself, which has been fixed for
       Python 2.3, but exists as of Python 2.2.2 (reported as SF bug [
       737947 ]).
     * The (X)Emacs support is maintained by Alexander Schmolck, so all
       comments/requests should be directed to him through the IPython
       mailing lists.
     * This code is still somewhat experimental so it's a bit rough
       around the edges (although in practice, it works quite well).
     * Be aware that if you customize py-python-command previously, this
       value will override what ipython.el does (because loading the
       customization variables comes later).
 
+.. Quick tips:
+
 Quick tips
 ==========
 
 IPython can be used as an improved replacement for the Python prompt,
 and for that you don't really need to read any more of this manual. But
 in this section we'll try to summarize a few tips on how to make the
 most effective use of it for everyday Python development, highlighting
 things you might miss in the rest of the manual (which is getting long).
 We'll give references to parts in the manual which provide more detail
 when appropriate.
 
 The following article by Jeremy Jones provides an introductory tutorial
 about IPython:
 http://www.onlamp.com/pub/a/python/2005/01/27/ipython.html
 
     * The TAB key. TAB-completion, especially for attributes, is a
       convenient way to explore the structure of any object you're
       dealing with. Simply type object_name.<TAB> and a list of the
-      object's attributes will be printed (see sec. 6.5
-      <node6.html#sec:readline> for more). Tab completion also works on
+      object's attributes will be printed (see readline_ for
+      more). Tab completion also works on
       file and directory names, which combined with IPython's alias
       system allows you to do from within IPython many of the things you
       normally would need the system shell for.
     * Explore your objects. Typing object_name? will print all sorts of
       details about any object, including docstrings, function
       definition lines (for call arguments) and constructor details for
       classes. The magic commands %pdoc, %pdef, %psource and %pfile will
       respectively print the docstring, function definition line, full
       source code and the complete file for any object (when they can be
       found). If automagic is on (it is by default), you don't need to
-      type the '%' explicitly. See sec. 6.4
-      <node6.html#sec:dyn-object-info> for more.
+      type the '%' explicitly. See sec. `dynamic object information`_
+      for more.
     * The %run magic command allows you to run any python script and
       load all of its data directly into the interactive namespace.
       Since the file is re-read from disk each time, changes you make to
       it are reflected immediately (in contrast to the behavior of
       import). I rarely use import for code I am testing, relying on
-      %run instead. See sec. 6.2 <node6.html#sec:magic> for more on this
+      %run instead. See magic_ section for more on this
       and other magic commands, or type the name of any magic command
-      and ? to get details on it. See also sec. 6.9
-      <node6.html#sec:dreload> for a recursive reload command.
+      and ? to get details on it. See also sec. dreload_ for a
+      recursive reload command.
       %run also has special flags for timing the execution of your
       scripts (-t) and for executing them under the control of either
       Python's pdb debugger (-d) or profiler (-p). With all of these,
       %run can be used as the main tool for efficient interactive
       development of code which you write in your editor of choice.
-    * Use the Python debugger, pdb^2 <footnode.html#foot360>. The %pdb
+    * Use the Python debugger, pdb. The %pdb
       command allows you to toggle on and off the automatic invocation
       of an IPython-enhanced pdb debugger (with coloring, tab completion
       and more) at any uncaught exception. The advantage of this is that
       pdb starts inside the function where the exception occurred, with
       all data still available. You can print variables, see code,
       execute statements and even walk up and down the call stack to
       track down the true source of the problem (which often is many
       layers in the stack above where the exception gets triggered).
       Running programs with %run and pdb active can be an efficient to
       develop and debug code, in many cases eliminating the need for
       print statements or external debugging tools. I often simply put a
       1/0 in a place where I want to take a look so that pdb gets
       called, quickly view whatever variables I need to or test various
       pieces of code and then remove the 1/0.
       Note also that '%run -d' activates pdb and automatically sets
       initial breakpoints for you to step through your code, watch
-      variables, etc. See Sec. 6.12 <node6.html#sec:cache_output> for
+      variables, etc. See Sec. `Output caching`_ for
       details.
     * Use the output cache. All output results are automatically stored
       in a global dictionary named Out and variables named _1, _2, etc.
       alias them. For example, the result of input line 4 is available
       either as Out[4] or as _4. Additionally, three variables named _,
       __ and ___ are always kept updated with the for the last three
       results. This allows you to recall any previous result and further
-      use it for new calculations. See Sec. 6.12
-      <node6.html#sec:cache_output> for more.
+      use it for new calculations. See Sec. `Output caching`_ for more.
     * Put a ';' at the end of a line to supress the printing of output.
       This is useful when doing calculations which generate long output
       you are not interested in seeing. The _* variables and the Out[]
       list do get updated with the contents of the output, even if it is
       not printed. You can thus still access the generated results this
       way for further processing.
     * A similar system exists for caching input. All input is stored in
       a global list called In , so you can re-execute lines 22 through
       28 plus line 34 by typing 'exec In[22:29]+In[34]' (using Python
       slicing notation). If you need to execute the same set of lines
       often, you can assign them to a macro with the %macro function.
-      See sec. 6.11 <node6.html#sec:cache_input> for more.
+      See sec. `Input caching`_ for more.
     * Use your input history. The %hist command can show you all
       previous input, without line numbers if desired (option -n) so you
       can directly copy and paste code either back in IPython or in a
       text editor. You can also save all your history by turning on
       logging via %logstart; these logs can later be either reloaded as
       IPython sessions or used as code for your programs.
     * Define your own system aliases. Even though IPython gives you
       access to your system shell via the ! prefix, it is convenient to
       have aliases to the system commands you use most often. This
       allows you to work seamlessly from inside IPython with the same
       commands you are used to in your system shell.
       IPython comes with some pre-defined aliases and a complete system
       for changing directories, both via a stack (see %pushd, %popd and
       %dhist) and via direct %cd. The latter keeps a history of visited
       directories and allows you to go to any previously visited one.
     * Use Python to manipulate the results of system commands. The '!!'
       special syntax, and the %sc and %sx magic commands allow you to
       capture system output into Python variables.
     * Expand python variables when calling the shell (either via '!' and
       '!!' or via aliases) by prepending a $ in front of them. You can
-      also expand complete python expressions. See sec. 6.7
-      <node6.html#sub:System-shell-access> for more.
+      also expand complete python expressions. See 
+      `System shell access`_ for more.
     * Use profiles to maintain different configurations (modules to
       load, function definitions, option settings) for particular tasks.
       You can then have customized versions of IPython for specific
-      purposes. See sec. 7.3 <node7.html#sec:profiles> for more.
+      purposes. See sec. profiles_ for more.
     * Embed IPython in your programs. A few lines of code are enough to
       load a complete IPython inside your own programs, giving you the
       ability to work with your data interactively after automatic
-      processing has been completed. See sec. 9 <node9.html#sec:embed>
+      processing has been completed. See sec. embedding_
       for more.
     * Use the Python profiler. When dealing with performance issues, the
       %run command with a -p option allows you to run complete programs
       under the control of the Python profiler. The %prun command does a
       similar job for single Python expressions (like function calls).
     * Use the IPython.demo.Demo class to load any Python script as an
       interactive demo. With a minimal amount of simple markup, you can
       control the execution of the script, stopping as needed. See
-      sec. 14 <node14.html#sec:interactive-demos> for more.
+      sec. `interactive demos`_ for more.
     * Run your doctests from within IPython for development and
       debugging. The special %doctest_mode command toggles a mode where
       the prompt, output and exceptions display matches as closely as
       possible that of the default Python interpreter. In addition, this
       mode allows you to directly paste in code that contains leading
       '>>>' prompts, even if they have extra leading whitespace (as is
       common in doctest files). This combined with the '%history -tn'
       call to see your translated history (with these extra prompts
       removed and no line numbers) allows for an easy doctest workflow,
       where you can go from doctest to interactive execution to pasting
       into valid Python code as needed.
 
 
 Source code handling tips
 -------------------------
 
 IPython is a line-oriented program, without full control of the
 terminal. Therefore, it doesn't support true multiline editing. However,
 it has a number of useful tools to help you in dealing effectively with
 more complex editing.
 
 The %edit command gives a reasonable approximation of multiline editing,
 by invoking your favorite editor on the spot. IPython will execute the
 code you type in there as if it were typed interactively. Type %edit?
 for the full details on the edit command.
 
 If you have typed various commands during a session, which you'd like to
 reuse, IPython provides you with a number of tools. Start by using %hist
 to see your input history, so you can see the line numbers of all input.
 Let us say that you'd like to reuse lines 10 through 20, plus lines 24
 and 28. All the commands below can operate on these with the syntax::
 
     %command 10-20 24 28 
 
 where the command given can be:
 
     * %macro <macroname>: this stores the lines into a variable which,
       when called at the prompt, re-executes the input. Macros can be
       edited later using '%edit macroname', and they can be stored
       persistently across sessions with '%store macroname' (the storage
       system is per-profile). The combination of quick macros,
       persistent storage and editing, allows you to easily refine
       quick-and-dirty interactive input into permanent utilities, always
       available both in IPython and as files for general reuse.
     * %edit: this will open a text editor with those lines pre-loaded
       for further modification. It will then execute the resulting
       file's contents as if you had typed it at the prompt.
     * %save <filename>: this saves the lines directly to a named file on
       disk.
 
 While %macro saves input lines into memory for interactive re-execution,
 sometimes you'd like to save your input directly to a file. The %save
 magic does this: its input sytnax is the same as %macro, but it saves
 your input directly to a Python file. Note that the %logstart command
 also saves input, but it logs all input to disk (though you can
 temporarily suspend it and reactivate it with %logoff/%logon); %save
 allows you to select which lines of input you need to save.
 
 
 Lightweight 'version control'
 -----------------------------
 
 When you call %edit with no arguments, IPython opens an empty editor
 with a temporary file, and it returns the contents of your editing
 session as a string variable. Thanks to IPython's output caching
 mechanism, this is automatically stored::
 
     In [1]: %edit
 
     IPython will make a temporary file named: /tmp/ipython_edit_yR-HCN.py
 
     Editing... done. Executing edited code...
 
     hello - this is a temporary file
 
     Out[1]: "print 'hello - this is a temporary file'\n"
 
 Now, if you call '%edit -p', IPython tries to open an editor with the
 same data as the last time you used %edit. So if you haven't used %edit
 in the meantime, this same contents will reopen; however, it will be
 done in a new file. This means that if you make changes and you later
 want to find an old version, you can always retrieve it by using its
 output number, via '%edit _NN', where NN is the number of the output
 prompt.
 
 Continuing with the example above, this should illustrate this idea::
 
     In [2]: edit -p
 
     IPython will make a temporary file named: /tmp/ipython_edit_nA09Qk.py
 
     Editing... done. Executing edited code...
 
     hello - now I made some changes
 
     Out[2]: "print 'hello - now I made some changes'\n"
 
     In [3]: edit _1
 
     IPython will make a temporary file named: /tmp/ipython_edit_gy6-zD.py
 
     Editing... done. Executing edited code...
 
     hello - this is a temporary file
 
     IPython version control at work :)
 
     Out[3]: "print 'hello - this is a temporary file'\nprint 'IPython version control at work :)'\n"
 
 
 This section was written after a contribution by Alexander Belchenko on
 the IPython user list.
 
 
 Effective logging
 -----------------
 
 A very useful suggestion sent in by Robert Kern follows:
 
 I recently happened on a nifty way to keep tidy per-project log files. I
 made a profile for my project (which is called "parkfield").
 
     include ipythonrc
 
     # cancel earlier logfile invocation:
 
     logfile ''
 
     execute import time
 
     execute __cmd = '/Users/kern/research/logfiles/parkfield-%s.log rotate'
 
     execute __IP.magic_logstart(__cmd % time.strftime('%Y-%m-%d'))
 
 I also added a shell alias for convenience:
 
     alias parkfield="ipython -pylab -profile parkfield" 
 
 Now I have a nice little directory with everything I ever type in,
 organized by project and date.
 
 Contribute your own: If you have your own favorite tip on using IPython
 efficiently for a certain task (especially things which can't be done in
 the normal Python interpreter), don't hesitate to send it!
 
+.. _Command line options:
+
 Command-line use
 ================
 
 You start IPython with the command::
 
     $ ipython [options] files
 
 If invoked with no options, it executes all the files listed in sequence
 and drops you into the interpreter while still acknowledging any options
 you may have set in your ipythonrc file. This behavior is different from
 standard Python, which when called as python -i will only execute one
 file and ignore your configuration setup.
 
 Please note that some of the configuration options are not available at
 the command line, simply because they are not practical here. Look into
 your ipythonrc configuration file for details on those. This file
 typically installed in the $HOME/.ipython directory. For Windows users,
 $HOME resolves to C:\\Documents and Settings\\YourUserName in most
 instances. In the rest of this text, we will refer to this directory as
 IPYTHONDIR.
 
+.. _Threading options:
+
 
 Special Threading Options
+-------------------------
 
 The following special options are ONLY valid at the beginning of the
 command line, and not later. This is because they control the initial-
 ization of ipython itself, before the normal option-handling mechanism
 is active.
 
-    * [-gthread, -qthread, -q4thread, -wthread, -pylab:] Only one of
-      these can be given, and it can only be given as the first option
-      passed to IPython (it will have no effect in any other position).
-      They provide threading support for the GTK, Qt (versions 3 and 4)
-      and WXPython toolkits, and for the matplotlib library.
-    * [ ] With any of the first four options, IPython starts running a
-      separate thread for the graphical toolkit's operation, so that you
-      can open and control graphical elements from within an IPython
-      command line, without blocking. All four provide essentially the
-      same functionality, respectively for GTK, Qt3, Qt4 and WXWidgets
-      (via their Python interfaces).
-    * [ ] Note that with -wthread, you can additionally use the
-      -wxversion option to request a specific version of wx to be used.
-      This requires that you have the wxversion Python module installed,
-      which is part of recent wxPython distributions.
-    * [ ] If -pylab is given, IPython loads special support for the mat
-      plotlib library (http://matplotlib.sourceforge.net), allowing
-      interactive usage of any of its backends as defined in the user's
-      ~/.matplotlib/matplotlibrc file. It automatically activates GTK,
-      Qt or WX threading for IPyhton if the choice of matplotlib backend
-      requires it. It also modifies the %run command to correctly
-      execute (without blocking) any matplotlib-based script which calls
-      show() at the end.
-    * [-tk] The -g/q/q4/wthread options, and -pylab (if matplotlib is
-      configured to use GTK, Qt3, Qt4 or WX), will normally block Tk
-      graphical interfaces. This means that when either GTK, Qt or WX
-      threading is active, any attempt to open a Tk GUI will result in a
-      dead window, and possibly cause the Python interpreter to crash.
-      An extra option, -tk, is available to address this issue. It can
-      only be given as a second option after any of the above (-gthread,
-      -wthread or -pylab).
-    * [ ] If -tk is given, IPython will try to coordinate Tk threading
-      with GTK, Qt or WX. This is however potentially unreliable, and
-      you will have to test on your platform and Python configuration to
-      determine whether it works for you. Debian users have reported
-      success, apparently due to the fact that Debian builds all of Tcl,
-      Tk, Tkinter and Python with pthreads support. Under other Linux
-      environments (such as Fedora Core 2/3), this option has caused
-      random crashes and lockups of the Python interpreter. Under other
-      operating systems (Mac OSX and Windows), you'll need to try it to
-      find out, since currently no user reports are available.
-    * [ ] There is unfortunately no way for IPython to determine at run
-      time whether -tk will work reliably or not, so you will need to do
-      some experiments before relying on it for regular work.
+    -gthread, -qthread, -q4thread, -wthread, -pylab: 
+	Only one of these can be given, and it can only be given as
+	the first option passed to IPython (it will have no effect in
+	any other position).  They provide threading support for the
+	GTK, Qt (versions 3 and 4) and WXPython toolkits, and for the
+	matplotlib library.
+
+	With any of the first four options, IPython starts running a
+	separate thread for the graphical toolkit's operation, so that
+	you can open and control graphical elements from within an
+	IPython command line, without blocking. All four provide
+	essentially the same functionality, respectively for GTK, Qt3,
+	Qt4 and WXWidgets (via their Python interfaces).
+
+	Note that with -wthread, you can additionally use the
+	-wxversion option to request a specific version of wx to be
+	used.  This requires that you have the wxversion Python module
+	installed, which is part of recent wxPython distributions.
+
+	If -pylab is given, IPython loads special support for the mat
+	plotlib library (http://matplotlib.sourceforge.net), allowing
+	interactive usage of any of its backends as defined in the
+	user's ~/.matplotlib/matplotlibrc file. It automatically
+	activates GTK, Qt or WX threading for IPyhton if the choice of
+	matplotlib backend requires it. It also modifies the %run
+	command to correctly execute (without blocking) any
+	matplotlib-based script which calls show() at the end.
+
+    -tk
+	The -g/q/q4/wthread options, and -pylab (if matplotlib is
+	configured to use GTK, Qt3, Qt4 or WX), will normally block Tk
+	graphical interfaces. This means that when either GTK, Qt or WX
+	threading is active, any attempt to open a Tk GUI will result in a
+	dead window, and possibly cause the Python interpreter to crash.
+	An extra option, -tk, is available to address this issue. It can
+	only be given as a second option after any of the above (-gthread,
+	-wthread or -pylab).
+
+	If -tk is given, IPython will try to coordinate Tk threading
+	with GTK, Qt or WX. This is however potentially unreliable, and
+	you will have to test on your platform and Python configuration to
+	determine whether it works for you. Debian users have reported
+	success, apparently due to the fact that Debian builds all of Tcl,
+	Tk, Tkinter and Python with pthreads support. Under other Linux
+	environments (such as Fedora Core 2/3), this option has caused
+	random crashes and lockups of the Python interpreter. Under other
+	operating systems (Mac OSX and Windows), you'll need to try it to
+	find out, since currently no user reports are available.
+    
+	There is unfortunately no way for IPython to determine at run time
+	whether -tk will work reliably or not, so you will need to do some
+	experiments before relying on it for regular work.
 
 
 
 Regular Options
 ---------------
 
 After the above threading options have been given, regular options can
 follow in any order. All options can be abbreviated to their shortest
 non-ambiguous form and are case-sensitive. One or two dashes can be
 used. Some options have an alternate short form, indicated after a ``|``.
 
 Most options can also be set from your ipythonrc configuration file. See
 the provided example for more details on what the options do. Options
 given at the command line override the values set in the ipythonrc file.
 
 All options with a [no] prepended can be specified in negated form
 (-nooption instead of -option) to turn the feature off.
 
-    * [-help:] print a help message and exit.
-    * [-pylab:] this can only be given as the first option passed to
-      IPython (it will have no effect in any other position). It adds
-      special support for the matplotlib library
-      (http://matplotlib.sourceforge.net
-      http://matplotlib.sourceforge.net), allowing interactive usage of
-      any of its backends as defined in the user's .matplotlibrc file.
-      It automatically activates GTK or WX threading for IPyhton if the
-      choice of matplotlib backend requires it. It also modifies the
-      %run command to correctly execute (without blocking) any
-      matplotlib-based script which calls show() at the end. See Sec. 15
-      <node15.html#sec:matplotlib-support> for more details.
-    * [-autocall] <val>: Make IPython automatically call any callable
-      object even if you didn't type explicit parentheses. For example,
-      'str 43' becomes 'str(43)' automatically. The value can be '0' to
-      disable the feature, '1' for smart autocall, where it is not
-      applied if there are no more arguments on the line, and '2' for
-      full autocall, where all callable objects are automatically called
-      (even if no arguments are present). The default is '1'.
-    * [-[no]autoindent:] Turn automatic indentation on/off.
-    * [-[no]automagic:] make magic commands automatic (without needing
-      their first character to be %). Type %magic at the IPython prompt
-      for more information.
-    * [-[no]autoedit_syntax:] When a syntax error occurs after editing a
-      file, automatically open the file to the trouble causing line for
-      convenient fixing.
-    * [-[no]banner:] Print the initial information banner (default on).
-    * [-c <command>:] execute the given command string, and set sys.argv
-      to ['c']. This is similar to the -c option in the normal Python
-      interpreter.
-    * [-cache_size|cs <n>:] size of the output cache (maximum number of
-      entries to hold in memory). The default is 1000, you can change it
-      permanently in your config file. Setting it to 0 completely
-      disables the caching system, and the minimum value accepted is 20
-      (if you provide a value less than 20, it is reset to 0 and a
-      warning is issued) This limit is defined because otherwise you'll
-      spend more time re-flushing a too small cache than working.
-    * [-classic|cl:] Gives IPython a similar feel to the classic Python
-      prompt.
-    * [-colors <scheme>:] Color scheme for prompts and exception
-      reporting. Currently implemented: NoColor, Linux and LightBG.
-    * [-[no]color_info:] IPython can display information about objects
-      via a set of functions, and optionally can use colors for this,
-      syntax highlighting source code and various other elements.
-      However, because this information is passed through a pager (like
-      'less') and many pagers get confused with color codes, this option
-      is off by default. You can test it and turn it on permanently in
-      your ipythonrc file if it works for you. As a reference, the
-      'less' pager supplied with Mandrake 8.2 works ok, but that in
-      RedHat 7.2 doesn't.
-    * [ ] Test it and turn it on permanently if it works with your
-      system. The magic function %color_info allows you to toggle this
-      interactively for testing.
-    * [-[no]debug:] Show information about the loading process. Very
-      useful to pin down problems with your configuration files or to
-      get details about session restores.
-    * [-[no]deep_reload:] IPython can use the deep_reload module which
-      reloads changes in modules recursively (it replaces the reload()
-      function, so you don't need to change anything to use it).
-      deep_reload() forces a full reload of modules whose code may have
-      changed, which the default reload() function does not.
-    * [ ] When deep_reload is off, IPython will use the normal reload(),
-      but deep_reload will still be available as dreload(). This feature
-      is off by default [which means that you have both normal reload()
-      and dreload()].
-    * [-editor <name>:] Which editor to use with the %edit command. By
-      default, IPython will honor your EDITOR environment variable (if
-      not set, vi is the Unix default and notepad the Windows one).
-      Since this editor is invoked on the fly by IPython and is meant
-      for editing small code snippets, you may want to use a small,
-      lightweight editor here (in case your default EDITOR is something
-      like Emacs).
-    * [-ipythondir <name>:] name of your IPython configuration directory
-      IPYTHONDIR. This can also be specified through the environment
-      variable IPYTHONDIR.
-    * [-log|l:] generate a log file of all input. The file is named
-      ipython_log.py in your current directory (which prevents logs from
-      multiple IPython sessions from trampling each other). You can use
-      this to later restore a session by loading your logfile as a file
-      to be executed with option -logplay (see below).
-    * [-logfile|lf <name>:] specify the name of your logfile.
-    * [-logplay|lp <name>:] you can replay a previous log. For restoring
-      a session as close as possible to the state you left it in, use
-      this option (don't just run the logfile). With -logplay, IPython
-      will try to reconstruct the previous working environment in full,
-      not just execute the commands in the logfile.
-    * [ ] When a session is restored, logging is automatically turned on
-      again with the name of the logfile it was invoked with (it is read
-      from the log header). So once you've turned logging on for a
-      session, you can quit IPython and reload it as many times as you
-      want and it will continue to log its history and restore from the
-      beginning every time.
-    * [ ] Caveats: there are limitations in this option. The history
+    -help  print a help message and exit.
+
+    -pylab
+	this can only be given as the first option passed to IPython
+	(it will have no effect in any other position). It adds
+	special support for the matplotlib library
+	(http://matplotlib.sourceforge.ne), allowing interactive usage
+	of any of its backends as defined in the user's .matplotlibrc
+	file.  It automatically activates GTK or WX threading for
+	IPyhton if the choice of matplotlib backend requires it. It
+	also modifies the %run command to correctly execute (without
+	blocking) any matplotlib-based script which calls show() at
+	the end. See `Matplotlib support`_ for more details.
+
+    -autocall <val>
+	Make IPython automatically call any callable object even if you
+	didn't type explicit parentheses. For example, 'str 43' becomes
+	'str(43)' automatically. The value can be '0' to disable the feature,
+	'1' for smart autocall, where it is not applied if there are no more
+	arguments on the line, and '2' for full autocall, where all callable
+	objects are automatically called (even if no arguments are
+	present). The default is '1'.
+
+    -[no]autoindent    
+	Turn automatic indentation on/off.
+
+    -[no]automagic 
+	make magic commands automatic (without needing their first character
+	to be %). Type %magic at the IPython prompt for more information.
+
+    -[no]autoedit_syntax 
+	When a syntax error occurs after editing a file, automatically
+	open the file to the trouble causing line for convenient
+	fixing.
+
+    -[no]banner		Print the initial information banner (default on).
+
+    -c <command>
+	execute the given command string. This is similar to the -c
+	option in the normal Python interpreter.
+
+    -cache_size, cs <n> 
+	size of the output cache (maximum number of entries to hold in
+	memory). The default is 1000, you can change it permanently in your
+	config file. Setting it to 0 completely disables the caching system,
+	and the minimum value accepted is 20 (if you provide a value less than
+	20, it is reset to 0 and a warning is issued) This limit is defined
+	because otherwise you'll spend more time re-flushing a too small cache
+	than working.
+
+    -classic, cl 
+	Gives IPython a similar feel to the classic Python
+	prompt.
+
+    -colors <scheme> 
+	Color scheme for prompts and exception reporting. Currently
+	implemented: NoColor, Linux and LightBG.
+
+    -[no]color_info 
+	IPython can display information about objects via a set of functions,
+	and optionally can use colors for this, syntax highlighting source
+	code and various other elements.  However, because this information is
+	passed through a pager (like 'less') and many pagers get confused with
+	color codes, this option is off by default. You can test it and turn
+	it on permanently in your ipythonrc file if it works for you. As a
+	reference, the 'less' pager supplied with Mandrake 8.2 works ok, but
+	that in RedHat 7.2 doesn't.
+
+	Test it and turn it on permanently if it works with your
+	system. The magic function %color_info allows you to toggle this
+	interactively for testing.
+
+    -[no]debug 
+	Show information about the loading process. Very useful to pin down
+	problems with your configuration files or to get details about
+	session restores.
+
+    -[no]deep_reload: 
+	IPython can use the deep_reload module which reloads changes in
+	modules recursively (it replaces the reload() function, so you don't
+	need to change anything to use it).  deep_reload() forces a full
+	reload of modules whose code may have changed, which the default
+	reload() function does not.
+
+	When deep_reload is off, IPython will use the normal reload(),
+	but deep_reload will still be available as dreload(). This
+	feature is off by default [which means that you have both
+	normal reload() and dreload()].
+
+    -editor <name>
+	Which editor to use with the %edit command. By default,
+	IPython will honor your EDITOR environment variable (if not
+	set, vi is the Unix default and notepad the Windows one).
+	Since this editor is invoked on the fly by IPython and is
+	meant for editing small code snippets, you may want to use a
+	small, lightweight editor here (in case your default EDITOR is
+	something like Emacs).
+
+    -ipythondir <name> 
+	name of your IPython configuration directory IPYTHONDIR. This
+	can also be specified through the environment variable
+	IPYTHONDIR.
+
+    -log, l 
+	generate a log file of all input. The file is named
+	ipython_log.py in your current directory (which prevents logs
+	from multiple IPython sessions from trampling each other). You
+	can use this to later restore a session by loading your
+	logfile as a file to be executed with option -logplay (see
+	below).
+
+    -logfile, lf <name>   specify the name of your logfile.
+
+    -logplay, lp <name> 
+
+      you can replay a previous log. For restoring a session as close as
+      possible to the state you left it in, use this option (don't just run
+      the logfile). With -logplay, IPython will try to reconstruct the
+      previous working environment in full, not just execute the commands in
+      the logfile.
+
+      When a session is restored, logging is automatically turned on
+      again with the name of the logfile it was invoked with (it is
+      read from the log header). So once you've turned logging on for
+      a session, you can quit IPython and reload it as many times as
+      you want and it will continue to log its history and restore
+      from the beginning every time.
+      
+      Caveats: there are limitations in this option. The history
       variables _i*,_* and _dh don't get restored properly. In the
-      future we will try to implement full session saving by writing and
-      retrieving a 'snapshot' of the memory state of IPython. But our
-      first attempts failed because of inherent limitations of Python's
-      Pickle module, so this may have to wait.
-    * [-[no]messages:] Print messages which IPython collects about its
-      startup process (default on).
-    * [-[no]pdb:] Automatically call the pdb debugger after every
-      uncaught exception. If you are used to debugging using pdb, this
-      puts you automatically inside of it after any call (either in
-      IPython or in code called by it) which triggers an exception which
-      goes uncaught.
-    * [-[no]pprint:] ipython can optionally use the pprint (pretty
-      printer) module for displaying results. pprint tends to give a
-      nicer display of nested data structures. If you like it, you can
-      turn it on permanently in your config file (default off).
-    * [-profile|p] <name>: assume that your config file is
-      ipythonrc-<name> (looks in current dir first, then in IPYTHONDIR).
-      This is a quick way to keep and load multiple config files for
-      different tasks, especially if you use the include option of
-      config files. You can keep a basic IPYTHONDIR/ipythonrc file and
-      then have other 'profiles' which include this one and load extra
-      things for particular tasks. For example:
-    * [ ] 1. $HOME/.ipython/ipythonrc : load basic things you always want.
-    * [ ] 2. $HOME/.ipython/ipythonrc-math : load (1) and basic
-      math-related modules.
-    * [ ] 3. $HOME/.ipython/ipythonrc-numeric : load (1) and Numeric and
-      plotting modules.
-    * [ ] Since it is possible to create an endless loop by having
-      circular file inclusions, IPython will stop if it reaches 15
-      recursive inclusions.
-    * [-prompt_in1|pi1 <string>:] Specify the string used for input
-      prompts. Note that if you are using numbered prompts, the number
-      is represented with a '\#' in the string. Don't forget to quote
-      strings with spaces embedded in them. Default: 'In [\#]:'.
-      Sec. 7.2 <node7.html#sec:prompts> discusses in detail all the
-      available escapes to customize your prompts.
-    * [-prompt_in2|pi2 <string>:] Similar to the previous option, but
-      used for the continuation prompts. The special sequence '\D' is
-      similar to '\#', but with all digits replaced dots (so you can
-      have your continuation prompt aligned with your input prompt).
-      Default: '   .\D.:' (note three spaces at the start for alignment
-      with 'In [\#]').
-    * [-prompt_out|po <string>:] String used for output prompts, also
-      uses numbers like prompt_in1. Default: 'Out[\#]:'
-    * [-quick:] start in bare bones mode (no config file loaded).
-    * [-rcfile <name>:] name of your IPython resource configuration
-      file. Normally IPython loads ipythonrc (from current directory) or
-      IPYTHONDIR/ipythonrc.
-    * [ ] If the loading of your config file fails, IPython starts with
-      a bare bones configuration (no modules loaded at all).
-    * [-[no]readline:] use the readline library, which is needed to
-      support name completion and command history, among other things.
-      It is enabled by default, but may cause problems for users of
-      X/Emacs in Python comint or shell buffers.
-    * [ ] Note that X/Emacs 'eterm' buffers (opened with M-x term)
-      support IPython's readline and syntax coloring fine, only 'emacs'
-      (M-x shell and C-c !) buffers do not.
-    * [-screen_length|sl <n>:] number of lines of your screen. This is
-      used to control printing of very long strings. Strings longer than
-      this number of lines will be sent through a pager instead of
-      directly printed.
-    * [ ] The default value for this is 0, which means IPython will
-      auto-detect your screen size every time it needs to print certain
-      potentially long strings (this doesn't change the behavior of the
-      'print' keyword, it's only triggered internally). If for some
-      reason this isn't working well (it needs curses support), specify
-      it yourself. Otherwise don't change the default.
-    * [-separate_in|si <string>:] separator before input prompts.
-      Default: '\n'
-    * [-separate_out|so <string>:] separator before output prompts.
-      Default: nothing.
-    * [-separate_out2|so2 <string>:] separator after output prompts.
-      Default: nothing.
-    * [ ] For these three options, use the value 0 to specify no separator.
-    * [-nosep:] shorthand for '-SeparateIn 0 -SeparateOut 0
-      -SeparateOut2 0'. Simply removes all input/output separators.
-    * [-upgrade:] allows you to upgrade your IPYTHONDIR configuration
-      when you install a new version of IPython. Since new versions may
-      include new command line options or example files, this copies
-      updated ipythonrc-type files. However, it backs up (with a .old
-      extension) all files which it overwrites so that you can merge
-      back any customizations you might have in your personal files.
-    * [-Version:] print version information and exit.
-    * [-wxversion <string>:] Select a specific version of wxPython (used
-      in conjunction with -wthread). Requires the wxversion module, part
-      of recent wxPython distributions
-    * [-xmode <modename>:] Mode for exception reporting.
-    * [ ] Valid modes: Plain, Context and Verbose.
-    * [ ] Plain: similar to python's normal traceback printing.
-    * [ ] Context: prints 5 lines of context source code around each
-      line in the traceback.
-    * [ ] Verbose: similar to Context, but additionally prints the
-      variables currently visible where the exception happened
-      (shortening their strings if too long). This can potentially be
-      very slow, if you happen to have a huge data structure whose
-      string representation is complex to compute. Your computer may
-      appear to freeze for a while with cpu usage at 100%. If this
-      occurs, you can cancel the traceback with Ctrl-C (maybe hitting it
-      more than once).
+      future we will try to implement full session saving by writing
+      and retrieving a 'snapshot' of the memory state of IPython. But
+      our first attempts failed because of inherent limitations of
+      Python's Pickle module, so this may have to wait.
+
+    -[no]messages   
+	Print messages which IPython collects about its startup
+	process (default on).
+
+    -[no]pdb
+	Automatically call the pdb debugger after every uncaught
+	exception. If you are used to debugging using pdb, this puts
+	you automatically inside of it after any call (either in
+	IPython or in code called by it) which triggers an exception
+	which goes uncaught.
+
+    -[no]pprint
+	ipython can optionally use the pprint (pretty printer) module
+	for displaying results. pprint tends to give a nicer display
+	of nested data structures. If you like it, you can turn it on
+	permanently in your config file (default off).
+
+    -profile, p <name>
+
+	assume that your config file is ipythonrc-<name> or
+	ipy_profile_<name>.py (looks in current dir first, then in
+	IPYTHONDIR).  This is a quick way to keep and load multiple
+	config files for different tasks, especially if you use the
+	include option of config files. You can keep a basic
+	IPYTHONDIR/ipythonrc file and then have other 'profiles' which
+	include this one and load extra things for particular
+	tasks. For example:
+
+	1. $HOME/.ipython/ipythonrc : load basic things you always want.
+	2. $HOME/.ipython/ipythonrc-math : load (1) and basic math-related modules.
+	3. $HOME/.ipython/ipythonrc-numeric : load (1) and Numeric and plotting modules.
+
+	Since it is possible to create an endless loop by having
+	circular file inclusions, IPython will stop if it reaches 15
+	recursive inclusions.
+
+    -prompt_in1, pi1 <string>
+	Specify the string used for input prompts. Note that if you
+	are using numbered prompts, the number is represented with a
+	'\#' in the string. Don't forget to quote strings with spaces
+	embedded in them. Default: 'In [\#]:'.  Sec. Prompts_
+	discusses in detail all the available escapes to customize
+	your prompts.
+
+    -prompt_in2, pi2 <string>
+	Similar to the previous option, but used for the continuation
+	prompts. The special sequence '\D' is similar to '\#', but
+	with all digits replaced dots (so you can have your
+	continuation prompt aligned with your input prompt).  Default:
+	' .\D.:' (note three spaces at the start for alignment with
+	'In [\#]').
+
+    -prompt_out,po <string> 
+	String used for output prompts, also uses numbers like
+	prompt_in1. Default: 'Out[\#]:'
+
+    -quick   start in bare bones mode (no config file loaded).
+
+    -rcfile <name>   
+	name of your IPython resource configuration file. Normally
+	IPython loads ipythonrc (from current directory) or
+	IPYTHONDIR/ipythonrc.
+
+	If the loading of your config file fails, IPython starts with
+	a bare bones configuration (no modules loaded at all).
+
+    -[no]readline
+	use the readline library, which is needed to support name
+	completion and command history, among other things.  It is
+	enabled by default, but may cause problems for users of
+	X/Emacs in Python comint or shell buffers.
+
+	Note that X/Emacs 'eterm' buffers (opened with M-x term) support
+	IPython's readline and syntax coloring fine, only 'emacs' (M-x
+	shell and C-c !) buffers do not.
+
+    -screen_length, sl <n>
+	number of lines of your screen. This is used to control
+	printing of very long strings. Strings longer than this number
+	of lines will be sent through a pager instead of directly
+	printed.
+
+	The default value for this is 0, which means IPython will
+	auto-detect your screen size every time it needs to print certain
+	potentially long strings (this doesn't change the behavior of the
+	'print' keyword, it's only triggered internally). If for some
+	reason this isn't working well (it needs curses support), specify
+	it yourself. Otherwise don't change the default.
+
+    -separate_in, si <string>
+
+	separator before input prompts.
+	Default: '\n'
+
+    -separate_out, so <string>  
+        separator before output prompts.
+        Default: nothing.
+
+    -separate_out2, so2
+	separator after output prompts.
+	Default: nothing.
+	For these three options, use the value 0 to specify no separator.
+
+    -nosep   
+	shorthand for '-SeparateIn 0 -SeparateOut 0 -SeparateOut2
+	0'. Simply removes all input/output separators.
+
+    -upgrade 
+	allows you to upgrade your IPYTHONDIR configuration when you
+	install a new version of IPython. Since new versions may
+	include new command line options or example files, this copies
+	updated ipythonrc-type files. However, it backs up (with a
+	.old extension) all files which it overwrites so that you can
+	merge back any customizations you might have in your personal
+	files. Note that you should probably use %upgrade instead,
+	it's a safer alternative.
+
+
+    -Version    print version information and exit.
+
+    -wxversion <string> 
+	Select a specific version of wxPython (used in conjunction
+	with -wthread). Requires the wxversion module, part of recent
+	wxPython distributions
+
+    -xmode <modename>
+
+	Mode for exception reporting.
+
+	Valid modes: Plain, Context and Verbose.
+
+	* Plain: similar to python's normal traceback printing.
+	* Context: prints 5 lines of context source code around each
+	  line in the traceback.
+	* Verbose: similar to Context, but additionally prints the
+	  variables currently visible where the exception happened
+	  (shortening their strings if too long). This can potentially be
+	  very slow, if you happen to have a huge data structure whose
+	  string representation is complex to compute. Your computer may
+	  appear to freeze for a while with cpu usage at 100%. If this
+	  occurs, you can cancel the traceback with Ctrl-C (maybe hitting it
+	  more than once).
 
 Interactive use
 ===============
 
 Warning: IPython relies on the existence of a global variable called
-__IP which controls the shell itself. If you redefine __IP to anything,
+_ip which controls the shell itself. If you redefine _ip to anything,
 bizarre behavior will quickly occur.
 
 Other than the above warning, IPython is meant to work as a drop-in
 replacement for the standard interactive interpreter. As such, any code
 which is valid python should execute normally under IPython (cases where
 this is not true should be reported as bugs). It does, however, offer
 many features which are not available at a standard python prompt. What
 follows is a list of these.
 
 
 Caution for Windows users
 -------------------------
 
-Windows, unfortunately, uses the '\' character as a path separator. This
-is a terrible choice, because '\' also represents the escape character
-in most modern programming languages, including Python. For this reason,
-issuing many of the commands discussed below (especially magics which
-affect the filesystem) with '\' in them will cause strange errors.
-
-A partial solution is to use instead the '/' character as a path
-separator, which Windows recognizes in most situations. However, in
-Windows commands '/' flags options, so you can not use it for the root
-directory. This means that paths beginning at the root must be typed in
-a contrived manner like:
-%copy \opt/foo/bar.txt \tmp
-
-There is no sensible thing IPython can do to truly work around this flaw
-in Windows^3 <footnode.html#foot878>.
-
+Windows, unfortunately, uses the '\' character as a path
+separator. This is a terrible choice, because '\' also represents the
+escape character in most modern programming languages, including
+Python. For this reason, using '/' character is recommended if you
+have problems with ``\``.  However, in Windows commands '/' flags
+options, so you can not use it for the root directory. This means that
+paths beginning at the root must be typed in a contrived manner like:
+``%copy \opt/foo/bar.txt \tmp``
 
+.. _magic:
 
 Magic command system
 --------------------
 
 IPython will treat any line whose first character is a % as a special
 call to a 'magic' function. These allow you to control the behavior of
 IPython itself, plus a lot of system-type features. They are all
 prefixed with a % character, but parameters are given without
 parentheses or quotes.
 
 Example: typing '%cd mydir' (without the quotes) changes you working
 directory to 'mydir', if it exists.
 
 If you have 'automagic' enabled (in your ipythonrc file, via the command
 line option -automagic or with the %automagic function), you don't need
 to type in the % explicitly. IPython will scan its internal list of
 magic functions and call one if it exists. With automagic on you can
 then just type 'cd mydir' to go to directory 'mydir'. The automagic
 system has the lowest possible precedence in name searches, so defining
 an identifier with the same name as an existing magic function will
 shadow it for automagic use. You can still access the shadowed magic
 function by explicitly using the % character at the beginning of the line.
 
 An example (with automagic on) should clarify all this::
 
     In [1]: cd ipython # %cd is called by automagic
 
     /home/fperez/ipython
 
     In [2]: cd=1 # now cd is just a variable
 
     In [3]: cd .. # and doesn't work as a function anymore
 
     ------------------------------
 
         File "<console>", line 1
 
           cd ..
 
               ^
 
     SyntaxError: invalid syntax
 
     In [4]: %cd .. # but %cd always works
 
     /home/fperez
 
     In [5]: del cd # if you remove the cd variable
 
     In [6]: cd ipython # automagic can work again
 
     /home/fperez/ipython
 
 You can define your own magic functions to extend the system. The
 following example defines a new magic command, %impall::
 
     import IPython.ipapi 
 
     ip = IPython.ipapi.get()
 
     def doimp(self, arg):
 
         ip = self.api
 
         ip.ex("import %s; reload(%s); from %s import *" % (
 
         arg,arg,arg)
 
         )
 
     ip.expose_magic('impall', doimp)
 
 You can also define your own aliased names for magic functions. In your
 ipythonrc file, placing a line like:
 
 execute __IP.magic_cl = __IP.magic_clear
 
 will define %cl as a new name for %clear.
 
 Type %magic for more information, including a list of all available
 magic functions at any time and their docstrings. You can also type
 %magic_function_name? (see sec. 6.4 <#sec:dyn-object-info> for
 information on the '?' system) to get information about any particular
 magic function you are interested in.
 
 
 Magic commands
 --------------
 
 The rest of this section is automatically generated for each release
 from the docstrings in the IPython code. Therefore the formatting is
 somewhat minimal, but this method has the advantage of having
 information always in sync with the code.
 
 A list of all the magic commands available in IPython's default
 installation follows. This is similar to what you'll see by simply
 typing %magic at the prompt, but that will also give you information
 about magic commands you may have added as part of your personal
 customizations.
 
-::
+.. magic_start
 
-	%Exit: Exit IPython without confirmation.
-	
-	
-	%Pprint: Toggle pretty printing on/off.
-	
-	
-	%alias: Define an alias for a system command.
-	
-	'%alias alias_name cmd' defines 'alias_name' as an alias for 'cmd'
-	
-	Then, typing 'alias_name params' will execute the system command 'cmd
-	params' (from your underlying operating system).
-	
-	Aliases have lower precedence than magic functions and Python normal
-	variables, so if 'foo' is both a Python variable and an alias, the alias
-	can not be executed until 'del foo' removes the Python variable.
-	
-	You can use the %l specifier in an alias definition to represent the
-	whole line when the alias is called. For example:
-	
-	In [2]: alias all echo "Input in brackets: <%l>"
-	In [3]: all hello world
-	Input in brackets: <hello world>
-	
-	You can also define aliases with parameters using %s specifiers (one per
-	parameter):
-	
-	In [1]: alias parts echo first %s second %s
-	In [2]: %parts A B
-	first A second B
-	In [3]: %parts A
-	Incorrect number of arguments: 2 expected.
-	parts is an alias to: 'echo first %s second %s'
-	
-	Note that %l and %s are mutually exclusive. You can only use one or the
-	other in your aliases.
-	
-	Aliases expand Python variables just like system calls using ! or !! do:
-	all expressions prefixed with '$' get expanded. For details of the
-	semantic rules, see PEP-215: http://www.python.org/peps/pep-0215.html.
-	This is the library used by IPython for variable expansion. If you want
-	to access a true shell variable, an extra $ is necessary to prevent its
-	expansion by IPython:
-	
-	In [6]: alias show echo
-	In [7]: PATH='A Python string'
-	In [8]: show $PATH
-	A Python string
-	In [9]: show $$PATH
-	/usr/local/lf9560/bin:/usr/local/intel/compiler70/ia32/bin:...
-	
-	You can use the alias facility to acess all of $PATH. See the %rehash
-	and %rehashx functions, which automatically create aliases for the
-	contents of your $PATH.
-	
-	If called with no parameters, %alias prints the current alias table.
-	
-	
-	%autocall: Make functions callable without having to type parentheses.
-	
-	Usage:
-	
-	%autocall [mode]
-	
-	The mode can be one of: 0->Off, 1->Smart, 2->Full. If not given, the
-	value is toggled on and off (remembering the previous state).
-	
-	In more detail, these values mean:
-	
-	0 -> fully disabled
-	
-	1 -> active, but do not apply if there are no arguments on the line.
-	
-	In this mode, you get:
-	
-	In [1]: callable Out[1]: <built-in function callable>
-	
-	In [2]: callable 'hello' ---> callable('hello') Out[2]: False
-	
-	2 -> Active always. Even if no arguments are present, the callable
-	object is called:
-	
-	In [4]: callable ---> callable()
-	
-	Note that even with autocall off, you can still use '/' at the start of
-	a line to treat the first argument on the command line as a function and
-	add parentheses to it:
-	
-	In [8]: /str 43 ---> str(43) Out[8]: '43'
-	
-	
-	%autoindent: Toggle autoindent on/off (if available).
-	
-	
-	%automagic: Make magic functions callable without having to type the
-	initial %.
-	
-	Without argumentsl toggles on/off (when off, you must call it as
-	%automagic, of course). With arguments it sets the value, and you can
-	use any of (case insensitive):
-	
-	- on,1,True: to activate
-	
-	- off,0,False: to deactivate.
-	
-	Note that magic functions have lowest priority, so if there's a variable
-	whose name collides with that of a magic fn, automagic won't work for
-	that function (you get the variable instead). However, if you delete the
-	variable (del var), the previously shadowed magic function becomes
-	visible to automagic again.
-	
-	
-	%bg: Run a job in the background, in a separate thread.
-	
-	For example,
-	
-	%bg myfunc(x,y,z=1)
-	
-	will execute 'myfunc(x,y,z=1)' in a background thread. As soon as the
-	execution starts, a message will be printed indicating the job number.
-	If your job number is 5, you can use
-	
-	myvar = jobs.result(5) or myvar = jobs[5].result
-	
-	to assign this result to variable 'myvar'.
-	
-	IPython has a job manager, accessible via the 'jobs' object. You can
-	type jobs? to get more information about it, and use jobs.<TAB> to see
-	its attributes. All attributes not starting with an underscore are meant
-	for public use.
-	
-	In particular, look at the jobs.new() method, which is used to create
-	new jobs. This magic %bg function is just a convenience wrapper around
-	jobs.new(), for expression-based jobs. If you want to create a new job
-	with an explicit function object and arguments, you must call jobs.new()
-	directly.
-	
-	The jobs.new docstring also describes in detail several important
-	caveats associated with a thread-based model for background job
-	execution. Type jobs.new? for details.
-	
-	You can check the status of all jobs with jobs.status().
-	
-	The jobs variable is set by IPython into the Python builtin namespace.
-	If you ever declare a variable named 'jobs', you will shadow this name.
-	You can either delete your global jobs variable to regain access to the
-	job manager, or make a new name and assign it manually to the manager
-	(stored in IPython's namespace). For example, to assign the job manager
-	to the Jobs name, use:
-	
-	Jobs = __builtins__.jobs
-	
-	
-	%bookmark: Manage IPython's bookmark system.
-	
-	%bookmark <name> - set bookmark to current dir %bookmark <name> <dir> -
-	set bookmark to <dir> %bookmark -l - list all bookmarks %bookmark -d
-	<name> - remove bookmark %bookmark -r - remove all bookmarks
-	
-	You can later on access a bookmarked folder with: %cd -b <name> or
-	simply '%cd <name>' if there is no directory called <name> AND there is
-	such a bookmark defined.
-	
-	Your bookmarks persist through IPython sessions, but they are associated
-	with each profile.
-	
-	
-	%cd: Change the current working directory.
-	
-	This command automatically maintains an internal list of directories you
-	visit during your IPython session, in the variable _dh. The command
-	%dhist shows this history nicely formatted. You can also do 'cd -<tab>'
-	to see directory history conveniently.
-	
-	Usage:
-	
-	cd 'dir': changes to directory 'dir'.
-	
-	cd -: changes to the last visited directory.
-	
-	cd -<n>: changes to the n-th directory in the directory history.
-	
-	cd -b <bookmark_name>: jump to a bookmark set by %bookmark (note: cd
-	<bookmark_name> is enough if there is no directory <bookmark_name>, but
-	a bookmark with the name exists.) 'cd -b <tab>' allows you to
-	tab-complete bookmark names.
-	
-	Options:
-	
-	-q: quiet. Do not print the working directory after the cd command is
-	executed. By default IPython's cd command does print this directory,
-	since the default prompts do not display path information.
-	
-	Note that !cd doesn't work for this purpose because the shell where
-	!command runs is immediately discarded after executing 'command'.
-	
-	
-	%color_info: Toggle color_info.
-	
-	The color_info configuration parameter controls whether colors are used
-	for displaying object details (by things like %psource, %pfile or the
-	'?' system). This function toggles this value with each call.
-	
-	Note that unless you have a fairly recent pager (less works better than
-	more) in your system, using colored object information displays will not
-	work properly. Test it and see.
-	
-	
-	%colors: Switch color scheme for prompts, info system and exception
-	handlers.
-	
-	Currently implemented schemes: NoColor, Linux, LightBG.
-	
-	Color scheme names are not case-sensitive.
-	
-	
-	%cpaste: Allows you to paste & execute a pre-formatted code block from
-	clipboard
-	
-	You must terminate the block with '-' (two minus-signs) alone on the
-	line. You can also provide your own sentinel with '%paste -s %%' ('%%'
-	is the new sentinel for this operation)
-	
-	The block is dedented prior to execution to enable execution of method
-	definitions. '>' and '+' characters at the beginning of a line are
-	ignored, to allow pasting directly from e-mails or diff files. The
-	executed block is also assigned to variable named 'pasted_block' for
-	later editing with '%edit pasted_block'.
-	
-	You can also pass a variable name as an argument, e.g. '%cpaste foo'.
-	This assigns the pasted block to variable 'foo' as string, without
-	dedenting or executing it.
-	
-	Do not be alarmed by garbled output on Windows (it's a readline bug).
-	Just press enter and type - (and press enter again) and the block will
-	be what was just pasted.
-	
-	IPython statements (magics, shell escapes) are not supported (yet).
-	
-	
-	%debug: Activate the interactive debugger in post-mortem mode.
-	
-	If an exception has just occurred, this lets you inspect its stack
-	frames interactively. Note that this will always work only on the last
-	traceback that occurred, so you must call this quickly after an
-	exception that you wish to inspect has fired, because if another one
-	occurs, it clobbers the previous one.
-	
-	If you want IPython to automatically do this on every exception, see the
-	%pdb magic for more details.
-	
-	
-	%dhist: Print your history of visited directories.
-	
-	%dhist -> print full history
-	%dhist n -> print last n entries only
-	%dhist n1 n2 -> print entries between n1 and n2 (n1 not included)
-	
-	This history is automatically maintained by the %cd command, and always
-	available as the global list variable _dh. You can use %cd -<n> to go to
-	directory number <n>.
-	
-	Note that most of time, you should view directory history by entering cd
-	-<TAB>.
-	
-	
-	%dirs: Return the current directory stack.
-	
-	
-	%doctest_mode: Toggle doctest mode on and off.
-	
-	This mode allows you to toggle the prompt behavior between normal
-	IPython prompts and ones that are as similar to the default IPython
-	interpreter as possible.
-	
-	It also supports the pasting of code snippets that have leading '»>' and
-	'...' prompts in them. This means that you can paste doctests from files
-	or docstrings (even if they have leading whitespace), and the code will
-	execute correctly. You can then use '%history -tn' to see the translated
-	history without line numbers; this will give you the input after removal
-	of all the leading prompts and whitespace, which can be pasted back into
-	an editor.
-	
-	With these features, you can switch into this mode easily whenever you
-	need to do testing and changes to doctests, without having to leave your
-	existing IPython session.
-	
-	
-	%ed: Alias to %edit.
-	
-	
-	%edit: Bring up an editor and execute the resulting code.
-	
-	Usage: %edit [options] [args]
-	
-	%edit runs IPython's editor hook. The default version of this hook is
-	set to call the __IPYTHON__.rc.editor command. This is read from your
-	environment variable $EDITOR. If this isn't found, it will default to vi
-	under Linux/Unix and to notepad under Windows. See the end of this
-	docstring for how to change the editor hook.
-	
-	You can also set the value of this editor via the command line option
-	'-editor' or in your ipythonrc file. This is useful if you wish to use
-	specifically for IPython an editor different from your typical default
-	(and for Windows users who typically don't set environment variables).
-	
-	This command allows you to conveniently edit multi-line code right in
-	your IPython session.
-	
-	If called without arguments, %edit opens up an empty editor with a
-	temporary file and will execute the contents of this file when you close
-	it (don't forget to save it!).
-	
-	Options:
-	
-	-n <number>: open the editor at a specified line number. By default, the
-	IPython editor hook uses the unix syntax 'editor +N filename', but you
-	can configure this by providing your own modified hook if your favorite
-	editor supports line-number specifications with a different syntax.
-	
-	-p: this will call the editor with the same data as the previous time it
-	was used, regardless of how long ago (in your current session) it was.
-	
-	-r: use 'raw' input. This option only applies to input taken from the
-	user's history. By default, the 'processed' history is used, so that
-	magics are loaded in their transformed version to valid Python. If this
-	option is given, the raw input as typed as the command line is used
-	instead. When you exit the editor, it will be executed by IPython's own
-	processor.
-	
-	-x: do not execute the edited code immediately upon exit. This is mainly
-	useful if you are editing programs which need to be called with command
-	line arguments, which you can then do using %run.
-	
-	Arguments:
-	
-	If arguments are given, the following possibilites exist:
-	
-	    - The arguments are numbers or pairs of dash-separated numbers (like 1
-	      4-8 9). These are interpreted as lines of previous input to be loaded
-	      into the editor. The syntax is the same of the %macro command.
-	
-	    - If the argument doesn't start with a number, it is evaluated as a
-	      variable and its contents loaded into the editor. You can thus edit any
-	      string which contains python code (including the result of previous edits).
-	
-	    - If the argument is the name of an object (other than a string),
-	      IPython will try to locate the file where it was defined and open the
-	      editor at the point where it is defined. You can use '%edit function' to
-	      load an editor exactly at the point where 'function' is defined, edit it
-	      and have the file be executed automatically.
-	
-	If the object is a macro (see %macro for details), this opens up your
-	specified editor with a temporary file containing the macro's data. Upon
-	exit, the macro is reloaded with the contents of the file.
-	
-	Note: opening at an exact line is only supported under Unix, and some
-	editors (like kedit and gedit up to Gnome 2.8) do not understand the
-	'+NUMBER' parameter necessary for this feature. Good editors like
-	(X)Emacs, vi, jed, pico and joe all do.
-	
-	If the argument is not found as a variable, IPython will look for a
-	file with that name (adding .py if necessary) and load it into the
-	editor. It will execute its contents with execfile() when you exit,
-	loading any code in the file into your interactive namespace.
-	
-	After executing your code, %edit will return as output the code you
-	typed in the editor (except when it was an existing file). This way you
-	can reload the code in further invocations of %edit as a variable, via
-	_<NUMBER> or Out[<NUMBER>], where <NUMBER> is the prompt number of the
-	output.
-	
-	Note that %edit is also available through the alias %ed.
-	
-	This is an example of creating a simple function inside the editor and
-	then modifying it. First, start up the editor::
-	
-	    In [1]: ed
-	    Editing... done. Executing edited code...
-	    Out[1]: 'def foo():\n print "foo() was defined in an editing session"\n'
-	
-	    We can then call the function foo():
-	
-	    In [2]: foo()
-	    foo() was defined in an editing session
-	
-	    Now we edit foo. IPython automatically loads the editor with the
-	    (temporary) file where foo() was previously defined:
-	
-	    In [3]: ed foo
-	    Editing... done. Executing edited code...
-	
-	    And if we call foo() again we get the modified version:
-	
-	    In [4]: foo()
-	    foo() has now been changed!
-	
-	    Here is an example of how to edit a code snippet successive times. First
-	    we call the editor:
-	
-	    In [8]: ed
-	    Editing... done. Executing edited code...
-	    hello
-	    Out[8]: "print 'hello'\n"
-	
-	    Now we call it again with the previous output (stored in _):
-	
-	    In [9]: ed _
-	    Editing... done. Executing edited code...
-	    hello world
-	    Out[9]: "print 'hello world'\n"
-	
-	    Now we call it with the output #8 (stored in _8, also as Out[8]):
-	
-	    In [10]: ed _8
-	    Editing... done. Executing edited code...
-	    hello again
-	    Out[10]: "print 'hello again'\n"
-	
-	Changing the default editor hook:
-	
-	If you wish to write your own editor hook, you can put it in a
-	configuration file which you load at startup time. The default hook is
-	defined in the IPython.hooks module, and you can use that as a starting
-	example for further modifications. That file also has general
-	instructions on how to set a new hook for use once you've defined it.
-	
-	
-	%env: List environment variables.
-	
-	
-	%exit: Exit IPython, confirming if configured to do so.
-	
-	You can configure whether IPython asks for confirmation upon exit by
-	setting the confirm_exit flag in the ipythonrc file.
-	
-	
-	%logoff: Temporarily stop logging.
-	
-	You must have previously started logging.
-	
-	
-	%logon: Restart logging.
-	
-	This function is for restarting logging which you've temporarily stopped
-	with %logoff. For starting logging for the first time, you must use the
-	%logstart function, which allows you to specify an optional log filename.
-	
-	
-	%logstart: Start logging anywhere in a session.
-	
-	%logstart [-o|-r|-t] [log_name [log_mode]]
-	
-	If no name is given, it defaults to a file named 'ipython_log.py' in
-	your current directory, in 'rotate' mode (see below).
-	
-	'%logstart name' saves to file 'name' in 'backup' mode. It saves your
-	history up to that point and then continues logging.
-	
-	%logstart takes a second optional parameter: logging mode. This can be
-	one of (note that the modes are given unquoted):
-	append: well, that says it.
-	backup: rename (if exists) to name  and start name.
-	global: single logfile in your home dir, appended to.
-	over : overwrite existing log.
-	rotate: create rotating logs name.1 , name.2 , etc.
-	
-	Options:
-	
-	-o: log also IPython's output. In this mode, all commands which generate
-	an Out[NN] prompt are recorded to the logfile, right after their
-	corresponding input line. The output lines are always prepended with a
-	'#[Out]# ' marker, so that the log remains valid Python code.
-	
-	Since this marker is always the same, filtering only the output from a
-	log is very easy, using for example a simple awk call:
-	
-	awk -F'#
-	
-	\begin{displaymath}Out\end{displaymath}
-	
-	# ' 'if($2) print $2' ipython_log.py
-	
-	-r: log 'raw' input. Normally, IPython's logs contain the processed
-	input, so that user lines are logged in their final form, converted into
-	valid Python. For example, %Exit is logged as '_ip.magic("Exit"). If the
-	-r flag is given, all input is logged exactly as typed, with no
-	transformations applied.
-	
-	-t: put timestamps before each input line logged (these are put in
-	comments).
-	
-	
-	%logstate: Print the status of the logging system.
-	
-	
-	%logstop: Fully stop logging and close log file.
-	
-	In order to start logging again, a new %logstart call needs to be made,
-	possibly (though not necessarily) with a new filename, mode and other
-	options.
-	
-	
-	%lsmagic: List currently available magic functions.
-	
-	
-	%macro: Define a set of input lines as a macro for future re-execution.
-	
-	Usage:
-	%macro [options] name n1-n2 n3-n4 ... n5 .. n6 ...
-	
-	Options:
-	
-	-r: use 'raw' input. By default, the 'processed' history is used, so
-	that magics are loaded in their transformed version to valid Python. If
-	this option is given, the raw input as typed as the command line is used
-	instead.
-	
-	This will define a global variable called 'name' which is a string made
-	of joining the slices and lines you specify (n1,n2,... numbers above)
-	from your input history into a single string. This variable acts like an
-	automatic function which re-executes those lines as if you had typed
-	them. You just type 'name' at the prompt and the code executes.
-	
-	The notation for indicating number ranges is: n1-n2 means 'use line
-	numbers n1,...n2' (the endpoint is included). That is, '5-7' means using
-	the lines numbered 5,6 and 7.
-	
-	Note: as a 'hidden' feature, you can also use traditional python slice
-	notation, where N:M means numbers N through M-1.
-	
-	For example, if your history contains (%hist prints it):
-	
-	44: x=1
-	45: y=3
-	46: z=x+y
-	47: print x
-	48: a=5
-	49: print 'x',x,'y',y
-	
-	you can create a macro with lines 44 through 47 (included) and line 49
-	called my_macro with:
-	
-	In [51]: %macro my_macro 44-47 49
-	
-	Now, typing 'my_macro' (without quotes) will re-execute all this code in
-	one pass.
-	
-	You don't need to give the line-numbers in order, and any given line
-	number can appear multiple times. You can assemble macros with any lines
-	from your input history in any order.
-	
-	The macro is a simple object which holds its value in an attribute, but
-	IPython's display system checks for macros and executes them as code
-	instead of printing them when you type their name.
-	
-	You can view a macro's contents by explicitly printing it with:
-	
-	'print macro_name'.
-	
-	For one-off cases which DON'T contain magic function calls in them you
-	can obtain similar results by explicitly executing slices from your
-	input history with:
-	
-	In [60]: exec In[44:48]+In[49]
-	
-	
-	%magic: Print information about the magic function system.
-	
-	
-	%page: Pretty print the object and display it through a pager.
-	
-	%page [options] OBJECT
-	
-	If no object is given, use _ (last output).
-	
-	Options:
-	
-	-r: page str(object), don't pretty-print it.
-	
-	
-	%pdb: Control the automatic calling of the pdb interactive debugger.
-	
-	Call as '%pdb on', '%pdb 1', '%pdb off' or '%pdb 0'. If called without
-	argument it works as a toggle.
-	
-	When an exception is triggered, IPython can optionally call the
-	interactive pdb debugger after the traceback printout. %pdb toggles this
-	feature on and off.
-	
-	The initial state of this feature is set in your ipythonrc configuration
-	file (the variable is called 'pdb').
-	
-	If you want to just activate the debugger AFTER an exception has fired,
-	without having to type '%pdb on' and rerunning your code, you can use
-	the %debug magic.
-	
-	
-	%pdef: Print the definition header for any callable object.
-	
-	If the object is a class, print the constructor information.
-	
-	
-	%pdoc: Print the docstring for an object.
-	
-	If the given object is a class, it will print both the class and the
-	constructor docstrings.
-	
-	
-	%pfile: Print (or run through pager) the file where an object is defined.
-	
-	The file opens at the line where the object definition begins. IPython
-	will honor the environment variable PAGER if set, and otherwise will do
-	its best to print the file in a convenient form.
-	
-	If the given argument is not an object currently defined, IPython will
-	try to interpret it as a filename (automatically adding a .py extension
-	if needed). You can thus use %pfile as a syntax highlighting code viewer.
-	
-	
-	%pinfo: Provide detailed information about an object.
-	
-	'%pinfo object' is just a synonym for object? or ?object.
-	
-	
-	%popd: Change to directory popped off the top of the stack.
-	
-	
-	%profile: Print your currently active IPyhton profile.
-	
-	
-	%prun: Run a statement through the python code profiler.
-	
-	Usage:
-	%prun [options] statement
-	
-	The given statement (which doesn't require quote marks) is run via the
-	python profiler in a manner similar to the profile.run() function.
-	Namespaces are internally managed to work correctly; profile.run cannot
-	be used in IPython because it makes certain assumptions about namespaces
-	which do not hold under IPython.
-	
-	Options:
-	
-	-l <limit>: you can place restrictions on what or how much of the
-	profile gets printed. The limit value can be:
-	
-	 * A string: only information for function names containing this string
-	   is printed.
-	
-	 * An integer: only these many lines are printed.
-	
-	 * A float (between 0 and 1): this fraction of the report is printed (for
-	  example, use a limit of 0.4 to see the topmost 40% only).
-	
-	You can combine several limits with repeated use of the option. For
-	example, '-l __init__ -l 5' will print only the topmost 5 lines of
-	information about class constructors.
-	
-	-r: return the pstats.Stats object generated by the profiling. This
-	object has all the information about the profile in it, and you can
-	later use it for further analysis or in other functions.
-	
-	-s <key>: sort profile by given key. You can provide more than one key
-	by using the option several times: '-s key1 -s key2 -s key3...'. The
-	default sorting key is 'time'.
-	
-	The following is copied verbatim from the profile documentation
-	referenced below:
-	
-	When more than one key is provided, additional keys are used as
-	secondary criteria when the there is equality in all keys selected
-	before them.
-	
-	Abbreviations can be used for any key names, as long as the abbreviation
-	is unambiguous. The following are the keys currently defined:
-	
-	Valid Arg Meaning
-	"calls" call count
-	"cumulative" cumulative time
-	"file" file name
-	"module" file name
-	"pcalls" primitive call count
-	"line" line number
-	"name" function name
-	"nfl" name/file/line
-	"stdname" standard name
-	"time" internal time
-	
-	Note that all sorts on statistics are in descending order (placing most
-	time consuming items first), where as name, file, and line number
-	searches are in ascending order (i.e., alphabetical). The subtle
-	distinction between "nfl" and "stdname" is that the standard name is a
-	sort of the name as printed, which means that the embedded line numbers
-	get compared in an odd way. For example, lines 3, 20, and 40 would (if
-	the file names were the same) appear in the string order "20" "3" and
-	"40". In contrast, "nfl" does a numeric compare of the line numbers. In
-	fact, sort_stats("nfl") is the same as sort_stats("name", "file", "line").
-	
-	-T <filename>: save profile results as shown on screen to a text file.
-	The profile is still shown on screen.
-	
-	-D <filename>: save (via dump_stats) profile statistics to given
-	filename. This data is in a format understod by the pstats module, and
-	is generated by a call to the dump_stats() method of profile objects.
-	The profile is still shown on screen.
-	
-	If you want to run complete programs under the profiler's control, use
-	'%run -p [prof_opts] filename.py [args to program]' where prof_opts
-	contains profiler specific options as described here.
-	
-	You can read the complete documentation for the profile module with:
-	In [1]: import profile; profile.help()
-	
-	
-	%psearch: Search for object in namespaces by wildcard.
-	
-	%psearch [options] PATTERN [OBJECT TYPE]
-	
-	Note: ? can be used as a synonym for %psearch, at the beginning or at
-	the end: both a*? and ?a* are equivalent to '%psearch a*'. Still, the
-	rest of the command line must be unchanged (options come first), so for
-	example the following forms are equivalent
-	
-	%psearch -i a* function -i a* function? ?-i a* function
-	
-	Arguments:
-	
-	PATTERN
-	
-	where PATTERN is a string containing * as a wildcard similar to its use
-	in a shell. The pattern is matched in all namespaces on the search path.
-	By default objects starting with a single _ are not matched, many
-	IPython generated objects have a single underscore. The default is case
-	insensitive matching. Matching is also done on the attributes of objects
-	and not only on the objects in a module.
-	
-	[OBJECT TYPE]
-	
-	Is the name of a python type from the types module. The name is given in
-	lowercase without the ending type, ex. StringType is written string. By
-	adding a type here only objects matching the given type are matched.
-	Using all here makes the pattern match all types (this is the default).
-	
-	Options:
-	
-	-a: makes the pattern match even objects whose names start with a single
-	underscore. These names are normally ommitted from the search.
-	
-	-i/-c: make the pattern case insensitive/sensitive. If neither of these
-	options is given, the default is read from your ipythonrc file. The
-	option name which sets this value is 'wildcards_case_sensitive'. If this
-	option is not specified in your ipythonrc file, IPython's internal
-	default is to do a case sensitive search.
-	
-	-e/-s NAMESPACE: exclude/search a given namespace. The pattern you
-	specifiy can be searched in any of the following namespaces: 'builtin',
-	'user', 'user_global','internal', 'alias', where 'builtin' and 'user'
-	are the search defaults. Note that you should not use quotes when
-	specifying namespaces.
-	
-	'Builtin' contains the python module builtin, 'user' contains all user
-	data, 'alias' only contain the shell aliases and no python objects,
-	'internal' contains objects used by IPython. The 'user_global' namespace
-	is only used by embedded IPython instances, and it contains module-level
-	globals. You can add namespaces to the search with -s or exclude them
-	with -e (these options can be given more than once).
-	
-	Examples:
-	
-	%psearch a* -> objects beginning with an a %psearch -e builtin a* ->
-	objects NOT in the builtin space starting in a %psearch a* function ->
-	all functions beginning with an a %psearch re.e* -> objects beginning
-	with an e in module re %psearch r*.e* -> objects that start with e in
-	modules starting in r %psearch r*.* string -> all strings in modules
-	beginning with r
-	
-	Case sensitve search:
-	
-	%psearch -c a* list all object beginning with lower case a
-	
-	Show objects beginning with a single _:
-	
-	%psearch -a _* list objects beginning with a single underscore
-	
-	
-	%psource: Print (or run through pager) the source code for an object.
-	
-	
-	%pushd: Place the current dir on stack and change directory.
-	
-	Usage:
-	%pushd ['dirname']
-	
-	
-	%pwd: Return the current working directory path.
-	
-	
-	%pycat: Show a syntax-highlighted file through a pager.
-	
-	This magic is similar to the cat utility, but it will assume the file to
-	be Python source and will show it with syntax highlighting.
-	
-	
-	%quickref: Show a quick reference sheet
-	
-	
-	%quit: Exit IPython, confirming if configured to do so (like %exit)
-	
-	
-	%r: Repeat previous input.
-	
-	Note: Consider using the more powerfull %rep instead!
-	
-	If given an argument, repeats the previous command which starts with the
-	same string, otherwise it just repeats the previous input.
-	
-	Shell escaped commands (with ! as first character) are not recognized by
-	this system, only pure python code and magic commands.
-	
-	
-	%rehashx: Update the alias table with all executable files in $PATH.
-	
-	This version explicitly checks that every entry in $PATH is a file with
-	execute access (os.X_OK), so it is much slower than %rehash.
-	
-	Under Windows, it checks executability as a match agains a ``|``-separated
-	string of extensions, stored in the IPython config variable
-	win_exec_ext. This defaults to ``exe|com|bat``.
-	
-	This function also resets the root module cache of module completer,
-	used on slow filesystems.
-	
-	
-	%reset: Resets the namespace by removing all names defined by the user.
-	
-	Input/Output history are left around in case you need them.
-	
-	
-	%run: Run the named file inside IPython as a program.
-	
-	Usage:
-	%run [-n -i -t [-N<N>] -d [-b<N>] -p [profile options]] file [args]
-	
-	Parameters after the filename are passed as command-line arguments to
-	the program (put in sys.argv). Then, control returns to IPython's prompt.
-	
-	This is similar to running at a system prompt:
-	$ python file args
-	but with the advantage of giving you IPython's tracebacks, and of
-	loading all variables into your interactive namespace for further use
-	(unless -p is used, see below).
-	
-	The file is executed in a namespace initially consisting only of
-	__name__=='__main__' and sys.argv constructed as indicated. It thus sees
-	its environment as if it were being run as a stand-alone program (except
-	for sharing global objects such as previously imported modules). But
-	after execution, the IPython interactive namespace gets updated with all
-	variables defined in the program (except for __name__ and sys.argv).
-	This allows for very convenient loading of code for interactive work,
-	while giving each program a 'clean sheet' to run in.
-	
-	Options:
-	
-	-n: __name__ is NOT set to '__main__', but to the running file's name
-	without extension (as python does under import). This allows running
-	scripts and reloading the definitions in them without calling code
-	protected by an ' if __name__ == "__main__" ' clause.
-	
-	-i: run the file in IPython's namespace instead of an empty one. This is
-	useful if you are experimenting with code written in a text editor which
-	depends on variables defined interactively.
-	
-	-e: ignore sys.exit() calls or SystemExit exceptions in the script being
-	run. This is particularly useful if IPython is being used to run
-	unittests, which always exit with a sys.exit() call. In such cases you
-	are interested in the output of the test results, not in seeing a
-	traceback of the unittest module.
-	
-	-t: print timing information at the end of the run. IPython will give
-	you an estimated CPU time consumption for your script, which under Unix
-	uses the resource module to avoid the wraparound problems of
-	time.clock(). Under Unix, an estimate of time spent on system tasks is
-	also given (for Windows platforms this is reported as 0.0).
-	
-	If -t is given, an additional -N<N> option can be given, where <N> must
-	be an integer indicating how many times you want the script to run. The
-	final timing report will include total and per run results.
-	
-	For example (testing the script uniq_stable.py):
-	
-	In [1]: run -t uniq_stable
-	
-	IPython CPU timings (estimated):
-	User : 0.19597 s.
-	System: 0.0 s.
-	
-	In [2]: run -t -N5 uniq_stable
-	
-	IPython CPU timings (estimated):
-	Total runs performed: 5
-	Times : Total Per run
-	User : 0.910862 s, 0.1821724 s.
-	System: 0.0 s, 0.0 s.
-	
-	-d: run your program under the control of pdb, the Python debugger. This
-	allows you to execute your program step by step, watch variables, etc.
-	Internally, what IPython does is similar to calling:
-	
-	pdb.run('execfile("YOURFILENAME")')
-	
-	with a breakpoint set on line 1 of your file. You can change the line
-	number for this automatic breakpoint to be <N> by using the -bN option
-	(where N must be an integer). For example:
-	
-	%run -d -b40 myscript
-	
-	will set the first breakpoint at line 40 in myscript.py. Note that the
-	first breakpoint must be set on a line which actually does something
-	(not a comment or docstring) for it to stop execution.
-	
-	When the pdb debugger starts, you will see a (Pdb) prompt. You must
-	first enter 'c' (without qoutes) to start execution up to the first
-	breakpoint.
-	
-	Entering 'help' gives information about the use of the debugger. You can
-	easily see pdb's full documentation with "import pdb;pdb.help()" at a
-	prompt.
-	
-	-p: run program under the control of the Python profiler module (which
-	prints a detailed report of execution times, function calls, etc).
-	
-	You can pass other options after -p which affect the behavior of the
-	profiler itself. See the docs for %prun for details.
-	
-	In this mode, the program's variables do NOT propagate back to the
-	IPython interactive namespace (because they remain in the namespace
-	where the profiler executes them).
-	
-	Internally this triggers a call to %prun, see its documentation for
-	details on the options available specifically for profiling.
-	
-	There is one special usage for which the text above doesn't apply: if
-	the filename ends with .ipy, the file is run as ipython script, just as
-	if the commands were written on IPython prompt.
-	
-	
-	%runlog: Run files as logs.
-	
-	Usage:
-	%runlog file1 file2 ...
-	
-	Run the named files (treating them as log files) in sequence inside the
-	interpreter, and return to the prompt. This is much slower than %run
-	because each line is executed in a try/except block, but it allows
-	running files with syntax errors in them.
-	
-	Normally IPython will guess when a file is one of its own logfiles, so
-	you can typically use %run even for logs. This shorthand allows you to
-	force any file to be treated as a log file.
-	
-	
-	%save: Save a set of lines to a given filename.
-	
-	Usage:
-	%save [options] filename n1-n2 n3-n4 ... n5 .. n6 ...
-	
-	Options:
-	
-	-r: use 'raw' input. By default, the 'processed' history is used, so
-	that magics are loaded in their transformed version to valid Python. If
-	this option is given, the raw input as typed as the command line is used
-	instead.
-	
-	This function uses the same syntax as %macro for line extraction, but
-	instead of creating a macro it saves the resulting string to the
-	filename you specify.
-	
-	It adds a '.py' extension to the file if you don't do so yourself, and
-	it asks for confirmation before overwriting existing files.
-	
-	
-	%sc: Shell capture - execute a shell command and capture its output.
-	
-	DEPRECATED. Suboptimal, retained for backwards compatibility.
-	
-	You should use the form 'var = !command' instead. Example:
-	
-	"%sc -l myfiles = ls " should now be written as
-	
-	"myfiles = !ls "
-	
-	myfiles.s, myfiles.l and myfiles.n still apply as documented below.
-	
-	- %sc [options] varname=command
-	
-	IPython will run the given command using commands.getoutput(), and will
-	then update the user's interactive namespace with a variable called
-	varname, containing the value of the call. Your command can contain
-	shell wildcards, pipes, etc.
-	
-	The '=' sign in the syntax is mandatory, and the variable name you
-	supply must follow Python's standard conventions for valid names.
-	
-	(A special format without variable name exists for internal use)
-	
-	Options:
-	
-	-l: list output. Split the output on newlines into a list before
-	assigning it to the given variable. By default the output is stored as a
-	single string.
-	
-	-v: verbose. Print the contents of the variable.
-	
-	In most cases you should not need to split as a list, because the
-	returned value is a special type of string which can automatically
-	provide its contents either as a list (split on newlines) or as a
-	space-separated string. These are convenient, respectively, either for
-	sequential processing or to be passed to a shell command.
-	
-	For example:
-	
-	# Capture into variable a In [9]: sc a=ls *py
-	
-	# a is a string with embedded newlines In [10]: a Out[10]: 'setup.py
-	win32_manual_post_install.py'
-	
-	# which can be seen as a list: In [11]: a.l Out[11]: ['setup.py',
-	'win32_manual_post_install.py']
-	
-	# or as a whitespace-separated string: In [12]: a.s Out[12]: 'setup.py
-	win32_manual_post_install.py'
-	
-	# a.s is useful to pass as a single command line: In [13]: !wc -l $a.s
-	146 setup.py 130 win32_manual_post_install.py 276 total
-	
-	# while the list form is useful to loop over: In [14]: for f in a.l:
-	....: !wc -l $f ....: 146 setup.py 130 win32_manual_post_install.py
-	
-	Similiarly, the lists returned by the -l option are also special, in the
-	sense that you can equally invoke the .s attribute on them to
-	automatically get a whitespace-separated string from their contents:
-	
-	In [1]: sc -l b=ls *py
-	
-	In [2]: b Out[2]: ['setup.py', 'win32_manual_post_install.py']
-	
-	In [3]: b.s Out[3]: 'setup.py win32_manual_post_install.py'
-	
-	In summary, both the lists and strings used for ouptut capture have the
-	following special attributes:
-	
-	.l (or .list) : value as list. .n (or .nlstr): value as
-	newline-separated string. .s (or .spstr): value as space-separated string.
-	
-	
-	%sx: Shell execute - run a shell command and capture its output.
-	
-	%sx command
-	
-	IPython will run the given command using commands.getoutput(), and
-	return the result formatted as a list (split on '\n'). Since the output
-	is _returned_, it will be stored in ipython's regular output cache
-	Out[N] and in the '_N' automatic variables.
-	
-	Notes:
-	
-	1) If an input line begins with '!!', then %sx is automatically invoked.
-	That is, while: !ls causes ipython to simply issue system('ls'), typing
-	!!ls is a shorthand equivalent to: %sx ls
-	
-	2) %sx differs from %sc in that %sx automatically splits into a list,
-	like '%sc -l'. The reason for this is to make it as easy as possible to
-	process line-oriented shell output via further python commands. %sc is
-	meant to provide much finer control, but requires more typing.
-	
-	3) Just like %sc -l, this is a list with special attributes:
-	
-	.l (or .list) : value as list. .n (or .nlstr): value as
-	newline-separated string. .s (or .spstr): value as whitespace-separated
-	string.
-	
-	This is very useful when trying to use such lists as arguments to system
-	commands.
-	
-	
-	%system_verbose: Set verbose printing of system calls.
-	
-	If called without an argument, act as a toggle
-	
-	
-	%time: Time execution of a Python statement or expression.
-	
-	The CPU and wall clock times are printed, and the value of the
-	expression (if any) is returned. Note that under Win32, system time is
-	always reported as 0, since it can not be measured.
-	
-	This function provides very basic timing functionality. In Python 2.3,
-	the timeit module offers more control and sophistication, so this could
-	be rewritten to use it (patches welcome).
-	
-	Some examples:
-	
-	In [1]: time 2**128 CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
-	Wall time: 0.00 Out[1]: 340282366920938463463374607431768211456L
-	
-	In [2]: n = 1000000
-	
-	In [3]: time sum(range(n)) CPU times: user 1.20 s, sys: 0.05 s, total:
-	1.25 s Wall time: 1.37 Out[3]: 499999500000L
-	
-	In [4]: time print 'hello world' hello world CPU times: user 0.00 s,
-	sys: 0.00 s, total: 0.00 s Wall time: 0.00
-	
-	Note that the time needed by Python to compile the given expression will
-	be reported if it is more than 0.1s. In this example, the actual
-	exponentiation is done by Python at compilation time, so while the
-	expression can take a noticeable amount of time to compute, that time is
-	purely due to the compilation:
-	
-	In [5]: time 3**9999; CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
-	Wall time: 0.00 s
-	
-	In [6]: time 3**999999; CPU times: user 0.00 s, sys: 0.00 s, total: 0.00
-	s Wall time: 0.00 s Compiler : 0.78 s
-	
-	
-	%timeit: Time execution of a Python statement or expression
-	
-	Usage:
-	%timeit [-n<N> -r<R> [-t|-c]] statement
-	
-	Time execution of a Python statement or expression using the timeit module.
-	
-	Options: -n<N>: execute the given statement <N> times in a loop. If this
-	value is not given, a fitting value is chosen.
-	
-	-r<R>: repeat the loop iteration <R> times and take the best result.
-	Default: 3
-	
-	-t: use time.time to measure the time, which is the default on Unix.
-	This function measures wall time.
-	
-	-c: use time.clock to measure the time, which is the default on Windows
-	and measures wall time. On Unix, resource.getrusage is used instead and
-	returns the CPU user time.
-	
-	-p<P>: use a precision of <P> digits to display the timing result.
-	Default: 3
-	
-	Examples:
-	In [1]: %timeit pass 10000000 loops, best of 3: 53.3 ns per loop
-	
-	In [2]: u = None
-	
-	In [3]: %timeit u is None 10000000 loops, best of 3: 184 ns per loop
-	
-	In [4]: %timeit -r 4 u == None 1000000 loops, best of 4: 242 ns per loop
-	
-	In [5]: import time
-	
-	In [6]: %timeit -n1 time.sleep(2) 1 loops, best of 3: 2 s per loop
-	
-	The times reported by %timeit will be slightly higher than those
-	reported by the timeit.py script when variables are accessed. This is
-	due to the fact that %timeit executes the statement in the namespace of
-	the shell, compared with timeit.py, which uses a single setup statement
-	to import function or create variables. Generally, the bias does not
-	matter as long as results from timeit.py are not mixed with those from
-	%timeit.
-	
-	
-	%unalias: Remove an alias
-	
-	
-	%upgrade: Upgrade your IPython installation
-	
-	This will copy the config files that don't yet exist in your ipython dir
-	from the system config dir. Use this after upgrading IPython if you
-	don't wish to delete your .ipython dir.
-	
-	Call with -nolegacy to get rid of ipythonrc* files (recommended for new
-	users)
-	
-	
-	%who: Print all interactive variables, with some minimal formatting.
-	
-	If any arguments are given, only variables whose type matches one of
-	these are printed. For example:
-	
-	%who function str
-	
-	will only list functions and strings, excluding all other types of
-	variables. To find the proper type names, simply use type(var) at a
-	command line to see how python prints type names. For example:
-	
-	In [1]: type('hello')
-	Out[1]: <type 'str'>
-	
-	indicates that the type name for strings is 'str'.
-	
-	%who always excludes executed names loaded through your configuration
-	file and things which are internal to IPython.
-	
-	This is deliberate, as typically you may load many modules and the
-	purpose of %who is to show you only what you've manually defined.
-	
-	
-	%who_ls: Return a sorted list of all interactive variables.
-	
-	If arguments are given, only variables of types matching these arguments
-	are returned.
-	
-	
-	%whos: Like %who, but gives some extra information about each variable.
-	
-	The same type filtering of %who can be applied here.
-	
-	For all variables, the type is printed. Additionally it prints:
-	
-	- For ,[],(): their length.
-	
-	- For numpy and Numeric arrays, a summary with shape, number of
-	elements, typecode and size in memory.
-	
-	- Everything else: a string representation, snipping their middle if too
-	long.
-	
-	
-	%xmode: Switch modes for the exception handlers.
-	
-	Valid modes: Plain, Context and Verbose.
-	
-	If called without arguments, acts as a toggle.
+**%Exit**::
+
+	Exit IPython without confirmation.
+
+**%Pprint**::
+
+	Toggle pretty printing on/off.
+
+**%alias**::
+
+	Define an alias for a system command.
+
+        '%alias alias_name cmd' defines 'alias_name' as an alias for 'cmd'
+
+        Then, typing 'alias_name params' will execute the system command 'cmd
+        params' (from your underlying operating system).
+
+        Aliases have lower precedence than magic functions and Python normal
+        variables, so if 'foo' is both a Python variable and an alias, the
+        alias can not be executed until 'del foo' removes the Python variable.
+
+        You can use the %l specifier in an alias definition to represent the
+        whole line when the alias is called.  For example:
+
+          In [2]: alias all echo "Input in brackets: <%l>"\
+          In [3]: all hello world\
+          Input in brackets: <hello world>
+
+        You can also define aliases with parameters using %s specifiers (one
+        per parameter):
+        
+          In [1]: alias parts echo first %s second %s\
+          In [2]: %parts A B\
+          first A second B\
+          In [3]: %parts A\
+          Incorrect number of arguments: 2 expected.\
+          parts is an alias to: 'echo first %s second %s'
+
+        Note that %l and %s are mutually exclusive.  You can only use one or
+        the other in your aliases.
+
+        Aliases expand Python variables just like system calls using ! or !! 
+        do: all expressions prefixed with '$' get expanded.  For details of
+        the semantic rules, see PEP-215:
+        http://www.python.org/peps/pep-0215.html.  This is the library used by
+        IPython for variable expansion.  If you want to access a true shell
+        variable, an extra $ is necessary to prevent its expansion by IPython:
+
+        In [6]: alias show echo\
+        In [7]: PATH='A Python string'\
+        In [8]: show $PATH\
+        A Python string\
+        In [9]: show $$PATH\
+        /usr/local/lf9560/bin:/usr/local/intel/compiler70/ia32/bin:...
+
+        You can use the alias facility to acess all of $PATH.  See the %rehash
+        and %rehashx functions, which automatically create aliases for the
+        contents of your $PATH.
+
+        If called with no parameters, %alias prints the current alias table.
+
+**%autocall**::
+
+	Make functions callable without having to type parentheses.
+
+        Usage:
+
+           %autocall [mode]
+
+        The mode can be one of: 0->Off, 1->Smart, 2->Full.  If not given, the
+        value is toggled on and off (remembering the previous state).
+
+        In more detail, these values mean:
+
+        0 -> fully disabled
+
+        1 -> active, but do not apply if there are no arguments on the line.
+
+        In this mode, you get:
+
+        In [1]: callable
+        Out[1]: <built-in function callable>
+
+        In [2]: callable 'hello'
+        ------> callable('hello')
+        Out[2]: False
+
+        2 -> Active always.  Even if no arguments are present, the callable
+        object is called:
+
+        In [4]: callable
+        ------> callable()
+
+        Note that even with autocall off, you can still use '/' at the start of
+        a line to treat the first argument on the command line as a function
+        and add parentheses to it:
+
+        In [8]: /str 43
+        ------> str(43)
+        Out[8]: '43'
+
+**%autoindent**::
+
+	Toggle autoindent on/off (if available).
+
+**%automagic**::
+
+	Make magic functions callable without having to type the initial %.
+
+        Without argumentsl toggles on/off (when off, you must call it as
+        %automagic, of course).  With arguments it sets the value, and you can
+        use any of (case insensitive):
+
+         - on,1,True: to activate
+
+         - off,0,False: to deactivate.
+
+        Note that magic functions have lowest priority, so if there's a
+        variable whose name collides with that of a magic fn, automagic won't
+        work for that function (you get the variable instead). However, if you
+        delete the variable (del var), the previously shadowed magic function
+        becomes visible to automagic again.
+
+**%bg**::
+
+	Run a job in the background, in a separate thread.
+
+        For example,
+
+          %bg myfunc(x,y,z=1)
+
+        will execute 'myfunc(x,y,z=1)' in a background thread.  As soon as the
+        execution starts, a message will be printed indicating the job
+        number.  If your job number is 5, you can use
+
+          myvar = jobs.result(5)  or  myvar = jobs[5].result
+
+        to assign this result to variable 'myvar'.
+
+        IPython has a job manager, accessible via the 'jobs' object.  You can
+        type jobs? to get more information about it, and use jobs.<TAB> to see
+        its attributes.  All attributes not starting with an underscore are
+        meant for public use.
+
+        In particular, look at the jobs.new() method, which is used to create
+        new jobs.  This magic %bg function is just a convenience wrapper
+        around jobs.new(), for expression-based jobs.  If you want to create a
+        new job with an explicit function object and arguments, you must call
+        jobs.new() directly.
+
+        The jobs.new docstring also describes in detail several important
+        caveats associated with a thread-based model for background job
+        execution.  Type jobs.new? for details.
+
+        You can check the status of all jobs with jobs.status().
+
+        The jobs variable is set by IPython into the Python builtin namespace.
+        If you ever declare a variable named 'jobs', you will shadow this
+        name.  You can either delete your global jobs variable to regain
+        access to the job manager, or make a new name and assign it manually
+        to the manager (stored in IPython's namespace).  For example, to
+        assign the job manager to the Jobs name, use:
+
+          Jobs = __builtins__.jobs
+
+**%bookmark**::
+
+	Manage IPython's bookmark system.
+
+        %bookmark <name>       - set bookmark to current dir
+        %bookmark <name> <dir> - set bookmark to <dir>
+        %bookmark -l           - list all bookmarks
+        %bookmark -d <name>    - remove bookmark
+        %bookmark -r           - remove all bookmarks
+
+        You can later on access a bookmarked folder with:
+          %cd -b <name>
+        or simply '%cd <name>' if there is no directory called <name> AND
+        there is such a bookmark defined.
+
+        Your bookmarks persist through IPython sessions, but they are
+        associated with each profile.
+
+**%cd**::
+
+	Change the current working directory.
+
+        This command automatically maintains an internal list of directories
+        you visit during your IPython session, in the variable _dh. The
+        command %dhist shows this history nicely formatted. You can also
+        do 'cd -<tab>' to see directory history conveniently.
+
+        Usage:
+
+          cd 'dir': changes to directory 'dir'.
+
+          cd -: changes to the last visited directory.
+
+          cd -<n>: changes to the n-th directory in the directory history.
+
+          cd -b <bookmark_name>: jump to a bookmark set by %bookmark
+             (note: cd <bookmark_name> is enough if there is no
+              directory <bookmark_name>, but a bookmark with the name exists.)
+              'cd -b <tab>' allows you to tab-complete bookmark names. 
+
+        Options:
+
+        -q: quiet.  Do not print the working directory after the cd command is
+        executed.  By default IPython's cd command does print this directory,
+        since the default prompts do not display path information.
+        
+        Note that !cd doesn't work for this purpose because the shell where
+        !command runs is immediately discarded after executing 'command'.
+
+**%clear**::
+
+	 Clear various data (e.g. stored history data)
+    
+    %clear out - clear output history
+    %clear in  - clear input history
+    %clear shadow_compress - Compresses shadow history (to speed up ipython)
+    %clear shadow_nuke - permanently erase all entries in shadow history
+    %clear dhist - clear dir history
+
+**%color_info**::
+
+	Toggle color_info.
+
+        The color_info configuration parameter controls whether colors are
+        used for displaying object details (by things like %psource, %pfile or
+        the '?' system). This function toggles this value with each call.
+
+        Note that unless you have a fairly recent pager (less works better
+        than more) in your system, using colored object information displays
+        will not work properly. Test it and see.
+
+**%colors**::
+
+	Switch color scheme for prompts, info system and exception handlers.
+
+        Currently implemented schemes: NoColor, Linux, LightBG.
+
+        Color scheme names are not case-sensitive.
+
+**%cpaste**::
+
+	Allows you to paste & execute a pre-formatted code block from clipboard
+        
+        You must terminate the block with '--' (two minus-signs) alone on the
+        line. You can also provide your own sentinel with '%paste -s %%' ('%%' 
+        is the new sentinel for this operation)
+        
+        The block is dedented prior to execution to enable execution of method
+        definitions. '>' and '+' characters at the beginning of a line are
+        ignored, to allow pasting directly from e-mails or diff files. The
+        executed block is also assigned to variable named 'pasted_block' for
+        later editing with '%edit pasted_block'.
+        
+        You can also pass a variable name as an argument, e.g. '%cpaste foo'.
+        This assigns the pasted block to variable 'foo' as string, without 
+        dedenting or executing it.
+        
+        Do not be alarmed by garbled output on Windows (it's a readline bug). 
+        Just press enter and type -- (and press enter again) and the block 
+        will be what was just pasted.
+        
+        IPython statements (magics, shell escapes) are not supported (yet).
+
+**%debug**::
+
+	Activate the interactive debugger in post-mortem mode.
+
+        If an exception has just occurred, this lets you inspect its stack
+        frames interactively.  Note that this will always work only on the last
+        traceback that occurred, so you must call this quickly after an
+        exception that you wish to inspect has fired, because if another one
+        occurs, it clobbers the previous one.
+
+        If you want IPython to automatically do this on every exception, see
+        the %pdb magic for more details.
+
+**%dhist**::
+
+	Print your history of visited directories.
+
+        %dhist       -> print full history\
+        %dhist n     -> print last n entries only\
+        %dhist n1 n2 -> print entries between n1 and n2 (n1 not included)\
+
+        This history is automatically maintained by the %cd command, and
+        always available as the global list variable _dh. You can use %cd -<n>
+        to go to directory number <n>.
+        
+        Note that most of time, you should view directory history by entering
+        cd -<TAB>.
+
+**%dirs**::
+
+	Return the current directory stack.
+
+**%doctest_mode**::
+
+	Toggle doctest mode on and off.
+
+        This mode allows you to toggle the prompt behavior between normal
+        IPython prompts and ones that are as similar to the default IPython
+        interpreter as possible.
+
+        It also supports the pasting of code snippets that have leading '>>>'
+        and '...' prompts in them.  This means that you can paste doctests from
+        files or docstrings (even if they have leading whitespace), and the
+        code will execute correctly.  You can then use '%history -tn' to see
+        the translated history without line numbers; this will give you the
+        input after removal of all the leading prompts and whitespace, which
+        can be pasted back into an editor.
+
+        With these features, you can switch into this mode easily whenever you
+        need to do testing and changes to doctests, without having to leave
+        your existing IPython session.
+
+**%ed**::
+
+	Alias to %edit.
+
+**%edit**::
+
+	Bring up an editor and execute the resulting code.
+
+        Usage:
+          %edit [options] [args]
+
+        %edit runs IPython's editor hook.  The default version of this hook is
+        set to call the __IPYTHON__.rc.editor command.  This is read from your
+        environment variable $EDITOR.  If this isn't found, it will default to
+        vi under Linux/Unix and to notepad under Windows.  See the end of this
+        docstring for how to change the editor hook.
+
+        You can also set the value of this editor via the command line option
+        '-editor' or in your ipythonrc file. This is useful if you wish to use
+        specifically for IPython an editor different from your typical default
+        (and for Windows users who typically don't set environment variables).
+
+        This command allows you to conveniently edit multi-line code right in
+        your IPython session.
+        
+        If called without arguments, %edit opens up an empty editor with a
+        temporary file and will execute the contents of this file when you
+        close it (don't forget to save it!).
+
+
+        Options:
+
+        -n <number>: open the editor at a specified line number.  By default,
+        the IPython editor hook uses the unix syntax 'editor +N filename', but
+        you can configure this by providing your own modified hook if your
+        favorite editor supports line-number specifications with a different
+        syntax.
+        
+        -p: this will call the editor with the same data as the previous time
+        it was used, regardless of how long ago (in your current session) it
+        was.
+
+        -r: use 'raw' input.  This option only applies to input taken from the
+        user's history.  By default, the 'processed' history is used, so that
+        magics are loaded in their transformed version to valid Python.  If
+        this option is given, the raw input as typed as the command line is
+        used instead.  When you exit the editor, it will be executed by
+        IPython's own processor.
+        
+        -x: do not execute the edited code immediately upon exit. This is
+        mainly useful if you are editing programs which need to be called with
+        command line arguments, which you can then do using %run.
+
+
+        Arguments:
+
+        If arguments are given, the following possibilites exist:
+
+        - The arguments are numbers or pairs of colon-separated numbers (like
+        1 4:8 9). These are interpreted as lines of previous input to be
+        loaded into the editor. The syntax is the same of the %macro command.
+
+        - If the argument doesn't start with a number, it is evaluated as a
+        variable and its contents loaded into the editor. You can thus edit
+        any string which contains python code (including the result of
+        previous edits).
+
+        - If the argument is the name of an object (other than a string),
+        IPython will try to locate the file where it was defined and open the
+        editor at the point where it is defined. You can use `%edit function`
+        to load an editor exactly at the point where 'function' is defined,
+        edit it and have the file be executed automatically.
+
+        If the object is a macro (see %macro for details), this opens up your
+        specified editor with a temporary file containing the macro's data.
+        Upon exit, the macro is reloaded with the contents of the file.
+
+        Note: opening at an exact line is only supported under Unix, and some
+        editors (like kedit and gedit up to Gnome 2.8) do not understand the
+        '+NUMBER' parameter necessary for this feature. Good editors like
+        (X)Emacs, vi, jed, pico and joe all do.
+
+        - If the argument is not found as a variable, IPython will look for a
+        file with that name (adding .py if necessary) and load it into the
+        editor. It will execute its contents with execfile() when you exit,
+        loading any code in the file into your interactive namespace.
+
+        After executing your code, %edit will return as output the code you
+        typed in the editor (except when it was an existing file). This way
+        you can reload the code in further invocations of %edit as a variable,
+        via _<NUMBER> or Out[<NUMBER>], where <NUMBER> is the prompt number of
+        the output.
+
+        Note that %edit is also available through the alias %ed.
+
+        This is an example of creating a simple function inside the editor and
+        then modifying it. First, start up the editor:
+
+        In [1]: ed\
+        Editing... done. Executing edited code...\
+        Out[1]: 'def foo():\n    print "foo() was defined in an editing session"\n'
+
+        We can then call the function foo():
+        
+        In [2]: foo()\
+        foo() was defined in an editing session
+
+        Now we edit foo.  IPython automatically loads the editor with the
+        (temporary) file where foo() was previously defined:
+        
+        In [3]: ed foo\
+        Editing... done. Executing edited code...
+
+        And if we call foo() again we get the modified version:
+        
+        In [4]: foo()\
+        foo() has now been changed!
+
+        Here is an example of how to edit a code snippet successive
+        times. First we call the editor:
+
+        In [8]: ed\
+        Editing... done. Executing edited code...\
+        hello\
+        Out[8]: "print 'hello'\n"
+
+        Now we call it again with the previous output (stored in _):
+
+        In [9]: ed _\
+        Editing... done. Executing edited code...\
+        hello world\
+        Out[9]: "print 'hello world'\n"
+
+        Now we call it with the output #8 (stored in _8, also as Out[8]):
+
+        In [10]: ed _8\
+        Editing... done. Executing edited code...\
+        hello again\
+        Out[10]: "print 'hello again'\n"
+
+
+        Changing the default editor hook:
+
+        If you wish to write your own editor hook, you can put it in a
+        configuration file which you load at startup time.  The default hook
+        is defined in the IPython.hooks module, and you can use that as a
+        starting example for further modifications.  That file also has
+        general instructions on how to set a new hook for use once you've
+        defined it.
+
+**%env**::
+
+	List environment variables.
+
+**%exit**::
+
+	Exit IPython, confirming if configured to do so.
+
+        You can configure whether IPython asks for confirmation upon exit by
+        setting the confirm_exit flag in the ipythonrc file.
+
+**%hist**::
+
+	Alternate name for %history.
+
+**%history**::
+
+	Print input history (_i<n> variables), with most recent last.
+    
+    %history       -> print at most 40 inputs (some may be multi-line)\
+    %history n     -> print at most n inputs\
+    %history n1 n2 -> print inputs between n1 and n2 (n2 not included)\
+    
+    Each input's number <n> is shown, and is accessible as the
+    automatically generated variable _i<n>.  Multi-line statements are
+    printed starting at a new line for easy copy/paste.
+    
+
+    Options:
+
+      -n: do NOT print line numbers. This is useful if you want to get a
+      printout of many lines which can be directly pasted into a text
+      editor.
+
+      This feature is only available if numbered prompts are in use.
+
+      -t: (default) print the 'translated' history, as IPython understands it.
+      IPython filters your input and converts it all into valid Python source
+      before executing it (things like magics or aliases are turned into
+      function calls, for example). With this option, you'll see the native
+      history instead of the user-entered version: '%cd /' will be seen as
+      '_ip.magic("%cd /")' instead of '%cd /'.
+      
+      -r: print the 'raw' history, i.e. the actual commands you typed.
+      
+      -g: treat the arg as a pattern to grep for in (full) history.
+      This includes the "shadow history" (almost all commands ever written).
+      Use '%hist -g' to show full shadow history (may be very long).
+      In shadow history, every index nuwber starts with 0.
+
+      -f FILENAME: instead of printing the output to the screen, redirect it to
+       the given file.  The file is always overwritten, though IPython asks for
+       confirmation first if it already exists.
+
+**%logoff**::
+
+	Temporarily stop logging.
+
+        You must have previously started logging.
+
+**%logon**::
+
+	Restart logging.
+
+        This function is for restarting logging which you've temporarily
+        stopped with %logoff. For starting logging for the first time, you
+        must use the %logstart function, which allows you to specify an
+        optional log filename.
+
+**%logstart**::
+
+	Start logging anywhere in a session.
+
+        %logstart [-o|-r|-t] [log_name [log_mode]]
+
+        If no name is given, it defaults to a file named 'ipython_log.py' in your
+        current directory, in 'rotate' mode (see below).
+
+        '%logstart name' saves to file 'name' in 'backup' mode.  It saves your
+        history up to that point and then continues logging.
+
+        %logstart takes a second optional parameter: logging mode. This can be one
+        of (note that the modes are given unquoted):\
+          append: well, that says it.\
+          backup: rename (if exists) to name~ and start name.\
+          global: single logfile in your home dir, appended to.\
+          over  : overwrite existing log.\
+          rotate: create rotating logs name.1~, name.2~, etc.
+
+        Options:
+
+          -o: log also IPython's output.  In this mode, all commands which
+          generate an Out[NN] prompt are recorded to the logfile, right after
+          their corresponding input line.  The output lines are always
+          prepended with a '#[Out]# ' marker, so that the log remains valid
+          Python code.
+
+          Since this marker is always the same, filtering only the output from
+          a log is very easy, using for example a simple awk call:
+
+            awk -F'#\[Out\]# ' '{if($2) {print $2}}' ipython_log.py
+
+          -r: log 'raw' input.  Normally, IPython's logs contain the processed
+          input, so that user lines are logged in their final form, converted
+          into valid Python.  For example, %Exit is logged as
+          '_ip.magic("Exit").  If the -r flag is given, all input is logged
+          exactly as typed, with no transformations applied.
+
+          -t: put timestamps before each input line logged (these are put in
+          comments).
+
+**%logstate**::
+
+	Print the status of the logging system.
+
+**%logstop**::
+
+	Fully stop logging and close log file.
+
+        In order to start logging again, a new %logstart call needs to be made,
+        possibly (though not necessarily) with a new filename, mode and other
+        options.
+
+**%lsmagic**::
+
+	List currently available magic functions.
+
+**%macro**::
+
+	Define a set of input lines as a macro for future re-execution.
+
+        Usage:\
+          %macro [options] name n1-n2 n3-n4 ... n5 .. n6 ...
+
+        Options:
+        
+          -r: use 'raw' input.  By default, the 'processed' history is used,
+          so that magics are loaded in their transformed version to valid
+          Python.  If this option is given, the raw input as typed as the
+          command line is used instead.
+
+        This will define a global variable called `name` which is a string
+        made of joining the slices and lines you specify (n1,n2,... numbers
+        above) from your input history into a single string. This variable
+        acts like an automatic function which re-executes those lines as if
+        you had typed them. You just type 'name' at the prompt and the code
+        executes.
+
+        The notation for indicating number ranges is: n1-n2 means 'use line
+        numbers n1,...n2' (the endpoint is included).  That is, '5-7' means
+        using the lines numbered 5,6 and 7.
+
+        Note: as a 'hidden' feature, you can also use traditional python slice
+        notation, where N:M means numbers N through M-1.
+
+        For example, if your history contains (%hist prints it):
+        
+          44: x=1\
+          45: y=3\
+          46: z=x+y\
+          47: print x\
+          48: a=5\
+          49: print 'x',x,'y',y\
+
+        you can create a macro with lines 44 through 47 (included) and line 49
+        called my_macro with:
+
+          In [51]: %macro my_macro 44-47 49
+
+        Now, typing `my_macro` (without quotes) will re-execute all this code
+        in one pass.
+
+        You don't need to give the line-numbers in order, and any given line
+        number can appear multiple times. You can assemble macros with any
+        lines from your input history in any order.
+
+        The macro is a simple object which holds its value in an attribute,
+        but IPython's display system checks for macros and executes them as
+        code instead of printing them when you type their name.
+
+        You can view a macro's contents by explicitly printing it with:
+        
+          'print macro_name'.
+
+        For one-off cases which DON'T contain magic function calls in them you
+        can obtain similar results by explicitly executing slices from your
+        input history with:
+
+          In [60]: exec In[44:48]+In[49]
+
+**%magic**::
 
+	Print information about the magic function system.
+
+**%mglob**::
+
+	    This program allows specifying filenames with "mglob" mechanism.
+    Supported syntax in globs (wilcard matching patterns)::
+    
+     *.cpp ?ellowo*                
+         - obvious. Differs from normal glob in that dirs are not included.
+           Unix users might want to write this as: "*.cpp" "?ellowo*"
+     rec:/usr/share=*.txt,*.doc    
+         - get all *.txt and *.doc under /usr/share, 
+           recursively
+     rec:/usr/share
+         - All files under /usr/share, recursively
+     rec:*.py
+         - All .py files under current working dir, recursively
+     foo                           
+         - File or dir foo
+     !*.bak readme*                   
+         - readme*, exclude files ending with .bak
+     !.svn/ !.hg/ !*_Data/ rec:.
+         - Skip .svn, .hg, foo_Data dirs (and their subdirs) in recurse.
+           Trailing / is the key, \ does not work!
+     dir:foo                       
+         - the directory foo if it exists (not files in foo)
+     dir:*                         
+         - all directories in current folder
+     foo.py bar.* !h* rec:*.py
+         - Obvious. !h* exclusion only applies for rec:*.py.
+           foo.py is *not* included twice.
+     @filelist.txt
+         - All files listed in 'filelist.txt' file, on separate lines.
+
+**%page**::
+
+	Pretty print the object and display it through a pager.
+        
+        %page [options] OBJECT
+
+        If no object is given, use _ (last output).
+        
+        Options:
+
+          -r: page str(object), don't pretty-print it.
+
+**%pdb**::
+
+	Control the automatic calling of the pdb interactive debugger.
+
+        Call as '%pdb on', '%pdb 1', '%pdb off' or '%pdb 0'. If called without
+        argument it works as a toggle.
+
+        When an exception is triggered, IPython can optionally call the
+        interactive pdb debugger after the traceback printout. %pdb toggles
+        this feature on and off.
+
+        The initial state of this feature is set in your ipythonrc
+        configuration file (the variable is called 'pdb').
+
+        If you want to just activate the debugger AFTER an exception has fired,
+        without having to type '%pdb on' and rerunning your code, you can use
+        the %debug magic.
+
+**%pdef**::
+
+	Print the definition header for any callable object.
+
+        If the object is a class, print the constructor information.
+
+**%pdoc**::
+
+	Print the docstring for an object.
+
+        If the given object is a class, it will print both the class and the
+        constructor docstrings.
+
+**%pfile**::
+
+	Print (or run through pager) the file where an object is defined.
+
+        The file opens at the line where the object definition begins. IPython
+        will honor the environment variable PAGER if set, and otherwise will
+        do its best to print the file in a convenient form.
+
+        If the given argument is not an object currently defined, IPython will
+        try to interpret it as a filename (automatically adding a .py extension
+        if needed). You can thus use %pfile as a syntax highlighting code
+        viewer.
+
+**%pinfo**::
+
+	Provide detailed information about an object.
+    
+        '%pinfo object' is just a synonym for object? or ?object.
+
+**%popd**::
+
+	Change to directory popped off the top of the stack.
+
+**%profile**::
+
+	Print your currently active IPyhton profile.
+
+**%prun**::
+
+	Run a statement through the python code profiler.
+
+        Usage:\
+          %prun [options] statement
+
+        The given statement (which doesn't require quote marks) is run via the
+        python profiler in a manner similar to the profile.run() function.
+        Namespaces are internally managed to work correctly; profile.run
+        cannot be used in IPython because it makes certain assumptions about
+        namespaces which do not hold under IPython.
+
+        Options:
+
+        -l <limit>: you can place restrictions on what or how much of the
+        profile gets printed. The limit value can be:
+
+          * A string: only information for function names containing this string
+          is printed.
+
+          * An integer: only these many lines are printed.
+
+          * A float (between 0 and 1): this fraction of the report is printed
+          (for example, use a limit of 0.4 to see the topmost 40% only).
+
+        You can combine several limits with repeated use of the option. For
+        example, '-l __init__ -l 5' will print only the topmost 5 lines of
+        information about class constructors.
+
+        -r: return the pstats.Stats object generated by the profiling. This
+        object has all the information about the profile in it, and you can
+        later use it for further analysis or in other functions.
+
+       -s <key>: sort profile by given key. You can provide more than one key
+        by using the option several times: '-s key1 -s key2 -s key3...'. The
+        default sorting key is 'time'.
+
+        The following is copied verbatim from the profile documentation
+        referenced below:
+
+        When more than one key is provided, additional keys are used as
+        secondary criteria when the there is equality in all keys selected
+        before them.
+        
+        Abbreviations can be used for any key names, as long as the
+        abbreviation is unambiguous.  The following are the keys currently
+        defined:
+
+                Valid Arg       Meaning\
+                  "calls"      call count\
+                  "cumulative" cumulative time\
+                  "file"       file name\
+                  "module"     file name\
+                  "pcalls"     primitive call count\
+                  "line"       line number\
+                  "name"       function name\
+                  "nfl"        name/file/line\
+                  "stdname"    standard name\
+                  "time"       internal time
+
+        Note that all sorts on statistics are in descending order (placing
+        most time consuming items first), where as name, file, and line number
+        searches are in ascending order (i.e., alphabetical). The subtle
+        distinction between "nfl" and "stdname" is that the standard name is a
+        sort of the name as printed, which means that the embedded line
+        numbers get compared in an odd way.  For example, lines 3, 20, and 40
+        would (if the file names were the same) appear in the string order
+        "20" "3" and "40".  In contrast, "nfl" does a numeric compare of the
+        line numbers.  In fact, sort_stats("nfl") is the same as
+        sort_stats("name", "file", "line").
+
+        -T <filename>: save profile results as shown on screen to a text
+        file. The profile is still shown on screen.
+
+        -D <filename>: save (via dump_stats) profile statistics to given
+        filename. This data is in a format understod by the pstats module, and
+        is generated by a call to the dump_stats() method of profile
+        objects. The profile is still shown on screen.
+
+        If you want to run complete programs under the profiler's control, use
+        '%run -p [prof_opts] filename.py [args to program]' where prof_opts
+        contains profiler specific options as described here.
+        
+        You can read the complete documentation for the profile module with:\
+          In [1]: import profile; profile.help()
+
+**%psearch**::
+
+	Search for object in namespaces by wildcard.
+
+        %psearch [options] PATTERN [OBJECT TYPE]
+
+        Note: ? can be used as a synonym for %psearch, at the beginning or at
+        the end: both a*? and ?a* are equivalent to '%psearch a*'.  Still, the
+        rest of the command line must be unchanged (options come first), so
+        for example the following forms are equivalent
+
+        %psearch -i a* function
+        -i a* function?
+        ?-i a* function
+
+        Arguments:
+        
+          PATTERN
+
+          where PATTERN is a string containing * as a wildcard similar to its
+          use in a shell.  The pattern is matched in all namespaces on the
+          search path. By default objects starting with a single _ are not
+          matched, many IPython generated objects have a single
+          underscore. The default is case insensitive matching. Matching is
+          also done on the attributes of objects and not only on the objects
+          in a module.
+
+          [OBJECT TYPE]
+
+          Is the name of a python type from the types module. The name is
+          given in lowercase without the ending type, ex. StringType is
+          written string. By adding a type here only objects matching the
+          given type are matched. Using all here makes the pattern match all
+          types (this is the default).
+
+        Options:
+
+          -a: makes the pattern match even objects whose names start with a
+          single underscore.  These names are normally ommitted from the
+          search.
+
+          -i/-c: make the pattern case insensitive/sensitive.  If neither of
+          these options is given, the default is read from your ipythonrc
+          file.  The option name which sets this value is
+          'wildcards_case_sensitive'.  If this option is not specified in your
+          ipythonrc file, IPython's internal default is to do a case sensitive
+          search.
+
+          -e/-s NAMESPACE: exclude/search a given namespace.  The pattern you
+          specifiy can be searched in any of the following namespaces:
+          'builtin', 'user', 'user_global','internal', 'alias', where
+          'builtin' and 'user' are the search defaults.  Note that you should
+          not use quotes when specifying namespaces.
+
+          'Builtin' contains the python module builtin, 'user' contains all
+          user data, 'alias' only contain the shell aliases and no python
+          objects, 'internal' contains objects used by IPython.  The
+          'user_global' namespace is only used by embedded IPython instances,
+          and it contains module-level globals.  You can add namespaces to the
+          search with -s or exclude them with -e (these options can be given
+          more than once).
+    
+        Examples:
+       
+        %psearch a*            -> objects beginning with an a
+        %psearch -e builtin a* -> objects NOT in the builtin space starting in a
+        %psearch a* function   -> all functions beginning with an a
+        %psearch re.e*         -> objects beginning with an e in module re
+        %psearch r*.e*         -> objects that start with e in modules starting in r
+        %psearch r*.* string   -> all strings in modules beginning with r
+
+        Case sensitve search:
+       
+        %psearch -c a*         list all object beginning with lower case a
+
+        Show objects beginning with a single _:
+       
+        %psearch -a _*         list objects beginning with a single underscore
+
+**%psource**::
+
+	Print (or run through pager) the source code for an object.
+
+**%pushd**::
+
+	Place the current dir on stack and change directory.
+        
+        Usage:\
+          %pushd ['dirname']
+
+**%pwd**::
+
+	Return the current working directory path.
+
+**%pycat**::
+
+	Show a syntax-highlighted file through a pager.
+
+        This magic is similar to the cat utility, but it will assume the file
+        to be Python source and will show it with syntax highlighting.
+
+**%quickref**::
+
+	 Show a quick reference sheet
+
+**%quit**::
+
+	Exit IPython, confirming if configured to do so (like %exit)
+
+**%r**::
+
+	Repeat previous input.
+
+        Note: Consider using the more powerfull %rep instead!
+        
+        If given an argument, repeats the previous command which starts with
+        the same string, otherwise it just repeats the previous input.
+
+        Shell escaped commands (with ! as first character) are not recognized
+        by this system, only pure python code and magic commands.
+
+**%rehashdir**::
+
+	 Add executables in all specified dirs to alias table
+     
+    Usage:
+
+    %rehashdir c:/bin;c:/tools
+      - Add all executables under c:/bin and c:/tools to alias table, in 
+      order to make them directly executable from any directory.
+        
+      Without arguments, add all executables in current directory.
+
+**%rehashx**::
+
+	Update the alias table with all executable files in $PATH.
+
+        This version explicitly checks that every entry in $PATH is a file
+        with execute access (os.X_OK), so it is much slower than %rehash.
+
+        Under Windows, it checks executability as a match agains a
+        '|'-separated string of extensions, stored in the IPython config
+        variable win_exec_ext.  This defaults to 'exe|com|bat'.
+        
+        This function also resets the root module cache of module completer,
+        used on slow filesystems.
+
+**%rep**::
+
+	 Repeat a command, or get command to input line for editing
+
+    - %rep (no arguments):
+    
+    Place a string version of last computation result (stored in the special '_'
+    variable) to the next input prompt. Allows you to create elaborate command
+    lines without using copy-paste::
+    
+        $ l = ["hei", "vaan"]       
+        $ "".join(l)        
+        ==> heivaan        
+        $ %rep        
+        $ heivaan_ <== cursor blinking    
+    
+    %rep 45
+    
+    Place history line 45 to next input prompt. Use %hist to find out the
+    number.
+    
+    %rep 1-4 6-7 3
+    
+    Repeat the specified lines immediately. Input slice syntax is the same as
+    in %macro and %save.
+    
+    %rep foo
+    
+    Place the most recent line that has the substring "foo" to next input.
+    (e.g. 'svn ci -m foobar').
+
+**%reset**::
+
+	Resets the namespace by removing all names defined by the user.
+
+        Input/Output history are left around in case you need them.
+
+**%run**::
+
+	Run the named file inside IPython as a program.
+
+        Usage:\
+          %run [-n -i -t [-N<N>] -d [-b<N>] -p [profile options]] file [args]
+        
+        Parameters after the filename are passed as command-line arguments to
+        the program (put in sys.argv). Then, control returns to IPython's
+        prompt.
+
+        This is similar to running at a system prompt:\
+          $ python file args\
+        but with the advantage of giving you IPython's tracebacks, and of
+        loading all variables into your interactive namespace for further use
+        (unless -p is used, see below).
+
+        The file is executed in a namespace initially consisting only of
+        __name__=='__main__' and sys.argv constructed as indicated. It thus
+        sees its environment as if it were being run as a stand-alone program
+        (except for sharing global objects such as previously imported
+        modules). But after execution, the IPython interactive namespace gets
+        updated with all variables defined in the program (except for __name__
+        and sys.argv). This allows for very convenient loading of code for
+        interactive work, while giving each program a 'clean sheet' to run in.
+
+        Options:
+        
+        -n: __name__ is NOT set to '__main__', but to the running file's name
+        without extension (as python does under import).  This allows running
+        scripts and reloading the definitions in them without calling code
+        protected by an ' if __name__ == "__main__" ' clause.
+
+        -i: run the file in IPython's namespace instead of an empty one. This
+        is useful if you are experimenting with code written in a text editor
+        which depends on variables defined interactively.
+
+        -e: ignore sys.exit() calls or SystemExit exceptions in the script
+        being run.  This is particularly useful if IPython is being used to
+        run unittests, which always exit with a sys.exit() call.  In such
+        cases you are interested in the output of the test results, not in
+        seeing a traceback of the unittest module.
+
+        -t: print timing information at the end of the run.  IPython will give
+        you an estimated CPU time consumption for your script, which under
+        Unix uses the resource module to avoid the wraparound problems of
+        time.clock().  Under Unix, an estimate of time spent on system tasks
+        is also given (for Windows platforms this is reported as 0.0).
+
+        If -t is given, an additional -N<N> option can be given, where <N>
+        must be an integer indicating how many times you want the script to
+        run.  The final timing report will include total and per run results.
+
+        For example (testing the script uniq_stable.py):
+
+            In [1]: run -t uniq_stable
+
+            IPython CPU timings (estimated):\
+              User  :    0.19597 s.\
+              System:        0.0 s.\
+
+            In [2]: run -t -N5 uniq_stable
+
+            IPython CPU timings (estimated):\
+            Total runs performed: 5\
+              Times :      Total       Per run\
+              User  :   0.910862 s,  0.1821724 s.\
+              System:        0.0 s,        0.0 s.
+
+        -d: run your program under the control of pdb, the Python debugger.
+        This allows you to execute your program step by step, watch variables,
+        etc.  Internally, what IPython does is similar to calling:
+        
+          pdb.run('execfile("YOURFILENAME")')
+
+        with a breakpoint set on line 1 of your file.  You can change the line
+        number for this automatic breakpoint to be <N> by using the -bN option
+        (where N must be an integer).  For example:
+
+          %run -d -b40 myscript
+
+        will set the first breakpoint at line 40 in myscript.py.  Note that
+        the first breakpoint must be set on a line which actually does
+        something (not a comment or docstring) for it to stop execution.
+
+        When the pdb debugger starts, you will see a (Pdb) prompt.  You must
+        first enter 'c' (without qoutes) to start execution up to the first
+        breakpoint.
+
+        Entering 'help' gives information about the use of the debugger.  You
+        can easily see pdb's full documentation with "import pdb;pdb.help()"
+        at a prompt.
+
+        -p: run program under the control of the Python profiler module (which
+        prints a detailed report of execution times, function calls, etc).
+
+        You can pass other options after -p which affect the behavior of the
+        profiler itself. See the docs for %prun for details.
+
+        In this mode, the program's variables do NOT propagate back to the
+        IPython interactive namespace (because they remain in the namespace
+        where the profiler executes them).
+
+        Internally this triggers a call to %prun, see its documentation for
+        details on the options available specifically for profiling.
+
+        There is one special usage for which the text above doesn't apply:
+        if the filename ends with .ipy, the file is run as ipython script,
+        just as if the commands were written on IPython prompt.
+
+**%runlog**::
+
+	Run files as logs.
+
+        Usage:\
+          %runlog file1 file2 ...
+
+        Run the named files (treating them as log files) in sequence inside
+        the interpreter, and return to the prompt.  This is much slower than
+        %run because each line is executed in a try/except block, but it
+        allows running files with syntax errors in them.
+
+        Normally IPython will guess when a file is one of its own logfiles, so
+        you can typically use %run even for logs. This shorthand allows you to
+        force any file to be treated as a log file.
+
+**%save**::
+
+	Save a set of lines to a given filename.
+
+        Usage:\
+          %save [options] filename n1-n2 n3-n4 ... n5 .. n6 ...
+
+        Options:
+        
+          -r: use 'raw' input.  By default, the 'processed' history is used,
+          so that magics are loaded in their transformed version to valid
+          Python.  If this option is given, the raw input as typed as the
+          command line is used instead.
+
+        This function uses the same syntax as %macro for line extraction, but
+        instead of creating a macro it saves the resulting string to the
+        filename you specify.
+
+        It adds a '.py' extension to the file if you don't do so yourself, and
+        it asks for confirmation before overwriting existing files.
+
+**%sc**::
+
+	Shell capture - execute a shell command and capture its output.
+
+        DEPRECATED. Suboptimal, retained for backwards compatibility.
+        
+        You should use the form 'var = !command' instead. Example:
+         
+         "%sc -l myfiles = ls ~" should now be written as
+            
+         "myfiles = !ls ~"
+         
+        myfiles.s, myfiles.l and myfiles.n still apply as documented
+        below.
+
+        --
+        %sc [options] varname=command
+
+        IPython will run the given command using commands.getoutput(), and
+        will then update the user's interactive namespace with a variable
+        called varname, containing the value of the call.  Your command can
+        contain shell wildcards, pipes, etc.
+
+        The '=' sign in the syntax is mandatory, and the variable name you
+        supply must follow Python's standard conventions for valid names.
+        
+        (A special format without variable name exists for internal use)
+
+        Options:
+
+          -l: list output.  Split the output on newlines into a list before
+          assigning it to the given variable.  By default the output is stored
+          as a single string.
+
+          -v: verbose.  Print the contents of the variable.
+
+        In most cases you should not need to split as a list, because the
+        returned value is a special type of string which can automatically
+        provide its contents either as a list (split on newlines) or as a
+        space-separated string.  These are convenient, respectively, either
+        for sequential processing or to be passed to a shell command.
+
+        For example:
+
+            # Capture into variable a
+            In [9]: sc a=ls *py
+
+            # a is a string with embedded newlines
+            In [10]: a
+            Out[10]: 'setup.py win32_manual_post_install.py'
+
+            # which can be seen as a list:
+            In [11]: a.l
+            Out[11]: ['setup.py', 'win32_manual_post_install.py']
+
+            # or as a whitespace-separated string:
+            In [12]: a.s
+            Out[12]: 'setup.py win32_manual_post_install.py'
+
+            # a.s is useful to pass as a single command line:
+            In [13]: !wc -l $a.s
+              146 setup.py
+              130 win32_manual_post_install.py
+              276 total
+
+            # while the list form is useful to loop over:
+            In [14]: for f in a.l:
+               ....:      !wc -l $f
+               ....:
+            146 setup.py
+            130 win32_manual_post_install.py
+
+        Similiarly, the lists returned by the -l option are also special, in
+        the sense that you can equally invoke the .s attribute on them to
+        automatically get a whitespace-separated string from their contents:
+
+            In [1]: sc -l b=ls *py
+
+            In [2]: b
+            Out[2]: ['setup.py', 'win32_manual_post_install.py']
+
+            In [3]: b.s
+            Out[3]: 'setup.py win32_manual_post_install.py'
+
+        In summary, both the lists and strings used for ouptut capture have
+        the following special attributes:
+
+            .l (or .list) : value as list.
+            .n (or .nlstr): value as newline-separated string.
+            .s (or .spstr): value as space-separated string.
+
+**%store**::
+
+	Lightweight persistence for python variables.
+
+    Example:
+    
+    ville@badger[~]|1> A = ['hello',10,'world']\
+    ville@badger[~]|2> %store A\
+    ville@badger[~]|3> Exit
+    
+    (IPython session is closed and started again...)
+    
+    ville@badger:~$ ipython -p pysh\
+    ville@badger[~]|1> print A
+    
+    ['hello', 10, 'world']
+    
+    Usage:
+    
+    %store          - Show list of all variables and their current values\
+    %store <var>    - Store the *current* value of the variable to disk\
+    %store -d <var> - Remove the variable and its value from storage\
+    %store -z       - Remove all variables from storage\
+    %store -r       - Refresh all variables from store (delete current vals)\
+    %store foo >a.txt  - Store value of foo to new file a.txt\
+    %store foo >>a.txt - Append value of foo to file a.txt\   
+    
+    It should be noted that if you change the value of a variable, you
+    need to %store it again if you want to persist the new value.
+    
+    Note also that the variables will need to be pickleable; most basic
+    python types can be safely %stored.
+    
+    Also aliases can be %store'd across sessions.
+
+**%sx**::
+
+	Shell execute - run a shell command and capture its output.
+
+        %sx command
+
+        IPython will run the given command using commands.getoutput(), and
+        return the result formatted as a list (split on '\n').  Since the
+        output is _returned_, it will be stored in ipython's regular output
+        cache Out[N] and in the '_N' automatic variables.
+
+        Notes:
+
+        1) If an input line begins with '!!', then %sx is automatically
+        invoked.  That is, while:
+          !ls
+        causes ipython to simply issue system('ls'), typing
+          !!ls
+        is a shorthand equivalent to:
+          %sx ls
+        
+        2) %sx differs from %sc in that %sx automatically splits into a list,
+        like '%sc -l'.  The reason for this is to make it as easy as possible
+        to process line-oriented shell output via further python commands.
+        %sc is meant to provide much finer control, but requires more
+        typing.
+
+        3) Just like %sc -l, this is a list with special attributes:
+
+          .l (or .list) : value as list.
+          .n (or .nlstr): value as newline-separated string.
+          .s (or .spstr): value as whitespace-separated string.
+
+        This is very useful when trying to use such lists as arguments to
+        system commands.
+
+**%system_verbose**::
+
+	Set verbose printing of system calls.
+
+        If called without an argument, act as a toggle
+
+**%time**::
+
+	Time execution of a Python statement or expression.
+
+        The CPU and wall clock times are printed, and the value of the
+        expression (if any) is returned.  Note that under Win32, system time
+        is always reported as 0, since it can not be measured.
+
+        This function provides very basic timing functionality.  In Python
+        2.3, the timeit module offers more control and sophistication, so this
+        could be rewritten to use it (patches welcome).
+        
+        Some examples:
+
+          In [1]: time 2**128
+          CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
+          Wall time: 0.00
+          Out[1]: 340282366920938463463374607431768211456L
+
+          In [2]: n = 1000000
+
+          In [3]: time sum(range(n))
+          CPU times: user 1.20 s, sys: 0.05 s, total: 1.25 s
+          Wall time: 1.37
+          Out[3]: 499999500000L
+
+          In [4]: time print 'hello world'
+          hello world
+          CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
+          Wall time: 0.00
+
+          Note that the time needed by Python to compile the given expression
+          will be reported if it is more than 0.1s.  In this example, the
+          actual exponentiation is done by Python at compilation time, so while
+          the expression can take a noticeable amount of time to compute, that
+          time is purely due to the compilation:
+
+          In [5]: time 3**9999;
+          CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
+          Wall time: 0.00 s
+
+          In [6]: time 3**999999;
+          CPU times: user 0.00 s, sys: 0.00 s, total: 0.00 s
+          Wall time: 0.00 s
+          Compiler : 0.78 s
+
+**%timeit**::
+
+	Time execution of a Python statement or expression
+
+        Usage:\
+          %timeit [-n<N> -r<R> [-t|-c]] statement
+
+        Time execution of a Python statement or expression using the timeit
+        module.
+
+        Options:
+        -n<N>: execute the given statement <N> times in a loop. If this value
+        is not given, a fitting value is chosen. 
+        
+        -r<R>: repeat the loop iteration <R> times and take the best result.
+        Default: 3
+        
+        -t: use time.time to measure the time, which is the default on Unix.
+        This function measures wall time.
+        
+        -c: use time.clock to measure the time, which is the default on
+        Windows and measures wall time. On Unix, resource.getrusage is used
+        instead and returns the CPU user time.
+
+        -p<P>: use a precision of <P> digits to display the timing result.
+        Default: 3
+
+        
+        Examples:\
+          In [1]: %timeit pass
+          10000000 loops, best of 3: 53.3 ns per loop
+
+          In [2]: u = None
+
+          In [3]: %timeit u is None
+          10000000 loops, best of 3: 184 ns per loop
+
+          In [4]: %timeit -r 4 u == None
+          1000000 loops, best of 4: 242 ns per loop
+
+          In [5]: import time
+
+          In [6]: %timeit -n1 time.sleep(2)
+          1 loops, best of 3: 2 s per loop
+          
+
+        The times reported by %timeit will be slightly higher than those
+        reported by the timeit.py script when variables are accessed. This is
+        due to the fact that %timeit executes the statement in the namespace
+        of the shell, compared with timeit.py, which uses a single setup
+        statement to import function or create variables. Generally, the bias
+        does not matter as long as results from timeit.py are not mixed with
+        those from %timeit.
+
+**%unalias**::
+
+	Remove an alias
+
+**%upgrade**::
+
+	 Upgrade your IPython installation
+        
+        This will copy the config files that don't yet exist in your 
+        ipython dir from the system config dir. Use this after upgrading 
+        IPython if you don't wish to delete your .ipython dir.
+
+        Call with -nolegacy to get rid of ipythonrc* files (recommended for
+        new users)
+
+**%which**::
+
+	 %which <cmd> => search PATH for files matching cmd. Also scans aliases.
+
+    Traverses PATH and prints all files (not just executables!) that match the
+    pattern on command line. Probably more useful in finding stuff
+    interactively than 'which', which only prints the first matching item.
+    
+    Also discovers and expands aliases, so you'll see what will be executed
+    when you call an alias.
+    
+    Example:
+    
+    [~]|62> %which d
+    d -> ls -F --color=auto
+      == c:\cygwin\bin\ls.exe
+    c:\cygwin\bin\d.exe
+    
+    [~]|64> %which diff*
+    diff3 -> diff3
+      == c:\cygwin\bin\diff3.exe
+    diff -> diff
+      == c:\cygwin\bin\diff.exe
+    c:\cygwin\bin\diff.exe
+    c:\cygwin\bin\diff3.exe
+
+**%who**::
+
+	Print all interactive variables, with some minimal formatting.
+
+        If any arguments are given, only variables whose type matches one of
+        these are printed.  For example:
+
+          %who function str
+
+        will only list functions and strings, excluding all other types of
+        variables.  To find the proper type names, simply use type(var) at a
+        command line to see how python prints type names.  For example:
+
+          In [1]: type('hello')\
+          Out[1]: <type 'str'>
+
+        indicates that the type name for strings is 'str'.
+
+        %who always excludes executed names loaded through your configuration
+        file and things which are internal to IPython.
+
+        This is deliberate, as typically you may load many modules and the
+        purpose of %who is to show you only what you've manually defined.
+
+**%who_ls**::
+
+	Return a sorted list of all interactive variables.
+
+        If arguments are given, only variables of types matching these
+        arguments are returned.
+
+**%whos**::
+
+	Like %who, but gives some extra information about each variable.
+
+        The same type filtering of %who can be applied here.
+
+        For all variables, the type is printed. Additionally it prints:
+        
+          - For {},[],(): their length.
+
+          - For numpy and Numeric arrays, a summary with shape, number of
+          elements, typecode and size in memory.
+
+          - Everything else: a string representation, snipping their middle if
+          too long.
+
+**%xmode**::
+
+	Switch modes for the exception handlers.
+
+        Valid modes: Plain, Context and Verbose.
+
+        If called without arguments, acts as a toggle.
+
+.. magic_end
 
 Access to the standard Python help
 ----------------------------------
 
 As of Python 2.1, a help system is available with access to object
 docstrings and the Python manuals. Simply type 'help' (no quotes) to
 access it. You can also type help(object) to obtain information about a
 given object, and help('keyword') for information on a keyword. As noted
-in sec. 3.1 <node3.html#sec:help-access>, you need to properly configure
+in sec. `accessing help`_, you need to properly configure
 your environment variable PYTHONDOCS for this feature to work correctly.
 
 
-
 Dynamic object information
 --------------------------
 
 Typing ?word or word? prints detailed information about an object. If
 certain strings in the object are too long (docstrings, code, etc.) they
 get snipped in the center for brevity. This system gives access variable
 types and values, full source code for any object (if available),
 function prototypes and other useful information.
 
 Typing ??word or word?? gives access to the full information without
 snipping long strings. Long strings are sent to the screen through the
 less pager if longer than the screen and printed otherwise. On systems
 lacking the less command, IPython uses a very basic internal pager.
 
 The following magic functions are particularly useful for gathering
 information about your working environment. You can get more details by
 typing %magic or querying them individually (use %function_name? with or
 without the %), this is just a summary:
 
-    * [%pdoc <object>:] Print (or run through a pager if too long) the
+    * **%pdoc <object>**: Print (or run through a pager if too long) the
       docstring for an object. If the given object is a class, it will
       print both the class and the constructor docstrings.
-    * [%pdef <object>:] Print the definition header for any callable
+    * **%pdef <object>**: Print the definition header for any callable
       object. If the object is a class, print the constructor information.
-    * [%psource <object>:] Print (or run through a pager if too long)
+    * **%psource <object>**: Print (or run through a pager if too long)
       the source code for an object.
-    * [%pfile <object>:] Show the entire source file where an object was
+    * **%pfile <object>**: Show the entire source file where an object was
       defined via a pager, opening it at the line where the object
       definition begins.
-    * [%who/%whos:] These functions give information about identifiers
+    * **%who/%whos**: These functions give information about identifiers
       you have defined interactively (not things you loaded or defined
       in your configuration files). %who just prints a list of
       identifiers and %whos prints a table with some basic details about
       each identifier.
 
 Note that the dynamic object information functions (?/??, %pdoc, %pfile,
 %pdef, %psource) give you access to documentation even on things which
 are not really defined as separate identifiers. Try for example typing
 {}.get? or after doing import os, type os.path.abspath??.
 
 
+.. _Readline:
 
 Readline-based features
 -----------------------
 
 These features require the GNU readline library, so they won't work if
 your Python installation lacks readline support. We will first describe
 the default behavior IPython uses, and then how to change it to suit
 your preferences.
 
 
 Command line completion
------------------------
++++++++++++++++++++++++
 
 At any time, hitting TAB will complete any available python commands or
 variable names, and show you a list of the possible completions if
 there's no unambiguous one. It will also complete filenames in the
 current directory if no python names match what you've typed so far.
 
 
 Search command history
-----------------------
+++++++++++++++++++++++
 
 IPython provides two ways for searching through previous input and thus
 reduce the need for repetitive typing:
 
    1. Start typing, and then use Ctrl-p (previous,up) and Ctrl-n
       (next,down) to search through only the history items that match
       what you've typed so far. If you use Ctrl-p/Ctrl-n at a blank
       prompt, they just behave like normal arrow keys.
    2. Hit Ctrl-r: opens a search prompt. Begin typing and the system
       searches your history for lines that contain what you've typed so
       far, completing as much as it can.
 
 
 Persistent command history across sessions
-------------------------------------------
+++++++++++++++++++++++++++++++++++++++++++
 
 IPython will save your input history when it leaves and reload it next
 time you restart it. By default, the history file is named
 $IPYTHONDIR/history, but if you've loaded a named profile,
 '-PROFILE_NAME' is appended to the name. This allows you to keep
 separate histories related to various tasks: commands related to
 numerical work will not be clobbered by a system shell history, for
 example.
 
 
 Autoindent
-----------
+++++++++++
 
 IPython can recognize lines ending in ':' and indent the next line,
 while also un-indenting automatically after 'raise' or 'return'.
 
 This feature uses the readline library, so it will honor your ~/.inputrc
 configuration (or whatever file your INPUTRC variable points to). Adding
 the following lines to your .inputrc file can make indenting/unindenting
 more convenient (M-i indents, M-u unindents)::
 
     $if Python 
     "\M-i": "    "  
     "\M-u": "\d\d\d\d"  
     $endif
 
 Note that there are 4 spaces between the quote marks after "M-i" above.
 
 Warning: this feature is ON by default, but it can cause problems with
 the pasting of multi-line indented code (the pasted code gets
 re-indented on each line). A magic function %autoindent allows you to
 toggle it on/off at runtime. You can also disable it permanently on in
 your ipythonrc file (set autoindent 0).
 
 
 Customizing readline behavior
------------------------------
++++++++++++++++++++++++++++++
 
 All these features are based on the GNU readline library, which has an
 extremely customizable interface. Normally, readline is configured via a
 file which defines the behavior of the library; the details of the
 syntax for this can be found in the readline documentation available
 with your system or on the Internet. IPython doesn't read this file (if
 it exists) directly, but it does support passing to readline valid
 options via a simple interface. In brief, you can customize readline by
 setting the following options in your ipythonrc configuration file (note
 that these options can not be specified at the command line):
 
-    * [readline_parse_and_bind:] this option can appear as many times as
+    * **readline_parse_and_bind**: this option can appear as many times as
       you want, each time defining a string to be executed via a
       readline.parse_and_bind() command. The syntax for valid commands
       of this kind can be found by reading the documentation for the GNU
       readline library, as these commands are of the kind which readline
       accepts in its configuration file.
-    * [readline_remove_delims:] a string of characters to be removed
+    * **readline_remove_delims**: a string of characters to be removed
       from the default word-delimiters list used by readline, so that
       completions may be performed on strings which contain them. Do not
       change the default value unless you know what you're doing.
-    * [readline_omit__names:] when tab-completion is enabled, hitting
+    * **readline_omit__names**: when tab-completion is enabled, hitting
       <tab> after a '.' in a name will complete all attributes of an
       object, including all the special methods whose names include
       double underscores (like __getitem__ or __class__). If you'd
       rather not see these names by default, you can set this option to
       1. Note that even when this option is set, you can still see those
       names by explicitly typing a _ after the period and hitting <tab>:
       'name._<tab>' will always complete attribute names starting with '_'.
-    * [ ] This option is off by default so that new users see all
+      
+      This option is off by default so that new users see all
       attributes of any objects they are dealing with.
 
 You will find the default values along with a corresponding detailed
 explanation in your ipythonrc file.
 
 
 Session logging and restoring
 -----------------------------
 
-You can log all input from a session either by starting IPython with the
-command line switches -log or -logfile (see sec. 5.2
-<node5.html#sec:cmd-line-opts>)or by activating the logging at any
-moment with the magic function %logstart.
+You can log all input from a session either by starting IPython with
+the command line switches -log or -logfile (see sec. `command line
+options`_) or by activating the logging at any moment with the magic
+function %logstart.
 
 Log files can later be reloaded with the -logplay option and IPython
 will attempt to 'replay' the log by executing all the lines in it, thus
 restoring the state of a previous session. This feature is not quite
 perfect, but can still be useful in many cases.
 
 The log files can also be used as a way to have a permanent record of
 any code you wrote while experimenting. Log files are regular text files
 which you can later open in your favorite text editor to extract code or
 to 'clean them up' before using them to replay a session.
 
 The %logstart function for activating logging in mid-session is used as
 follows:
 
 %logstart [log_name [log_mode]]
 
 If no name is given, it defaults to a file named 'log' in your
 IPYTHONDIR directory, in 'rotate' mode (see below).
 
 '%logstart name' saves to file 'name' in 'backup' mode. It saves your
 history up to that point and then continues logging.
 
 %logstart takes a second optional parameter: logging mode. This can be
 one of (note that the modes are given unquoted):
 
     * [over:] overwrite existing log_name.
     * [backup:] rename (if exists) to log_name~ and start log_name.
     * [append:] well, that says it.
     * [rotate:] create rotating logs log_name.1~, log_name.2~, etc.
 
 The %logoff and %logon functions allow you to temporarily stop and
 resume logging to a file which had previously been started with
 %logstart. They will fail (with an explanation) if you try to use them
 before logging has been started.
 
-
-
 System shell access
 -------------------
 
 Any input line beginning with a ! character is passed verbatim (minus
 the !, of course) to the underlying operating system. For example,
 typing !ls will run 'ls' in the current directory.
 
 Manual capture of command output
 --------------------------------
 
 If the input line begins with two exclamation marks, !!, the command is
 executed but its output is captured and returned as a python list, split
 on newlines. Any output sent by the subprocess to standard error is
 printed separately, so that the resulting list only captures standard
 output. The !! syntax is a shorthand for the %sx magic command.
 
 Finally, the %sc magic (short for 'shell capture') is similar to %sx,
 but allowing more fine-grained control of the capture details, and
 storing the result directly into a named variable. The direct use of 
 %sc is now deprecated, and you should ise the ``var = !cmd`` syntax
 instead.
 
 IPython also allows you to expand the value of python variables when
 making system calls. Any python variable or expression which you prepend
 with $ will get expanded before the system call is made::
 
     In [1]: pyvar='Hello world' 
     In [2]: !echo "A python variable: $pyvar"  
     A python variable: Hello world
 
 If you want the shell to actually see a literal $, you need to type it
 twice::
 
     In [3]: !echo "A system variable: $$HOME"  
     A system variable: /home/fperez
 
 You can pass arbitrary expressions, though you'll need to delimit them
 with {} if there is ambiguity as to the extent of the expression::
 
     In [5]: x=10 
     In [6]: y=20 
     In [13]: !echo $x+y  
     10+y  
     In [7]: !echo ${x+y}  
     30
 
 Even object attributes can be expanded::
 
     In [12]: !echo $sys.argv  
     [/home/fperez/usr/bin/ipython]
 
 
 System command aliases
 ----------------------
 
 The %alias magic function and the alias option in the ipythonrc
 configuration file allow you to define magic functions which are in fact
 system shell commands. These aliases can have parameters.
 
 '%alias alias_name cmd' defines 'alias_name' as an alias for 'cmd'
 
 Then, typing '%alias_name params' will execute the system command 'cmd
 params' (from your underlying operating system).
 
 You can also define aliases with parameters using %s specifiers (one per
 parameter). The following example defines the %parts function as an
 alias to the command 'echo first %s second %s' where each %s will be
 replaced by a positional parameter to the call to %parts::
 
     In [1]: alias parts echo first %s second %s 
     In [2]: %parts A B 
     first A second B  
     In [3]: %parts A  
     Incorrect number of arguments: 2 expected.  
     parts is an alias to: 'echo first %s second %s'
 
 If called with no parameters, %alias prints the table of currently
 defined aliases.
 
 The %rehash/rehashx magics allow you to load your entire $PATH as
 ipython aliases. See their respective docstrings (or sec. 6.2
 <#sec:magic> for further details).
 
 
+.. _dreload:
 
 Recursive reload
 ----------------
 
 The dreload function does a recursive reload of a module: changes made
 to the module since you imported will actually be available without
 having to exit.
 
 
 Verbose and colored exception traceback printouts
 -------------------------------------------------
 
 IPython provides the option to see very detailed exception tracebacks,
 which can be especially useful when debugging large programs. You can
 run any Python file with the %run function to benefit from these
 detailed tracebacks. Furthermore, both normal and verbose tracebacks can
 be colored (if your terminal supports it) which makes them much easier
 to parse visually.
 
 See the magic xmode and colors functions for details (just type %magic).
 
 These features are basically a terminal version of Ka-Ping Yee's cgitb
 module, now part of the standard Python library.
 
 
+.. _Input caching:
 
 Input caching system
 --------------------
 
 IPython offers numbered prompts (In/Out) with input and output caching.
 All input is saved and can be retrieved as variables (besides the usual
 arrow key recall).
 
 The following GLOBAL variables always exist (so don't overwrite them!):
 _i: stores previous input. _ii: next previous. _iii: next-next previous.
 _ih : a list of all input _ih[n] is the input from line n and this list
 is aliased to the global variable In. If you overwrite In with a
 variable of your own, you can remake the assignment to the internal list
 with a simple 'In=_ih'.
 
 Additionally, global variables named _i<n> are dynamically created (<n>
 being the prompt counter), such that
 _i<n> == _ih[<n>] == In[<n>].
 
 For example, what you typed at prompt 14 is available as _i14, _ih[14]
 and In[14].
 
 This allows you to easily cut and paste multi line interactive prompts
 by printing them out: they print like a clean string, without prompt
 characters. You can also manipulate them like regular variables (they
 are strings), modify or exec them (typing 'exec _i9' will re-execute the
 contents of input prompt 9, 'exec In[9:14]+In[18]' will re-execute lines
 9 through 13 and line 18).
 
 You can also re-execute multiple lines of input easily by using the
 magic %macro function (which automates the process and allows
 re-execution without having to type 'exec' every time). The macro system
 also allows you to re-execute previous lines which include magic
 function calls (which require special processing). Type %macro? or see
 sec. 6.2 <#sec:magic> for more details on the macro system.
 
 A history function %hist allows you to see any part of your input
 history by printing a range of the _i variables.
 
+.. _Output caching:
+
 Output caching system
 ---------------------
 
 For output that is returned from actions, a system similar to the input
 cache exists but using _ instead of _i. Only actions that produce a
 result (NOT assignments, for example) are cached. If you are familiar
 with Mathematica, IPython's _ variables behave exactly like
 Mathematica's % variables.
 
 The following GLOBAL variables always exist (so don't overwrite them!):
 
     * [_] (a single underscore) : stores previous output, like Python's
       default interpreter.
     * [__] (two underscores): next previous.
     * [___] (three underscores): next-next previous.
 
 Additionally, global variables named _<n> are dynamically created (<n>
 being the prompt counter), such that the result of output <n> is always
 available as _<n> (don't use the angle brackets, just the number, e.g.
 _21).
 
 These global variables are all stored in a global dictionary (not a
 list, since it only has entries for lines which returned a result)
 available under the names _oh and Out (similar to _ih and In). So the
 output from line 12 can be obtained as _12, Out[12] or _oh[12]. If you
 accidentally overwrite the Out variable you can recover it by typing
 'Out=_oh' at the prompt.
 
 This system obviously can potentially put heavy memory demands on your
 system, since it prevents Python's garbage collector from removing any
 previously computed results. You can control how many results are kept
 in memory with the option (at the command line or in your ipythonrc
 file) cache_size. If you set it to 0, the whole system is completely
 disabled and the prompts revert to the classic '>>>' of normal Python.
 
 
 Directory history
 -----------------
 
 Your history of visited directories is kept in the global list _dh, and
 the magic %cd command can be used to go to any entry in that list. The
 %dhist command allows you to view this history. do ``cd -<TAB`` to
 conventiently view the directory history.
 
 
 Automatic parentheses and quotes
 --------------------------------
 
 These features were adapted from Nathan Gray's LazyPython. They are
 meant to allow less typing for common situations.
 
 
 Automatic parentheses
 ---------------------
 
 Callable objects (i.e. functions, methods, etc) can be invoked like this
 (notice the commas between the arguments)::
 
     >>> callable_ob arg1, arg2, arg3
 
 and the input will be translated to this::
 
     -> callable_ob(arg1, arg2, arg3)
 
 You can force automatic parentheses by using '/' as the first character
 of a line. For example::
 
     >>> /globals # becomes 'globals()'
 
 Note that the '/' MUST be the first character on the line! This won't work::
 
     >>> print /globals # syntax error
 
 In most cases the automatic algorithm should work, so you should rarely
 need to explicitly invoke /. One notable exception is if you are trying
 to call a function with a list of tuples as arguments (the parenthesis
 will confuse IPython)::
 
     In [1]: zip (1,2,3),(4,5,6) # won't work
 
 but this will work::
 
     In [2]: /zip (1,2,3),(4,5,6) 
     ---> zip ((1,2,3),(4,5,6))  
     Out[2]= [(1, 4), (2, 5), (3, 6)]
 
 IPython tells you that it has altered your command line by displaying
 the new command line preceded by ->. e.g.::
 
     In [18]: callable list 
     ----> callable (list)
 
 
 Automatic quoting
 -----------------
 
 You can force automatic quoting of a function's arguments by using ','
 or ';' as the first character of a line. For example::
 
     >>> ,my_function /home/me # becomes my_function("/home/me")
 
 If you use ';' instead, the whole argument is quoted as a single string
 (while ',' splits on whitespace)::
 
     >>> ,my_function a b c # becomes my_function("a","b","c")
 
     >>> ;my_function a b c # becomes my_function("a b c")
 
 Note that the ',' or ';' MUST be the first character on the line! This
 won't work::
 
     >>> x = ,my_function /home/me # syntax error
 
+.. customization:
+
 Customization
 =============
 
 There are 2 ways to configure IPython - the old way of using ipythonrc
 files (an INI-file like format), and the new way that involves editing
 your ipy_user_conf.py. Both configuration systems work at the same
 time, so you can set your options in both, but if you are hesitating
 about which alternative to choose, we recommend the ipy_user_conf.py
 approach, as it will give you more power and control in the long
 run. However, there are few options such as pylab_import_all that can
 only be specified in ipythonrc file or command line - the reason for
 this is that they are needed before IPython has been started up, and
 the IPApi object used in ipy_user_conf.py is not yet available at that
 time. A hybrid approach of specifying a few options in ipythonrc and
 doing the more advanced configuration in ipy_user_conf.py is also
 possible.
 
 The ipythonrc approach
 ----------------------
 
 As we've already mentioned, IPython reads a configuration file which can
 be specified at the command line (-rcfile) or which by default is
 assumed to be called ipythonrc. Such a file is looked for in the current
 directory where IPython is started and then in your IPYTHONDIR, which
 allows you to have local configuration files for specific projects. In
 this section we will call these types of configuration files simply
 rcfiles (short for resource configuration file).
 
 The syntax of an rcfile is one of key-value pairs separated by
 whitespace, one per line. Lines beginning with a # are ignored as
 comments, but comments can not be put on lines with data (the parser is
 fairly primitive). Note that these are not python files, and this is
 deliberate, because it allows us to do some things which would be quite
 tricky to implement if they were normal python files.
 
 First, an rcfile can contain permanent default values for almost all
-command line options (except things like -help or -Version). Sec 5.2
-<node5.html#sec:cmd-line-opts> contains a description of all
-command-line options. However, values you explicitly specify at the
-command line override the values defined in the rcfile.
+command line options (except things like -help or -Version). Sec
+`command line options`_ contains a description of all command-line
+options. However, values you explicitly specify at the command line
+override the values defined in the rcfile.
 
 Besides command line option values, the rcfile can specify values for
 certain extra special options which are not available at the command
 line. These options are briefly described below.
 
 Each of these options may appear as many times as you need it in the file.
 
-    * [include <file1> <file2> ...:] you can name other rcfiles you want
+    * include <file1> <file2> ...: you can name other rcfiles you want
       to recursively load up to 15 levels (don't use the <> brackets in
       your names!). This feature allows you to define a 'base' rcfile
       with general options and special-purpose files which can be loaded
       only when needed with particular configuration options. To make
       this more convenient, IPython accepts the -profile <name> option
       (abbreviates to -p <name>) which tells it to look for an rcfile
       named ipythonrc-<name>.
-    * [import_mod <mod1> <mod2> ...:] import modules with 'import
+    * import_mod <mod1> <mod2> ...: import modules with 'import
       <mod1>,<mod2>,...'
-    * [import_some <mod> <f1> <f2> ...:] import functions with 'from
+    * import_some <mod> <f1> <f2> ...: import functions with 'from
       <mod> import <f1>,<f2>,...'
-    * [import_all <mod1> <mod2> ...:] for each module listed import
+    * import_all <mod1> <mod2> ...: for each module listed import
       functions with ``from <mod> import *``.
-    * [execute <python code>:] give any single-line python code to be
+    * execute <python code>: give any single-line python code to be
       executed.
-    * [execfile <filename>:] execute the python file given with an
+    * execfile <filename>: execute the python file given with an
       'execfile(filename)' command. Username expansion is performed on
       the given names. So if you need any amount of extra fancy
       customization that won't fit in any of the above 'canned' options,
       you can just put it in a separate python file and execute it.
-    * [alias <alias_def>:] this is equivalent to calling
+    * alias <alias_def>: this is equivalent to calling
       '%alias <alias_def>' at the IPython command line. This way, from
       within IPython you can do common system tasks without having to
       exit it or use the ! escape. IPython isn't meant to be a shell
       replacement, but it is often very useful to be able to do things
       with files while testing code. This gives you the flexibility to
       have within IPython any aliases you may be used to under your
       normal system shell.
 
 
+.. _ipythonrc:
+
 Sample ipythonrc file
 ---------------------
 
 The default rcfile, called ipythonrc and supplied in your IPYTHONDIR
 directory contains lots of comments on all of these options. We
 reproduce it here for reference::
 
 
     # -*- Mode: Shell-Script -*-  Not really, but shows comments correctly
     # $Id: ipythonrc 2156 2007-03-19 02:32:19Z fperez $
 
     #***************************************************************************
     #
     # Configuration file for IPython -- ipythonrc format
     #
     # ===========================================================
     # Deprecation note: you should look into modifying ipy_user_conf.py (located 
     # in ~/.ipython or ~/_ipython, depending on your platform) instead, it's a 
     # more flexible and robust (and better supported!) configuration
     # method.
     # ===========================================================
     #
     # The format of this file is simply one of 'key value' lines.
     # Lines containing only whitespace at the beginning and then a # are ignored
     # as comments. But comments can NOT be put on lines with data.
 
     # The meaning and use of each key are explained below.
 
     #---------------------------------------------------------------------------
     # Section: included files
 
     # Put one or more *config* files (with the syntax of this file) you want to
     # include. For keys with a unique value the outermost file has precedence. For
     # keys with multiple values, they all get assembled into a list which then
     # gets loaded by IPython.
 
     # In this file, all lists of things should simply be space-separated.
 
     # This allows you to build hierarchies of files which recursively load
     # lower-level services. If this is your main ~/.ipython/ipythonrc file, you
     # should only keep here basic things you always want available. Then you can
     # include it in every other special-purpose config file you create.
     include 
 
     #---------------------------------------------------------------------------
     # Section: startup setup
 
     # These are mostly things which parallel a command line option of the same
     # name.
 
     # Keys in this section should only appear once. If any key from this section
     # is encountered more than once, the last value remains, all earlier ones get
     # discarded.
 
 
     # Automatic calling of callable objects.  If set to 1 or 2, callable objects
     # are automatically called when invoked at the command line, even if you don't
     # type parentheses.  IPython adds the parentheses for you.  For example:
 
     #In [1]: str 45
     #------> str(45)
     #Out[1]: '45'
 
     # IPython reprints your line with '---->' indicating that it added
     # parentheses.  While this option is very convenient for interactive use, it
     # may occasionally cause problems with objects which have side-effects if
     # called unexpectedly.
 
     # The valid values for autocall are:
 
     # autocall 0 -> disabled (you can toggle it at runtime with the %autocall magic)
 
     # autocall 1 -> active, but do not apply if there are no arguments on the line.
 
     # In this mode, you get:
 
     #In [1]: callable
     #Out[1]: <built-in function callable>
 
     #In [2]: callable 'hello'
     #------> callable('hello')
     #Out[2]: False
 
     # 2 -> Active always.  Even if no arguments are present, the callable object
     # is called:
 
     #In [4]: callable
     #------> callable()
 
     # Note that even with autocall off, you can still use '/' at the start of a
     # line to treat the first argument on the command line as a function and add
     # parentheses to it:
 
     #In [8]: /str 43
     #------> str(43)
     #Out[8]: '43'
 
     autocall 1
 
     # Auto-edit syntax errors.  When you use the %edit magic in ipython to edit
     # source code (see the 'editor' variable below), it is possible that you save
     # a file with syntax errors in it.  If this variable is true, IPython will ask
     # you whether to re-open the editor immediately to correct such an error.
 
     autoedit_syntax 0
 
     # Auto-indent. IPython can recognize lines ending in ':' and indent the next
     # line, while also un-indenting automatically after 'raise' or 'return'.  
 
     # This feature uses the readline library, so it will honor your ~/.inputrc
     # configuration (or whatever file your INPUTRC variable points to).  Adding
     # the following lines to your .inputrc file can make indent/unindenting more
     # convenient (M-i indents, M-u unindents):
 
     #  $if Python
     #  "\M-i": "    "
     #  "\M-u": "\d\d\d\d"
     #  $endif
 
     # The feature is potentially a bit dangerous, because it can cause problems
     # with pasting of indented code (the pasted code gets re-indented on each
     # line).  But it's a huge time-saver when working interactively.  The magic
     # function %autoindent allows you to toggle it on/off at runtime.
 
     autoindent 1
 
     # Auto-magic. This gives you access to all the magic functions without having
     # to prepend them with an % sign. If you define a variable with the same name
     # as a magic function (say who=1), you will need to access the magic function
     # with % (%who in this example). However, if later you delete your variable
     # (del who), you'll recover the automagic calling form.
 
     # Considering that many magic functions provide a lot of shell-like
     # functionality, automagic gives you something close to a full Python+system
     # shell environment (and you can extend it further if you want).
 
     automagic 1
 
     # Size of the output cache. After this many entries are stored, the cache will
     # get flushed. Depending on the size of your intermediate calculations, you
     # may have memory problems if you make it too big, since keeping things in the
     # cache prevents Python from reclaiming the memory for old results. Experiment
     # with a value that works well for you.
 
     # If you choose cache_size 0 IPython will revert to python's regular >>>
     # unnumbered prompt. You will still have _, __ and ___ for your last three
     # results, but that will be it.  No dynamic _1, _2, etc. will be created. If
     # you are running on a slow machine or with very limited memory, this may
     # help.
 
     cache_size 1000
 
     # Classic mode: Setting 'classic 1' you lose many of IPython niceties,
     # but that's your choice! Classic 1 -> same as IPython -classic.
     # Note that this is _not_ the normal python interpreter, it's simply
     # IPython emulating most of the classic interpreter's behavior.
     classic 0
 
     # colors - Coloring option for prompts and traceback printouts.
 
     # Currently available schemes: NoColor, Linux, LightBG.
 
     # This option allows coloring the prompts and traceback printouts. This
     # requires a terminal which can properly handle color escape sequences. If you
     # are having problems with this, use the NoColor scheme (uses no color escapes
     # at all).
 
     # The Linux option works well in linux console type environments: dark
     # background with light fonts.
 
     # LightBG is similar to Linux but swaps dark/light colors to be more readable
     # in light background terminals.
 
     # keep uncommented only the one you want:
     colors Linux
     #colors LightBG
     #colors NoColor
 
     ########################
     # Note to Windows users
     #
     # Color and readline support is avaialble to Windows users via Gary Bishop's
     # readline library.  You can find Gary's tools at
     # http://sourceforge.net/projects/uncpythontools.
     # Note that his readline module requires in turn the ctypes library, available
     # at http://starship.python.net/crew/theller/ctypes.
     ########################
 
     # color_info: IPython can display information about objects via a set of
     # functions, and optionally can use colors for this, syntax highlighting
     # source code and various other elements. This information is passed through a
     # pager (it defaults to 'less' if $PAGER is not set). 
 
     # If your pager has problems, try to setting it to properly handle escapes
     # (see the less manpage for detail), or disable this option.  The magic
     # function %color_info allows you to toggle this interactively for testing.
 
     color_info 1
 
     # confirm_exit: set to 1 if you want IPython to confirm when you try to exit
     # with an EOF (Control-d in Unix, Control-Z/Enter in Windows). Note that using
     # the magic functions %Exit or %Quit you can force a direct exit, bypassing
     # any confirmation.
 
     confirm_exit 1
 
     # Use deep_reload() as a substitute for reload() by default. deep_reload() is
     # still available as dreload() and appears as a builtin.
 
     deep_reload 0
 
     # Which editor to use with the %edit command. If you leave this at 0, IPython
     # will honor your EDITOR environment variable. Since this editor is invoked on
     # the fly by ipython and is meant for editing small code snippets, you may
     # want to use a small, lightweight editor here.
 
     # For Emacs users, setting up your Emacs server properly as described in the
     # manual is a good idea. An alternative is to use jed, a very light editor
     # with much of the feel of Emacs (though not as powerful for heavy-duty work).
 
     editor 0
 
     # log 1 -> same as ipython -log. This automatically logs to ./ipython.log
     log 0
 
     # Same as ipython -Logfile YourLogfileName. 
     # Don't use with log 1 (use one or the other)
     logfile ''
 
     # banner 0 -> same as ipython -nobanner
     banner 1
 
     # messages 0 -> same as ipython -nomessages
     messages 1
 
     # Automatically call the pdb debugger after every uncaught exception. If you
     # are used to debugging using pdb, this puts you automatically inside of it
     # after any call (either in IPython or in code called by it) which triggers an
     # exception which goes uncaught.
     pdb 0
 
     # Enable the pprint module for printing. pprint tends to give a more readable
     # display (than print) for complex nested data structures.
     pprint 1
 
     # Prompt strings
 
     # Most bash-like escapes can be used to customize IPython's prompts, as well as
     # a few additional ones which are IPython-specific.  All valid prompt escapes
     # are described in detail in the Customization section of the IPython HTML/PDF
     # manual.
 
     # Use \# to represent the current prompt number, and quote them to protect
     # spaces.
     prompt_in1 'In [\#]: '
 
     # \D is replaced by as many dots as there are digits in the
     # current value of \#.
     prompt_in2 '   .\D.: '
 
     prompt_out 'Out[\#]: '
 
     # Select whether to left-pad the output prompts to match the length of the
     # input ones.  This allows you for example to use a simple '>' as an output
     # prompt, and yet have the output line up with the input.  If set to false,
     # the output prompts will be unpadded (flush left).
     prompts_pad_left 1
 
     # Pylab support: when ipython is started with the -pylab switch, by default it
     # executes 'from matplotlib.pylab import *'.  Set this variable to false if you
     # want to disable this behavior.
 
     # For details on pylab, see the matplotlib website:
     # http://matplotlib.sf.net
     pylab_import_all 1
 
 
     # quick 1 -> same as ipython -quick
     quick 0
 
     # Use the readline library (1) or not (0). Most users will want this on, but
     # if you experience strange problems with line management (mainly when using
     # IPython inside Emacs buffers) you may try disabling it. Not having it on
     # prevents you from getting command history with the arrow keys, searching and
     # name completion using TAB.
 
     readline 1
 
     # Screen Length: number of lines of your screen. This is used to control
     # printing of very long strings. Strings longer than this number of lines will
     # be paged with the less command instead of directly printed.
 
     # The default value for this is 0, which means IPython will auto-detect your
     # screen size every time it needs to print. If for some reason this isn't
     # working well (it needs curses support), specify it yourself. Otherwise don't
     # change the default.
 
     screen_length 0
 
     # Prompt separators for input and output.
     # Use \n for newline explicitly, without quotes.
     # Use 0 (like at the cmd line) to turn off a given separator.
 
     # The structure of prompt printing is:
     # (SeparateIn)Input....
     # (SeparateOut)Output...
     # (SeparateOut2),   # that is, no newline is printed after Out2
     # By choosing these you can organize your output any way you want.
 
     separate_in \n
     separate_out 0
     separate_out2 0
 
     # 'nosep 1' is a shorthand for '-SeparateIn 0 -SeparateOut 0 -SeparateOut2 0'.
     # Simply removes all input/output separators, overriding the choices above.
     nosep 0
 
     # Wildcard searches - IPython has a system for searching names using
     # shell-like wildcards; type %psearch? for details.  This variables sets
     # whether by default such searches should be case sensitive or not.  You can
     # always override the default at the system command line or the IPython
     # prompt.
 
     wildcards_case_sensitive 1
 
     # Object information: at what level of detail to display the string form of an
     # object.  If set to 0, ipython will compute the string form of any object X,
     # by calling str(X), when X? is typed.  If set to 1, str(X) will only be
     # computed when X?? is given, and if set to 2 or higher, it will never be
     # computed (there is no X??? level of detail).  This is mostly of use to
     # people who frequently manipulate objects whose string representation is
     # extremely expensive to compute.
 
     object_info_string_level 0
 
     # xmode - Exception reporting mode. 
 
     # Valid modes: Plain, Context and Verbose.
 
     # Plain: similar to python's normal traceback printing.
 
     # Context: prints 5 lines of context source code around each line in the
     # traceback.
 
     # Verbose: similar to Context, but additionally prints the variables currently
     # visible where the exception happened (shortening their strings if too
     # long). This can potentially be very slow, if you happen to have a huge data
     # structure whose string representation is complex to compute. Your computer
     # may appear to freeze for a while with cpu usage at 100%. If this occurs, you
     # can cancel the traceback with Ctrl-C (maybe hitting it more than once).
 
     #xmode Plain
     xmode Context
     #xmode Verbose
 
     # multi_line_specials: if true, allow magics, aliases and shell escapes (via
     # !cmd) to be used in multi-line input (like for loops).  For example, if you
     # have this active, the following is valid in IPython:
     #
     #In [17]: for i in range(3):
     #   ....:     mkdir $i
     #   ....:     !touch $i/hello
     #   ....:     ls -l $i
 
     multi_line_specials 1
 
 
     # System calls: When IPython makes system calls (e.g. via special syntax like
     # !cmd or !!cmd, or magics like %sc or %sx), it can print the command it is
     # executing to standard output, prefixed by a header string.
 
     system_header "IPython system call: "
 
     system_verbose 1
 
     # wxversion: request a specific wxPython version (used for -wthread)
 
     # Set this to the value of wxPython you want to use, but note that this
     # feature requires you to have the wxversion Python module to work.  If you
     # don't have the wxversion module (try 'import wxversion' at the prompt to
     # check) or simply want to leave the system to pick up the default, leave this
     # variable at 0.
 
     wxversion 0
 
     #---------------------------------------------------------------------------
     # Section: Readline configuration (readline is not available for MS-Windows)
 
     # This is done via the following options:
 
     # (i) readline_parse_and_bind: this option can appear as many times as you
     # want, each time defining a string to be executed via a
     # readline.parse_and_bind() command. The syntax for valid commands of this
     # kind can be found by reading the documentation for the GNU readline library,
     # as these commands are of the kind which readline accepts in its
     # configuration file.
 
     # The TAB key can be used to complete names at the command line in one of two
     # ways: 'complete' and 'menu-complete'. The difference is that 'complete' only
     # completes as much as possible while 'menu-complete' cycles through all
     # possible completions. Leave the one you prefer uncommented.
 
     readline_parse_and_bind tab: complete
     #readline_parse_and_bind tab: menu-complete
 
     # This binds Control-l to printing the list of all possible completions when
     # there is more than one (what 'complete' does when hitting TAB twice, or at
     # the first TAB if show-all-if-ambiguous is on)
     readline_parse_and_bind "\C-l": possible-completions
 
     # This forces readline to automatically print the above list when tab
     # completion is set to 'complete'. You can still get this list manually by
     # using the key bound to 'possible-completions' (Control-l by default) or by
     # hitting TAB twice. Turning this on makes the printing happen at the first
     # TAB.
     readline_parse_and_bind set show-all-if-ambiguous on
 
     # If you have TAB set to complete names, you can rebind any key (Control-o by
     # default) to insert a true TAB character.
     readline_parse_and_bind "\C-o": tab-insert
 
     # These commands allow you to indent/unindent easily, with the 4-space
     # convention of the Python coding standards.  Since IPython's internal
     # auto-indent system also uses 4 spaces, you should not change the number of
     # spaces in the code below.
     readline_parse_and_bind "\M-i": "    "
     readline_parse_and_bind "\M-o": "\d\d\d\d"
     readline_parse_and_bind "\M-I": "\d\d\d\d"
 
     # Bindings for incremental searches in the history. These searches use the
     # string typed so far on the command line and search anything in the previous
     # input history containing them.
     readline_parse_and_bind "\C-r": reverse-search-history
     readline_parse_and_bind "\C-s": forward-search-history
 
     # Bindings for completing the current line in the history of previous
     # commands. This allows you to recall any previous command by typing its first
     # few letters and hitting Control-p, bypassing all intermediate commands which
     # may be in the history (much faster than hitting up-arrow 50 times!)
     readline_parse_and_bind "\C-p": history-search-backward
     readline_parse_and_bind "\C-n": history-search-forward
 
     # I also like to have the same functionality on the plain arrow keys. If you'd
     # rather have the arrows use all the history (and not just match what you've
     # typed so far), comment out or delete the next two lines.
     readline_parse_and_bind "\e[A": history-search-backward
     readline_parse_and_bind "\e[B": history-search-forward
 
     # These are typically on by default under *nix, but not win32.
     readline_parse_and_bind "\C-k": kill-line
     readline_parse_and_bind "\C-u": unix-line-discard
 
     # (ii) readline_remove_delims: a string of characters to be removed from the
     # default word-delimiters list used by readline, so that completions may be
     # performed on strings which contain them.
 
     readline_remove_delims -/~
 
     # (iii) readline_merge_completions: whether to merge the result of all
     # possible completions or not.  If true, IPython will complete filenames,
     # python names and aliases and return all possible completions.  If you set it
     # to false, each completer is used at a time, and only if it doesn't return
     # any completions is the next one used.
 
     # The default order is: [python_matches, file_matches, alias_matches]
 
     readline_merge_completions 1
 
     # (iv) readline_omit__names: normally hitting <tab> after a '.' in a name
     # will complete all attributes of an object, including all the special methods
     # whose names start with single or double underscores (like __getitem__ or
     # __class__).
 
     # This variable allows you to control this completion behavior:
 
     # readline_omit__names 1 -> completion will omit showing any names starting
     # with two __, but it will still show names starting with one _.
 
     # readline_omit__names 2 -> completion will omit all names beginning with one
     # _ (which obviously means filtering out the double __ ones).
 
     # Even when this option is set, you can still see those names by explicitly
     # typing a _ after the period and hitting <tab>: 'name._<tab>' will always
     # complete attribute names starting with '_'.
 
     # This option is off by default so that new users see all attributes of any
     # objects they are dealing with.
 
     readline_omit__names 0
 
     #---------------------------------------------------------------------------
     # Section: modules to be loaded with 'import ...'
 
     # List, separated by spaces, the names of the modules you want to import
 
     # Example:
     # import_mod sys os
     # will produce internally the statements
     # import sys
     # import os
 
     # Each import is executed in its own try/except block, so if one module
     # fails to load the others will still be ok.
 
     import_mod 
 
     #---------------------------------------------------------------------------
     # Section: modules to import some functions from: 'from ... import ...'
 
     # List, one per line, the modules for which you want only to import some
     # functions. Give the module name first and then the name of functions to be
     # imported from that module.
 
     # Example:
 
     # import_some IPython.genutils timing timings
     # will produce internally the statement
     # from IPython.genutils import timing, timings
 
     # timing() and timings() are two IPython utilities for timing the execution of
     # your own functions, which you may find useful.  Just commment out the above
     # line if you want to test them.
 
     # If you have more than one modules_some line, each gets its own try/except
     # block (like modules, see above).
 
     import_some 
 
     #---------------------------------------------------------------------------
     # Section: modules to import all from : 'from ... import *'
 
     # List (same syntax as import_mod above) those modules for which you want to
     # import all functions. Remember, this is a potentially dangerous thing to do,
     # since it is very easy to overwrite names of things you need. Use with
     # caution.
 
     # Example:
     # import_all sys os
     # will produce internally the statements
     # from sys import *
     # from os import *
 
     # As before, each will be called in a separate try/except block.
 
     import_all 
 
     #---------------------------------------------------------------------------
     # Section: Python code to execute.
 
     # Put here code to be explicitly executed (keep it simple!)
     # Put one line of python code per line. All whitespace is removed (this is a
     # feature, not a bug), so don't get fancy building loops here.
     # This is just for quick convenient creation of things you want available.
 
     # Example:
     # execute x = 1
     # execute print 'hello world'; y = z = 'a'
     # will produce internally
     # x = 1
     # print 'hello world'; y = z = 'a'
     # and each *line* (not each statement, we don't do python syntax parsing) is
     # executed in its own try/except block.
 
     execute 
 
     # Note for the adventurous: you can use this to define your own names for the
     # magic functions, by playing some namespace tricks:
 
     # execute __IPYTHON__.magic_pf = __IPYTHON__.magic_profile
 
     # defines %pf as a new name for %profile.
 
     #---------------------------------------------------------------------------
     # Section: Pyhton files to load and execute.
 
     # Put here the full names of files you want executed with execfile(file).  If
     # you want complicated initialization, just write whatever you want in a
     # regular python file and load it from here.
 
     # Filenames defined here (which *must* include the extension) are searched for
     # through all of sys.path. Since IPython adds your .ipython directory to
     # sys.path, they can also be placed in your .ipython dir and will be
     # found. Otherwise (if you want to execute things not in .ipyton nor in
     # sys.path) give a full path (you can use ~, it gets expanded)
 
     # Example:
     # execfile file1.py ~/file2.py
     # will generate
     # execfile('file1.py')
     # execfile('_path_to_your_home/file2.py')
 
     # As before, each file gets its own try/except block.
 
     execfile
 
     # If you are feeling adventurous, you can even add functionality to IPython
     # through here. IPython works through a global variable called __ip which
     # exists at the time when these files are read. If you know what you are doing
     # (read the source) you can add functions to __ip in files loaded here. 
 
     # The file example-magic.py contains a simple but correct example. Try it:
 
     # execfile example-magic.py
 
     # Look at the examples in IPython/iplib.py for more details on how these magic
     # functions need to process their arguments.
 
     #---------------------------------------------------------------------------
     # Section: aliases for system shell commands
 
     # Here you can define your own names for system commands. The syntax is
     # similar to that of the builtin %alias function:
 
     # alias alias_name command_string
 
     # The resulting aliases are auto-generated magic functions (hence usable as
     # %alias_name)
 
     # For example:
 
     # alias myls ls -la
 
     # will define 'myls' as an alias for executing the system command 'ls -la'.
     # This allows you to customize IPython's environment to have the same aliases
     # you are accustomed to from your own shell.
 
     # You can also define aliases with parameters using %s specifiers (one per
     # parameter):
 
     # alias parts echo first %s second %s
 
     # will give you in IPython:
     # >>> %parts A B
     # first A second B
 
     # Use one 'alias' statement per alias you wish to define.
 
     # alias 
 
     #************************* end of file <ipythonrc> ************************
 
 
 ipy_user_conf.py
 ----------------
 
 There should be a simple template ipy_user_conf.py file in your
 ~/.ipython directory. It is a plain python module that is imported
 during IPython startup, so you can do pretty much what you want there
 - import modules, configure extensions, change options, define magic
 commands, put variables and functions in the IPython namespace,
 etc. You use the IPython extension api object, acquired by
 IPython.ipapi.get() and documented in the "IPython extension API"
 chapter, to interact with IPython. A sample ipy_user_conf.py is listed
 below for reference::
 
     # Most of your config files and extensions will probably start
     # with this import
 
     import IPython.ipapi
     ip = IPython.ipapi.get()
 
     # You probably want to uncomment this if you did %upgrade -nolegacy
     # import ipy_defaults    
 
     import os   
 
     def main():   
 
         #ip.dbg.debugmode = True
         ip.dbg.debug_stack()
 
         # uncomment if you want to get ipython -p sh behaviour
         # without having to use command line switches  
         import ipy_profile_sh
         import jobctrl
 
         # Configure your favourite editor?
         # Good idea e.g. for %edit os.path.isfile
 
         #import ipy_editors
 
         # Choose one of these:
 
         #ipy_editors.scite()
         #ipy_editors.scite('c:/opt/scite/scite.exe')
         #ipy_editors.komodo()
         #ipy_editors.idle()
         # ... or many others, try 'ipy_editors??' after import to see them
 
         # Or roll your own:
         #ipy_editors.install_editor("c:/opt/jed +$line $file")
 
 
         o = ip.options
         # An example on how to set options
         #o.autocall = 1
         o.system_verbose = 0
 
         #import_all("os sys")
         #execf('~/_ipython/ns.py')
 
 
         # -- prompt
         # A different, more compact set of prompts from the default ones, that
         # always show your current location in the filesystem:
 
         #o.prompt_in1 = r'\C_LightBlue[\C_LightCyan\Y2\C_LightBlue]\C_Normal\n\C_Green|\#>'
         #o.prompt_in2 = r'.\D: '
         #o.prompt_out = r'[\#] '
 
         # Try one of these color settings if you can't read the text easily
         # autoexec is a list of IPython commands to execute on startup
         #o.autoexec.append('%colors LightBG')
         #o.autoexec.append('%colors NoColor')
         o.autoexec.append('%colors Linux')
 
 
     # some config helper functions you can use 
     def import_all(modules):
         """ Usage: import_all("os sys") """ 
         for m in modules.split():
             ip.ex("from %s import *" % m)
 
     def execf(fname):
         """ Execute a file in user namespace """
         ip.ex('execfile("%s")' % os.path.expanduser(fname))
 
     main()
 
-
+.. _Prompts:
 
 Fine-tuning your prompt
 -----------------------
 
 IPython's prompts can be customized using a syntax similar to that of
 the bash shell. Many of bash's escapes are supported, as well as a few
 additional ones. We list them below::
 
     \#
         the prompt/history count number. This escape is automatically
         wrapped in the coloring codes for the currently active color scheme. 
     \N
         the 'naked' prompt/history count number: this is just the number
         itself, without any coloring applied to it. This lets you produce
         numbered prompts with your own colors. 
     \D
         the prompt/history count, with the actual digits replaced by dots.
         Used mainly in continuation prompts (prompt_in2) 
     \w
         the current working directory 
     \W
         the basename of current working directory 
     \Xn
         where $n=0\ldots5.$ The current working directory, with $HOME
         replaced by ~, and filtered out to contain only $n$ path elements 
     \Yn
         Similar to \Xn, but with the $n+1$ element included if it is ~ (this
         is similar to the behavior of the %cn escapes in tcsh) 
     \u
         the username of the current user 
     \$
         if the effective UID is 0, a #, otherwise a $ 
     \h
         the hostname up to the first '.' 
     \H
         the hostname 
     \n
         a newline 
     \r
         a carriage return 
     \v
         IPython version string 
 
 In addition to these, ANSI color escapes can be insterted into the
 prompts, as \C_ColorName. The list of valid color names is: Black, Blue,
 Brown, Cyan, DarkGray, Green, LightBlue, LightCyan, LightGray,
 LightGreen, LightPurple, LightRed, NoColor, Normal, Purple, Red, White,
 Yellow.
 
 Finally, IPython supports the evaluation of arbitrary expressions in
 your prompt string. The prompt strings are evaluated through the syntax
 of PEP 215, but basically you can use $x.y to expand the value of x.y,
 and for more complicated expressions you can use braces: ${foo()+x} will
 call function foo and add to it the value of x, before putting the
 result into your prompt. For example, using
 prompt_in1 '${commands.getoutput("uptime")}\nIn [\#]: ' 
 will print the result of the uptime command on each prompt (assuming the
 commands module has been imported in your ipythonrc file).
 
 
       Prompt examples
 
 The following options in an ipythonrc file will give you IPython's
 default prompts::
 
     prompt_in1 'In [\#]:' 
     prompt_in2 '   .\D.:' 
     prompt_out 'Out[\#]:'
 
 which look like this::
 
     In [1]: 1+2 
     Out[1]: 3
 
     In [2]: for i in (1,2,3): 
        ...:    print i, 
        ...: 
     1 2 3
 
 These will give you a very colorful prompt with path information::
 
     #prompt_in1 '\C_Red\u\C_Blue[\C_Cyan\Y1\C_Blue]\C_LightGreen\#>' 
     prompt_in2 ' ..\D>' 
     prompt_out '<\#>'
 
 which look like this::
 
     fperez[~/ipython]1> 1+2 
                     <1> 3 
     fperez[~/ipython]2> for i in (1,2,3): 
                    ...>     print i, 
                    ...> 
     1 2 3
 
 
+.. _Profiles:
 
 IPython profiles
 ----------------
 
 As we already mentioned, IPython supports the -profile command-line
-option (see sec. 5.2 <node5.html#sec:cmd-line-opts>). A profile is
-nothing more than a particular configuration file like your basic
-ipythonrc one, but with particular customizations for a specific
-purpose. When you start IPython with 'ipython -profile <name>', it
-assumes that in your IPYTHONDIR there is a file called ipythonrc-<name>,
-and loads it instead of the normal ipythonrc.
+option (see sec. `command line options`_). A profile is nothing more
+than a particular configuration file like your basic ipythonrc one,
+but with particular customizations for a specific purpose. When you
+start IPython with 'ipython -profile <name>', it assumes that in your
+IPYTHONDIR there is a file called ipythonrc-<name> or
+ipy_profile_<name>.py, and loads it instead of the normal ipythonrc.
 
 This system allows you to maintain multiple configurations which load
 modules, set options, define functions, etc. suitable for different
 tasks and activate them in a very simple manner. In order to avoid
 having to repeat all of your basic options (common things that don't
 change such as your color preferences, for example), any profile can
 include another configuration file. The most common way to use profiles
 is then to have each one include your basic ipythonrc file as a starting
 point, and then add further customizations.
 
-In sections 11 <node11.html#sec:syntax-extensions> and 16
-<node16.html#sec:Gnuplot> we discuss some particular profiles which come
-as part of the standard IPython distribution. You may also look in your
-IPYTHONDIR directory, any file whose name begins with ipythonrc- is a
-profile. You can use those as examples for further customizations to
-suit your own needs.
-
 IPython as your default Python environment
 ==========================================
 
 Python honors the environment variable PYTHONSTARTUP and will execute at
 startup the file referenced by this variable. If you put at the end of
 this file the following two lines of code::
 
     import IPython 
     IPython.Shell.IPShell().mainloop(sys_exit=1)
 
 then IPython will be your working environment anytime you start Python.
 The sys_exit=1 is needed to have IPython issue a call to sys.exit() when
 it finishes, otherwise you'll be back at the normal Python '>>>'
-prompt^4 <footnode.html#foot2368>.
+prompt.
 
 This is probably useful to developers who manage multiple Python
 versions and don't want to have correspondingly multiple IPython
 versions. Note that in this mode, there is no way to pass IPython any
 command-line options, as those are trapped first by Python itself.
 
+.. _Embedding:
+
 Embedding IPython
 =================
 
 It is possible to start an IPython instance inside your own Python
 programs. This allows you to evaluate dynamically the state of your
 code, operate with your variables, analyze them, etc. Note however that
 any changes you make to values while in the shell do not propagate back
 to the running code, so it is safe to modify your values because you
 won't break your code in bizarre ways by doing so.
 
 This feature allows you to easily have a fully functional python
 environment for doing object introspection anywhere in your code with a
 simple function call. In some cases a simple print statement is enough,
 but if you need to do more detailed analysis of a code fragment this
 feature can be very valuable.
 
 It can also be useful in scientific computing situations where it is
 common to need to do some automatic, computationally intensive part and
-then stop to look at data, plots, etc^5 <footnode.html#foot3206>.
+then stop to look at data, plots, etc.
 Opening an IPython instance will give you full access to your data and
 functions, and you can resume program execution once you are done with
 the interactive part (perhaps to stop again later, as many times as
 needed).
 
 The following code snippet is the bare minimum you need to include in
 your Python programs for this to work (detailed examples follow later)::
 
     from IPython.Shell import IPShellEmbed
 
     ipshell = IPShellEmbed()
 
     ipshell() # this call anywhere in your program will start IPython
 
 You can run embedded instances even in code which is itself being run at
 the IPython interactive prompt with '%run <filename>'. Since it's easy
 to get lost as to where you are (in your top-level IPython or in your
 embedded one), it's a good idea in such cases to set the in/out prompts
 to something different for the embedded instances. The code examples
 below illustrate this.
 
 You can also have multiple IPython instances in your program and open
 them separately, for example with different options for data
 presentation. If you close and open the same instance multiple times,
 its prompt counters simply continue from each execution to the next.
 
 Please look at the docstrings in the Shell.py module for more details on
 the use of this system.
 
 The following sample file illustrating how to use the embedding
 functionality is provided in the examples directory as example-embed.py.
 It should be fairly self-explanatory::
 
 
     #!/usr/bin/env python
 
     """An example of how to embed an IPython shell into a running program.
 
     Please see the documentation in the IPython.Shell module for more details.
 
     The accompanying file example-embed-short.py has quick code fragments for
     embedding which you can cut and paste in your code once you understand how
     things work.
 
     The code in this file is deliberately extra-verbose, meant for learning."""
 
     # The basics to get you going:
 
     # IPython sets the __IPYTHON__ variable so you can know if you have nested
     # copies running.
 
     # Try running this code both at the command line and from inside IPython (with
     # %run example-embed.py)
     try:
         __IPYTHON__
     except NameError:
         nested = 0
         args = ['']
     else:
         print "Running nested copies of IPython."
         print "The prompts for the nested copy have been modified"
         nested = 1
         # what the embedded instance will see as sys.argv:
         args = ['-pi1','In <\\#>: ','-pi2','   .\\D.: ',
                 '-po','Out<\\#>: ','-nosep']
 
     # First import the embeddable shell class
     from IPython.Shell import IPShellEmbed
 
     # Now create an instance of the embeddable shell. The first argument is a
     # string with options exactly as you would type them if you were starting
     # IPython at the system command line. Any parameters you want to define for
     # configuration can thus be specified here.
     ipshell = IPShellEmbed(args,
                            banner = 'Dropping into IPython',
                            exit_msg = 'Leaving Interpreter, back to program.')
 
     # Make a second instance, you can have as many as you want.
     if nested:
         args[1] = 'In2<\\#>'
     else:
         args = ['-pi1','In2<\\#>: ','-pi2','   .\\D.: ',
                 '-po','Out<\\#>: ','-nosep']
     ipshell2 = IPShellEmbed(args,banner = 'Second IPython instance.')
 
     print '\nHello. This is printed from the main controller program.\n'
 
     # You can then call ipshell() anywhere you need it (with an optional
     # message):
     ipshell('***Called from top level. '
             'Hit Ctrl-D to exit interpreter and continue program.\n'
             'Note that if you use %kill_embedded, you can fully deactivate\n'
             'This embedded instance so it will never turn on again')
 
     print '\nBack in caller program, moving along...\n'
 
     #---------------------------------------------------------------------------
     # More details:
 
     # IPShellEmbed instances don't print the standard system banner and
     # messages. The IPython banner (which actually may contain initialization
     # messages) is available as <instance>.IP.BANNER in case you want it.
 
     # IPShellEmbed instances print the following information everytime they
     # start:
 
     # - A global startup banner.
 
     # - A call-specific header string, which you can use to indicate where in the
     # execution flow the shell is starting.
 
     # They also print an exit message every time they exit.
 
     # Both the startup banner and the exit message default to None, and can be set
     # either at the instance constructor or at any other time with the
     # set_banner() and set_exit_msg() methods.
 
     # The shell instance can be also put in 'dummy' mode globally or on a per-call
     # basis. This gives you fine control for debugging without having to change
     # code all over the place.
 
     # The code below illustrates all this.
 
 
     # This is how the global banner and exit_msg can be reset at any point
     ipshell.set_banner('Entering interpreter - New Banner')
     ipshell.set_exit_msg('Leaving interpreter - New exit_msg')
 
     def foo(m):
         s = 'spam'
         ipshell('***In foo(). Try @whos, or print s or m:')
         print 'foo says m = ',m
 
     def bar(n):
         s = 'eggs'
         ipshell('***In bar(). Try @whos, or print s or n:')
         print 'bar says n = ',n
 
     # Some calls to the above functions which will trigger IPython:
     print 'Main program calling foo("eggs")\n'
     foo('eggs')
 
     # The shell can be put in 'dummy' mode where calls to it silently return. This
     # allows you, for example, to globally turn off debugging for a program with a
     # single call.
     ipshell.set_dummy_mode(1)
     print '\nTrying to call IPython which is now "dummy":'
     ipshell()
     print 'Nothing happened...'
     # The global 'dummy' mode can still be overridden for a single call
     print '\nOverriding dummy mode manually:'
     ipshell(dummy=0)
 
     # Reactivate the IPython shell
     ipshell.set_dummy_mode(0)
 
     print 'You can even have multiple embedded instances:'
     ipshell2()
 
     print '\nMain program calling bar("spam")\n'
     bar('spam')
 
     print 'Main program finished. Bye!'
 
     #********************** End of file <example-embed.py> ***********************
 
 Once you understand how the system functions, you can use the following
 code fragments in your programs which are ready for cut and paste::
 
 
     """Quick code snippets for embedding IPython into other programs.
 
     See example-embed.py for full details, this file has the bare minimum code for
     cut and paste use once you understand how to use the system."""
 
     #---------------------------------------------------------------------------
     # This code loads IPython but modifies a few things if it detects it's running
     # embedded in another IPython session (helps avoid confusion)
 
     try:
         __IPYTHON__
     except NameError:
         argv = ['']
         banner = exit_msg = ''
     else:
         # Command-line options for IPython (a list like sys.argv)
         argv = ['-pi1','In <\\#>:','-pi2','   .\\D.:','-po','Out<\\#>:']
         banner = '*** Nested interpreter ***'
         exit_msg = '*** Back in main IPython ***'
 
     # First import the embeddable shell class
     from IPython.Shell import IPShellEmbed
     # Now create the IPython shell instance. Put ipshell() anywhere in your code
     # where you want it to open.
     ipshell = IPShellEmbed(argv,banner=banner,exit_msg=exit_msg)
 
     #---------------------------------------------------------------------------
     # This code will load an embeddable IPython shell always with no changes for
     # nested embededings.
 
     from IPython.Shell import IPShellEmbed
     ipshell = IPShellEmbed()
     # Now ipshell() will open IPython anywhere in the code.
 
     #---------------------------------------------------------------------------
     # This code loads an embeddable shell only if NOT running inside
     # IPython. Inside IPython, the embeddable shell variable ipshell is just a
     # dummy function.
 
     try:
         __IPYTHON__
     except NameError:
         from IPython.Shell import IPShellEmbed
         ipshell = IPShellEmbed()
         # Now ipshell() will open IPython anywhere in the code
     else:
         # Define a dummy ipshell() so the same code doesn't crash inside an
         # interactive IPython
         def ipshell(): pass
 
     #******************* End of file <example-embed-short.py> ********************
 
 Using the Python debugger (pdb)
 ===============================
 
 Running entire programs via pdb
 -------------------------------
 
 pdb, the Python debugger, is a powerful interactive debugger which
-allows you to step through code, set breakpoints, watch variables, etc.
-IPython makes it very easy to start any script under the control of pdb,
-regardless of whether you have wrapped it into a 'main()' function or
-not. For this, simply type '%run -d myscript' at an IPython prompt. See
-the %run command's documentation (via '%run?' or in Sec. 6.2
-<node6.html#sec:magic>) for more details, including how to control where
-pdb will stop execution first.
+allows you to step through code, set breakpoints, watch variables,
+etc.  IPython makes it very easy to start any script under the control
+of pdb, regardless of whether you have wrapped it into a 'main()'
+function or not. For this, simply type '%run -d myscript' at an
+IPython prompt. See the %run command's documentation (via '%run?' or
+in Sec. magic_ for more details, including how to control where pdb
+will stop execution first.
 
 For more information on the use of the pdb debugger, read the included
 pdb.doc file (part of the standard Python distribution). On a stock
 Linux system it is located at /usr/lib/python2.3/pdb.doc, but the
 easiest way to read it is by using the help() function of the pdb module
 as follows (in an IPython prompt):
 
 In [1]: import pdb 
 In [2]: pdb.help()
 
 This will load the pdb.doc document in a file viewer for you automatically.
 
 
 Automatic invocation of pdb on exceptions
 -----------------------------------------
 
 IPython, if started with the -pdb option (or if the option is set in
 your rc file) can call the Python pdb debugger every time your code
-triggers an uncaught exception^6 <footnode.html#foot2403>. This feature
+triggers an uncaught exception. This feature
 can also be toggled at any time with the %pdb magic command. This can be
 extremely useful in order to find the origin of subtle bugs, because pdb
 opens up at the point in your code which triggered the exception, and
 while your program is at this point 'dead', all the data is still
 available and you can walk up and down the stack frame and understand
 the origin of the problem.
 
 Furthermore, you can use these debugging facilities both with the
 embedded IPython mode and without IPython at all. For an embedded shell
-(see sec. 9 <node9.html#sec:embed>), simply call the constructor with
+(see sec. Embedding_), simply call the constructor with
 '-pdb' in the argument string and automatically pdb will be called if an
 uncaught exception is triggered by your code.
 
 For stand-alone use of the feature in your programs which do not use
 IPython at all, put the following lines toward the top of your 'main'
 routine::
 
     import sys,IPython.ultraTB  
     sys.excepthook = IPython.ultraTB.FormattedTB(mode='Verbose',
     color_scheme='Linux', call_pdb=1)
 
 The mode keyword can be either 'Verbose' or 'Plain', giving either very
 detailed or normal tracebacks respectively. The color_scheme keyword can
 be one of 'NoColor', 'Linux' (default) or 'LightBG'. These are the same
 options which can be set in IPython with -colors and -xmode.
 
 This will give any of your programs detailed, colored tracebacks with
 automatic invocation of pdb.
 
 
 Extensions for syntax processing
 ================================
 
 This isn't for the faint of heart, because the potential for breaking
 things is quite high. But it can be a very powerful and useful feature.
 In a nutshell, you can redefine the way IPython processes the user input
 line to accept new, special extensions to the syntax without needing to
 change any of IPython's own code.
 
 In the IPython/Extensions directory you will find some examples
 supplied, which we will briefly describe now. These can be used 'as is'
 (and both provide very useful functionality), or you can use them as a
 starting point for writing your own extensions.
 
 
 Pasting of code starting with '>>> ' or '... '
 ----------------------------------------------
 
 In the python tutorial it is common to find code examples which have
 been taken from real python sessions. The problem with those is that all
 the lines begin with either '>>> ' or '... ', which makes it impossible
 to paste them all at once. One must instead do a line by line manual
 copying, carefully removing the leading extraneous characters.
 
 This extension identifies those starting characters and removes them
 from the input automatically, so that one can paste multi-line examples
 directly into IPython, saving a lot of time. Please look at the file
 InterpreterPasteInput.py in the IPython/Extensions directory for details
 on how this is done.
 
 IPython comes with a special profile enabling this feature, called
 tutorial. Simply start IPython via 'ipython -p tutorial' and the feature
 will be available. In a normal IPython session you can activate the
 feature by importing the corresponding module with:
 In [1]: import IPython.Extensions.InterpreterPasteInput
 
 The following is a 'screenshot' of how things work when this extension
 is on, copying an example from the standard tutorial::
 
     IPython profile: tutorial 
 
     *** Pasting of code with ">>>" or "..." has been enabled. 
 
     In [1]: >>> def fib2(n): # return Fibonacci series up to n 
        ...: ...     """Return a list containing the Fibonacci series up to
     n.""" 
        ...: ...     result = [] 
        ...: ...     a, b = 0, 1 
        ...: ...     while b < n: 
        ...: ...         result.append(b)    # see below 
        ...: ...         a, b = b, a+b 
        ...: ...     return result 
        ...: 
 
     In [2]: fib2(10) 
     Out[2]: [1, 1, 2, 3, 5, 8]
 
 Note that as currently written, this extension does not recognize
 IPython's prompts for pasting. Those are more complicated, since the
 user can change them very easily, they involve numbers and can vary in
 length. One could however extract all the relevant information from the
 IPython instance and build an appropriate regular expression. This is
 left as an exercise for the reader.
 
 
 Input of physical quantities with units
 ---------------------------------------
 
 The module PhysicalQInput allows a simplified form of input for physical
 quantities with units. This file is meant to be used in conjunction with
 the PhysicalQInteractive module (in the same directory) and
 Physics.PhysicalQuantities from Konrad Hinsen's ScientificPython
 (http://dirac.cnrs-orleans.fr/ScientificPython/).
 
 The Physics.PhysicalQuantities module defines PhysicalQuantity objects,
 but these must be declared as instances of a class. For example, to
 define v as a velocity of 3 m/s, normally you would write::
 
     In [1]: v = PhysicalQuantity(3,'m/s')
 
 Using the PhysicalQ_Input extension this can be input instead as: 
 In [1]: v = 3 m/s
 which is much more convenient for interactive use (even though it is
 blatantly invalid Python syntax).
 
 The physics profile supplied with IPython (enabled via 'ipython -p
 physics') uses these extensions, which you can also activate with:
 
 from math import * # math MUST be imported BEFORE PhysicalQInteractive 
 from IPython.Extensions.PhysicalQInteractive import * 
 import IPython.Extensions.PhysicalQInput
 
 
 IPython as a system shell - the 'Sh' profile
 ============================================
 
 The 'sh' profile optimizes IPython for system shell usage. Apart from
 certain job control functionality that is present in unix (ctrl+z does
 "suspend"), the sh profile should provide you with most of the
 functionality you use daily in system shell, and more. Invoke IPython
 in 'sh' profile by doing 'ipython -p sh', or (in win32) by launching
 the "pysh" shortcut in start menu.
 
 If you want to use the features of sh profile as your defaults (which
 might be a good idea if you use other profiles a lot of the time but
 still want the convenience of sh profile), add ``import ipy_profile_sh``
 to your ~/.ipython/ipy_user_conf.py.
 
 The 'sh' profile is different from the default profile in that:
 
  * Prompt shows the current directory
  * Spacing between prompts and input is more compact (no padding with
    empty lines). The startup banner is more compact as well.
  * System commands are directly available (in alias table) without
    requesting %rehashx - however, if you install new programs along
    your PATH, you might want to run %rehashx to update the persistent
    alias table
  * Macros are stored in raw format by default. That is, instead of
    '_ip.system("cat foo"), the macro will contain text 'cat foo')
  * Autocall is in full mode
  * Calling "up" does "cd .."
 
 The 'sh' profile is different from the now-obsolete (and unavailable)
 'pysh' profile in that:
 
  * '$$var = command' and '$var = command' syntax is not supported
  * anymore. Use 'var = !command' instead (incidentally, this is
  * available in all IPython profiles). Note that !!command *will*
  * work.
 
 Aliases
 -------
 
 All of your $PATH has been loaded as IPython aliases, so you should be
 able to type any normal system command and have it executed. See
 %alias?  and %unalias? for details on the alias facilities. See also
 %rehashx? for details on the mechanism used to load $PATH.
 
 
 Directory management
 --------------------
 
 Since each command passed by ipython to the underlying system is executed
 in a subshell which exits immediately, you can NOT use !cd to navigate
 the filesystem.
 
 IPython provides its own builtin '%cd' magic command to move in the
 filesystem (the % is not required with automagic on). It also maintains
 a list of visited directories (use %dhist to see it) and allows direct
 switching to any of them. Type 'cd?' for more details.
 
 %pushd, %popd and %dirs are provided for directory stack handling.
 
 
 Enabled extensions
 ------------------
 
 Some extensions, listed below, are enabled as default in this profile.
 
 envpersist
 ++++++++++
 
 %env can be used to "remember" environment variable manipulations. Examples::
 
 	%env - Show all environment variables
 	%env VISUAL=jed  - set VISUAL to jed
 	%env PATH+=;/foo - append ;foo to PATH
 	%env PATH+=;/bar - also append ;bar to PATH
 	%env PATH-=/wbin; - prepend /wbin; to PATH
 	%env -d VISUAL   - forget VISUAL persistent val
 	%env -p          - print all persistent env modifications
 
 ipy_which
 +++++++++
 
 %which magic command. Like 'which' in unix, but knows about ipython aliases.
 
 Example::
 
  [C:/ipython]|14> %which st
  st -> start .
  [C:/ipython]|15> %which d
  d -> dir /w /og /on
  [C:/ipython]|16> %which cp
  cp -> cp
    == c:\bin\cp.exe
  c:\bin\cp.exe
 
 ipy_app_completers
 ++++++++++++++++++
 
 Custom tab completers for some apps like svn, hg, bzr, apt-get. Try 'apt-get install <TAB>' in debian/ubuntu.
 
 ipy_rehashdir
 +++++++++++++
 
 Allows you to add system command aliases for commands that are not along your path. Let's say that you just installed Putty and want to be able to invoke it without adding it to path, you can create the alias for it with rehashdir::
 
  [~]|22> cd c:/opt/PuTTY/
  [c:opt/PuTTY]|23> rehashdir .
               <23> ['pageant', 'plink', 'pscp', 'psftp', 'putty', 'puttygen', 'unins000']
 
 Now, you can execute any of those commams directly::
 
  [c:opt/PuTTY]|24> cd
  [~]|25> putty
 
 (the putty window opens).
 
 If you want to store the alias so that it will always be available, do '%store putty'. If you want to %store all these aliases persistently, just do it in a for loop::
 
  [~]|27> for a in _23:
     |..>     %store $a
     |..>
     |..>
  Alias stored: pageant (0, 'c:\\opt\\PuTTY\\pageant.exe')
  Alias stored: plink (0, 'c:\\opt\\PuTTY\\plink.exe')
  Alias stored: pscp (0, 'c:\\opt\\PuTTY\\pscp.exe')
  Alias stored: psftp (0, 'c:\\opt\\PuTTY\\psftp.exe')
  ...
 
 mglob
 +++++
 
 Provide the magic function %mglob, which makes it easier (than the 'find' command) to collect (possibly recursive) file lists. Examples::
 
  [c:/ipython]|9> mglob *.py
  [c:/ipython]|10> mglob *.py rec:*.txt
  [c:/ipython]|19> workfiles = %mglob !.svn/ !.hg/ !*_Data/ !*.bak rec:.
 
 Note that the first 2 calls will put the file list in result history (_, _9, _10), and the last one will assign it to 'workfiles'.
 
 
 Prompt customization
 --------------------
 
 The sh profile uses the following prompt configurations::
 
     o.prompt_in1= r'\C_LightBlue[\C_LightCyan\Y2\C_LightBlue]\C_Green|\#>'
     o.prompt_in2= r'\C_Green|\C_LightGreen\D\C_Green>'
 
 You can change the prompt configuration to your liking by editing
 ipy_user_conf.py.  
 
 String lists
 ============
 
 String lists (IPython.genutils.SList) are handy way to process output
 from system commands. They are produced by ``var = !cmd`` syntax.
 
 First, we acquire the output of 'ls -l'::
 
     [Q:doc/examples]|2> lines = !ls -l
      ==
     ['total 23',
      '-rw-rw-rw- 1 ville None 1163 Sep 30  2006 example-demo.py',
      '-rw-rw-rw- 1 ville None 1927 Sep 30  2006 example-embed-short.py',
      '-rwxrwxrwx 1 ville None 4606 Sep  1 17:15 example-embed.py',
      '-rwxrwxrwx 1 ville None 1017 Sep 30  2006 example-gnuplot.py',
      '-rwxrwxrwx 1 ville None  339 Jun 11 18:01 extension.py',
      '-rwxrwxrwx 1 ville None  113 Dec 20  2006 seteditor.py',
      '-rwxrwxrwx 1 ville None  245 Dec 12  2006 seteditor.pyc']
 
 Now, let's take a look at the contents of 'lines' (the first number is
 the list element number)::
 
     [Q:doc/examples]|3> lines
                     <3> SList (.p, .n, .l, .s, .grep(), .fields() available). Value:
 
     0: total 23
     1: -rw-rw-rw- 1 ville None 1163 Sep 30  2006 example-demo.py
     2: -rw-rw-rw- 1 ville None 1927 Sep 30  2006 example-embed-short.py
     3: -rwxrwxrwx 1 ville None 4606 Sep  1 17:15 example-embed.py
     4: -rwxrwxrwx 1 ville None 1017 Sep 30  2006 example-gnuplot.py
     5: -rwxrwxrwx 1 ville None  339 Jun 11 18:01 extension.py
     6: -rwxrwxrwx 1 ville None  113 Dec 20  2006 seteditor.py
     7: -rwxrwxrwx 1 ville None  245 Dec 12  2006 seteditor.pyc
 
 Now, let's filter out the 'embed' lines::
 
     [Q:doc/examples]|4> l2 = lines.grep('embed',prune=1)
     [Q:doc/examples]|5> l2
                     <5> SList (.p, .n, .l, .s, .grep(), .fields() available). Value:
 
     0: total 23
     1: -rw-rw-rw- 1 ville None 1163 Sep 30  2006 example-demo.py
     2: -rwxrwxrwx 1 ville None 1017 Sep 30  2006 example-gnuplot.py
     3: -rwxrwxrwx 1 ville None  339 Jun 11 18:01 extension.py
     4: -rwxrwxrwx 1 ville None  113 Dec 20  2006 seteditor.py
     5: -rwxrwxrwx 1 ville None  245 Dec 12  2006 seteditor.pyc
 
 Now, we want strings having just file names and permissions::
 
     [Q:doc/examples]|6> l2.fields(8,0)
                     <6> SList (.p, .n, .l, .s, .grep(), .fields() available). Value:
 
     0: total
     1: example-demo.py -rw-rw-rw-
     2: example-gnuplot.py -rwxrwxrwx
     3: extension.py -rwxrwxrwx
     4: seteditor.py -rwxrwxrwx
     5: seteditor.pyc -rwxrwxrwx
 
 Note how the line with 'total' does not raise IndexError.
 
 If you want to split these (yielding lists), call fields() without
 arguments::
 
     [Q:doc/examples]|7> _.fields()
                     <7>
     [['total'],
      ['example-demo.py', '-rw-rw-rw-'],
      ['example-gnuplot.py', '-rwxrwxrwx'],
      ['extension.py', '-rwxrwxrwx'],
      ['seteditor.py', '-rwxrwxrwx'],
      ['seteditor.pyc', '-rwxrwxrwx']]
 
 If you want to pass these separated with spaces to a command (typical
 for lists if files), use the .s property::
 
 
     [Q:doc/examples]|13> files = l2.fields(8).s
     [Q:doc/examples]|14> files
                     <14> 'example-demo.py example-gnuplot.py extension.py seteditor.py seteditor.pyc'
     [Q:doc/examples]|15> ls $files
     example-demo.py  example-gnuplot.py  extension.py  seteditor.py  seteditor.pyc
 
 SLists are inherited from normal python lists, so every list method is
 available::
 
     [Q:doc/examples]|21> lines.append('hey')
 
 
 Real world example: remove all files outside version control
 ------------------------------------------------------------
 
 First, capture output of "hg status"::
 
     [Q:/ipython]|28> out = !hg status
      ==
     ['M IPython\\Extensions\\ipy_kitcfg.py',
      'M IPython\\Extensions\\ipy_rehashdir.py',
     ...
      '? build\\lib\\IPython\\Debugger.py',
      '? build\\lib\\IPython\\Extensions\\InterpreterExec.py',
      '? build\\lib\\IPython\\Extensions\\InterpreterPasteInput.py',
     ...
 
 (lines starting with ? are not under version control).
 
 ::
 
     [Q:/ipython]|35> junk = out.grep(r'^\?').fields(1)
     [Q:/ipython]|36> junk
                 <36> SList (.p, .n, .l, .s, .grep(), .fields() availab
     ...
     10: build\bdist.win32\winexe\temp\_ctypes.py
     11: build\bdist.win32\winexe\temp\_hashlib.py
     12: build\bdist.win32\winexe\temp\_socket.py
 
 Now we can just remove these files by doing 'rm $junk.s'. 
 
 The .s, .n, .p properties
 -------------------------
 
 The '.s' property returns one string where lines are separated by
 single space (for convenient passing to system commands). The '.n'
 property return one string where the lines are separated by '\n'
 (i.e. the original output of the function). If the items in string
 list are file names, '.p' can be used to get a list of "path" objects
 for convenient file manipulation.
 
 
 Threading support
 =================
 
 WARNING: The threading support is still somewhat experimental, and it
 has only seen reasonable testing under Linux. Threaded code is
 particularly tricky to debug, and it tends to show extremely
 platform-dependent behavior. Since I only have access to Linux machines,
 I will have to rely on user's experiences and assistance for this area
 of IPython to improve under other platforms.
 
 IPython, via the -gthread , -qthread, -q4thread and -wthread options
-(described in Sec. 5.1 <node5.html#sec:threading-opts>), can run in
+(described in Sec. `Threading options`_), can run in
 multithreaded mode to support pyGTK, Qt3, Qt4 and WXPython applications
 respectively. These GUI toolkits need to control the python main loop of
 execution, so under a normal Python interpreter, starting a pyGTK, Qt3,
 Qt4 or WXPython application will immediately freeze the shell.
 
 IPython, with one of these options (you can only use one at a time),
 separates the graphical loop and IPython's code execution run into
 different threads. This allows you to test interactively (with %run, for
 example) your GUI code without blocking.
 
 A nice mini-tutorial on using IPython along with the Qt Designer
 application is available at the SciPy wiki:
 http://www.scipy.org/Cookbook/Matplotlib/Qt_with_IPython_and_Designer.
 
 
 Tk issues
 ---------
 
-As indicated in Sec. 5.1 <node5.html#sec:threading-opts>, a special -tk
-option is provided to try and allow Tk graphical applications to coexist
+As indicated in Sec. `Threading options`_, a special -tk option is
+provided to try and allow Tk graphical applications to coexist
 interactively with WX, Qt or GTK ones. Whether this works at all,
-however, is very platform and configuration dependent. Please experiment
-with simple test cases before committing to using this combination of Tk
-and GTK/Qt/WX threading in a production environment.
+however, is very platform and configuration dependent. Please
+experiment with simple test cases before committing to using this
+combination of Tk and GTK/Qt/WX threading in a production environment.
 
 
 I/O pitfalls
 ------------
 
 Be mindful that the Python interpreter switches between threads every
 $N$ bytecodes, where the default value as of Python 2.3 is $N=100.$ This
 value can be read by using the sys.getcheckinterval() function, and it
 can be reset via sys.setcheckinterval(N). This switching of threads can
 cause subtly confusing effects if one of your threads is doing file I/O.
 In text mode, most systems only flush file buffers when they encounter a
 '\n'. An instruction as simple as:: 
 
   print >> filehandle, ''hello world''
 
 actually consists of several bytecodes, so it is possible that the
 newline does not reach your file before the next thread switch.
 Similarly, if you are writing to a file in binary mode, the file won't
 be flushed until the buffer fills, and your other thread may see
 apparently truncated files.
 
 For this reason, if you are using IPython's thread support and have (for
 example) a GUI application which will read data generated by files
 written to from the IPython thread, the safest approach is to open all
 of your files in unbuffered mode (the third argument to the file/open
 function is the buffering value)::
 
   filehandle = open(filename,mode,0)
 
 This is obviously a brute force way of avoiding race conditions with the
 file buffering. If you want to do it cleanly, and you have a resource
 which is being shared by the interactive IPython loop and your GUI
 thread, you should really handle it with thread locking and
 syncrhonization properties. The Python documentation discusses these.
 
+.. _Interactive demos:
+
 Interactive demos with IPython
 ==============================
 
 IPython ships with a basic system for running scripts interactively in
 sections, useful when presenting code to audiences. A few tags embedded
 in comments (so that the script remains valid Python code) divide a file
 into separate blocks, and the demo can be run one block at a time, with
 IPython printing (with syntax highlighting) the block before executing
 it, and returning to the interactive prompt after each block. The
 interactive namespace is updated after each block is run with the
 contents of the demo's namespace.
 
 This allows you to show a piece of code, run it and then execute
 interactively commands based on the variables just created. Once you
 want to continue, you simply execute the next block of the demo. The
 following listing shows the markup necessary for dividing a script into
 sections for execution as a demo::
 
 
     """A simple interactive demo to illustrate the use of IPython's Demo class.
 
     Any python script can be run as a demo, but that does little more than showing
     it on-screen, syntax-highlighted in one shot.  If you add a little simple
     markup, you can stop at specified intervals and return to the ipython prompt,
     resuming execution later.
     """
 
     print 'Hello, welcome to an interactive IPython demo.'
     print 'Executing this block should require confirmation before proceeding,'
     print 'unless auto_all has been set to true in the demo object'
 
     # The mark below defines a block boundary, which is a point where IPython will
     # stop execution and return to the interactive prompt.
     # Note that in actual interactive execution, 
     # <demo> --- stop ---
 
     x = 1
     y = 2
 
     # <demo> --- stop ---
 
     # the mark below makes this block as silent
     # <demo> silent
 
     print 'This is a silent block, which gets executed but not printed.'
 
     # <demo> --- stop ---
     # <demo> auto
     print 'This is an automatic block.'
     print 'It is executed without asking for confirmation, but printed.'
     z = x+y
 
     print 'z=',x
 
     # <demo> --- stop ---
     # This is just another normal block.
     print 'z is now:', z
 
     print 'bye!'
 
 In order to run a file as a demo, you must first make a Demo object out
 of it. If the file is named myscript.py, the following code will make a
 demo::
 
     from IPython.demo import Demo
 
     mydemo = Demo('myscript.py')
 
 This creates the mydemo object, whose blocks you run one at a time by
 simply calling the object with no arguments. If you have autocall active
 in IPython (the default), all you need to do is type::
 
     mydemo 
 
 and IPython will call it, executing each block. Demo objects can be
 restarted, you can move forward or back skipping blocks, re-execute the
 last block, etc. Simply use the Tab key on a demo object to see its
 methods, and call '?' on them to see their docstrings for more usage
 details. In addition, the demo module itself contains a comprehensive
 docstring, which you can access via::
 
     from IPython import demo
 
     demo?
 
 Limitations: It is important to note that these demos are limited to
 fairly simple uses. In particular, you can not put division marks in
 indented code (loops, if statements, function definitions, etc.)
 Supporting something like this would basically require tracking the
 internal execution state of the Python interpreter, so only top-level
 divisions are allowed. If you want to be able to open an IPython
 instance at an arbitrary point in a program, you can use IPython's
 embedding facilities, described in detail in Sec. 9
 
 
+.. _Matplotlib support:
+
 Plotting with matplotlib
 ========================
 
 The matplotlib library (http://matplotlib.sourceforge.net
 http://matplotlib.sourceforge.net) provides high quality 2D plotting for
 Python. Matplotlib can produce plots on screen using a variety of GUI
 toolkits, including Tk, GTK and WXPython. It also provides a number of
 commands useful for scientific computing, all with a syntax compatible
 with that of the popular Matlab program.
 
-IPython accepts the special option -pylab (Sec. 5.2
-<node5.html#sec:cmd-line-opts>). This configures it to support
-matplotlib, honoring the settings in the .matplotlibrc file. IPython
-will detect the user's choice of matplotlib GUI backend, and
-automatically select the proper threading model to prevent blocking. It
-also sets matplotlib in interactive mode and modifies %run slightly, so
-that any matplotlib-based script can be executed using %run and the
-final show() command does not block the interactive shell.
-
-The -pylab option must be given first in order for IPython to configure
-its threading mode. However, you can still issue other options
-afterwards. This allows you to have a matplotlib-based environment
-customized with additional modules using the standard IPython profile
-mechanism (Sec. 7.3 <node7.html#sec:profiles>): ''ipython -pylab -p
+IPython accepts the special option -pylab (Sec. `Command line
+options`_). This configures it to support matplotlib, honoring the
+settings in the .matplotlibrc file. IPython will detect the user's
+choice of matplotlib GUI backend, and automatically select the proper
+threading model to prevent blocking. It also sets matplotlib in
+interactive mode and modifies %run slightly, so that any
+matplotlib-based script can be executed using %run and the final
+show() command does not block the interactive shell.
+
+The -pylab option must be given first in order for IPython to
+configure its threading mode. However, you can still issue other
+options afterwards. This allows you to have a matplotlib-based
+environment customized with additional modules using the standard
+IPython profile mechanism (Sec. Profiles_): ''ipython -pylab -p
 myprofile'' will load the profile defined in ipythonrc-myprofile after
 configuring matplotlib.
 
 IPython Extension Api
 =====================
 
 IPython api (defined in IPython/ipapi.py) is the public api that
 should be used for
 
  * Configuration of user preferences (.ipython/ipy_user_conf.py)
  * Creating new profiles (.ipython/ipy_profile_PROFILENAME.py)
  * Writing extensions 
 
 Note that by using the extension api for configuration (editing
 ipy_user_conf.py instead of ipythonrc), you get better validity checks
 and get richer functionality - for example, you can import an
 extension and call functions in it to configure it for your purposes.
 
 For an example extension (the 'sh' profile), see
 IPython/Extensions/ipy_profile_sh.py.
 
 For the last word on what's available, see the source code of
 IPython/ipapi.py.
 
 
 Getting started
 ---------------
 
 If you want to define an extension, create a normal python module that
 can be imported. The module will access IPython functionality through
 the 'ip' object defined below.
 
 If you are creating a new profile (e.g. foobar), name the module as
 'ipy_profile_foobar.py' and put it in your ~/.ipython directory. Then,
 when you start ipython with the '-p foobar' argument, the module is
 automatically imported on ipython startup.
 
 If you are just doing some per-user configuration, you can either 
 
  * Put the commands directly into ipy_user_conf.py. 
 
  * Create a new module with your customization code and import *that*
    module in ipy_user_conf.py. This is preferable to the first approach,
    because now you can reuse and distribute your customization code.
 
 Getting a handle to the api
 ---------------------------
 
 Put this in the start of your module::
 
     #!python
     import IPython.ipapi
     ip = IPython.ipapi.get()
 
 The 'ip' object will then be used for accessing IPython
 functionality. 'ip' will mean this api object in all the following
 code snippets. The same 'ip' that we just acquired is always
 accessible in interactive IPython sessions by the name _ip - play with
 it like this::
 
     [~\_ipython]|81> a = 10
     [~\_ipython]|82> _ip.e
     _ip.ev           _ip.ex           _ip.expose_magic
     [~\_ipython]|82> _ip.ev('a+13')
                 <82> 23
 
 The _ip object is also used in some examples in this document - it can
 be substituted by 'ip' in non-interactive use.
 
 Changing options
 ----------------
 
 The ip object has 'options' attribute that can be used te get/set
 configuration options (just as in the ipythonrc file)::
 
     o = ip.options
     o.autocall = 2
     o.automagic = 1
 
 Executing statements in IPython namespace with 'ex' and 'ev'
 ------------------------------------------------------------
 
 Often, you want to e.g. import some module or define something that
 should be visible in IPython namespace. Use ``ip.ev`` to
 *evaluate* (calculate the value of) expression and ``ip.ex`` to
 '''execute''' a statement::
 
     # path module will be visible to the interactive session
     ip.ex("from path import path" )
 
     # define a handy function 'up' that changes the working directory
 
     ip.ex('import os')
     ip.ex("def up(): os.chdir('..')")
 
 
     # _i2 has the input history entry #2, print its value in uppercase.
     print ip.ev('_i2.upper()')
 
 Accessing the IPython namespace
 -------------------------------
 
 ip.user_ns attribute has a dictionary containing the IPython global
 namespace (the namespace visible in the interactive session).
 
 ::
 
     [~\_ipython]|84> tauno = 555
     [~\_ipython]|85> _ip.user_ns['tauno']
                 <85> 555
 
 Defining new magic commands
 ---------------------------
 
 The following example defines a new magic command, %impall. What the
 command does should be obvious::
 
     def doimp(self, arg):
         ip = self.api
         ip.ex("import %s; reload(%s); from %s import *" % (
         arg,arg,arg)
         )
 
     ip.expose_magic('impall', doimp)
 
 Things to observe in this example:
 
  * Define a function that implements the magic command using the 
    ipapi methods defined in this document
  * The first argument of the function is 'self', i.e. the 
    interpreter object. It shouldn't be used directly. however. 
    The interpreter object is probably *not* going to remain stable 
    through IPython versions.
  * Access the ipapi through 'self.api' instead of the global 'ip' object.
  * All the text following the magic command on the command line is 
    contained in the second argument
  * Expose the magic by ip.expose_magic()
 
 
 Calling magic functions and system commands
 -------------------------------------------
 
 Use ip.magic() to execute a magic function, and ip.system() to execute
 a system command::
 
     # go to a bookmark
     ip.magic('%cd -b relfiles')
 
     # execute 'ls -F' system command. Interchangeable with os.system('ls'), really.
     ip.system('ls -F')
 
 Launching IPython instance from normal python code
 --------------------------------------------------
 
 Use ipapi.launch_new_instance() with an argument that specifies the
 namespace to use. This can be useful for trivially embedding IPython
 into your program. Here's an example of normal python program test.py
 ('''without''' an existing IPython session) that launches an IPython
 interpreter and regains control when the interpreter is exited::
 
     [ipython]|1> cat test.py
     my_ns = dict(
         kissa = 15,
         koira = 16)
     import IPython.ipapi
     print "launching IPython instance"
     IPython.ipapi.launch_new_instance(my_ns)
     print "Exited IPython instance!"
     print "New vals:",my_ns['kissa'], my_ns['koira']
 
 And here's what it looks like when run (note how we don't start it
 from an ipython session)::
 
     Q:\ipython>python test.py
     launching IPython instance
     Py 2.5 (r25:51908, Sep 19 2006, 09:52:17) [MSC v.1310 32 bit (Intel)] IPy 0.7.3b3.r1975
     [ipython]|1> kissa = 444
     [ipython]|2> koira = 555
     [ipython]|3> Exit
     Exited IPython instance!
     New vals: 444 555
 
 Accessing unexposed functionality
 ---------------------------------
 
 There are still many features that are not exposed via the ipapi. If
 you can't avoid using them, you can use the functionality in
 InteractiveShell object (central IPython session class, defined in
 iplib.py) through ip.IP.
 
 For example::
 
     [~]|7> _ip.IP.expand_aliases('np','myfile.py')
        <7> 'c:/opt/Notepad++/notepad++.exe myfile.py'
     [~]|8>
 
 Still, it's preferable that if you encounter such a feature, contact
 the IPython team and request that the functionality be exposed in a
 future version of IPython. Things not in ipapi are more likely to
 change over time.
 
 Provided extensions
 ===================
 
 You can see the list of available extensions (and profiles) by doing
 ``import ipy_<TAB>``. Some extensions don't have the ``ipy_`` prefix in
 module name, so you may need to see the contents of IPython/Extensions
 folder to see what's available.
 
 You can see a brief documentation of an extension by looking at the
 module docstring::
 
     [c:p/ipython_main]|190> import ipy_fsops
     [c:p/ipython_main]|191> ipy_fsops?
 
     ...
 
     Docstring:
         File system operations
 
     Contains: Simple variants of normal unix shell commands (icp, imv, irm,
     imkdir, igrep).
 
 You can also install your own extensions - the recommended way is to
 just copy the module to ~/.ipython. Extensions are typically enabled
 by just importing them (e.g. in ipy_user_conf.py), but some extensions
 require additional steps, for example::
 
     [c:p]|192> import ipy_traits_completer
     [c:p]|193> ipy_traits_completer.activate()    
 
 Note that extensions, even if provided in the stock IPython
 installation, are not guaranteed to have the same requirements as the
 rest of IPython - an extension may require external libraries or a
 newer version of Python than what IPython officially requires. An
 extension may also be under a more restrictive license than IPython
 (e.g. ipy_bzr is under GPL).
 
 Just for reference, the list of bundled extensions at the time of
 writing is below:
 
 astyle.py clearcmd.py envpersist.py ext_rescapture.py ibrowse.py
 igrid.py InterpreterExec.py InterpreterPasteInput.py ipipe.py
 ipy_app_completers.py ipy_autoreload.py ipy_bzr.py ipy_completers.py
 ipy_constants.py ipy_defaults.py ipy_editors.py ipy_exportdb.py
 ipy_extutil.py ipy_fsops.py ipy_gnuglobal.py ipy_kitcfg.py
 ipy_legacy.py ipy_leo.py ipy_p4.py ipy_profile_doctest.py
 ipy_profile_none.py ipy_profile_scipy.py ipy_profile_sh.py
 ipy_profile_zope.py ipy_pydb.py ipy_rehashdir.py ipy_render.py
 ipy_server.py ipy_signals.py ipy_stock_completers.py
 ipy_system_conf.py ipy_traits_completer.py ipy_vimserver.py
 ipy_which.py ipy_workdir.py jobctrl.py ledit.py numeric_formats.py
 PhysicalQInput.py PhysicalQInteractive.py pickleshare.py
 pspersistence.py win32clip.py __init__.py
 
 Reporting bugs
 ==============
 
 Automatic crash reports
 -----------------------
 
 Ideally, IPython itself shouldn't crash. It will catch exceptions
 produced by you, but bugs in its internals will still crash it.
 
 In such a situation, IPython will leave a file named
 IPython_crash_report.txt in your IPYTHONDIR directory (that way if
 crashes happen several times it won't litter many directories, the
-post-mortem file is always located in the same place and new occurrences
-just overwrite the previous one). If you can mail this file to the
-developers (see sec. 20 <node20.html#sec:credits> for names and
-addresses), it will help us a lot in understanding the cause of the
-problem and fixing it sooner.
+post-mortem file is always located in the same place and new
+occurrences just overwrite the previous one). If you can mail this
+file to the developers (see sec. credits_ for names and addresses), it
+will help us a lot in understanding the cause of the problem and
+fixing it sooner.
 
 
 The bug tracker
 ---------------
 
 IPython also has an online bug-tracker, located at
 http://projects.scipy.org/ipython/ipython/report/1. In addition to
 mailing the developers, it would be a good idea to file a bug report
 here. This will ensure that the issue is properly followed to
 conclusion. To report new bugs you will have to register first.
 
 You can also use this bug tracker to file feature requests.
 
 Brief history
 =============
 
 
 Origins
 -------
 
 The current IPython system grew out of the following three projects:
 
     * [ipython] by Fernando Pérez. I was working on adding
       Mathematica-type prompts and a flexible configuration system
       (something better than $PYTHONSTARTUP) to the standard Python
       interactive interpreter.
     * [IPP] by Janko Hauser. Very well organized, great usability. Had
       an old help system. IPP was used as the 'container' code into
       which I added the functionality from ipython and LazyPython.
     * [LazyPython] by Nathan Gray. Simple but very powerful. The quick
       syntax (auto parens, auto quotes) and verbose/colored tracebacks
       were all taken from here.
 
-When I found out (see sec. 20 <node20.html#figgins>) about IPP and
-LazyPython I tried to join all three into a unified system. I thought
-this could provide a very nice working environment, both for regular
-programming and scientific computing: shell-like features, IDL/Matlab
-numerics, Mathematica-type prompt history and great object introspection
-and help facilities. I think it worked reasonably well, though it was a
-lot more work than I had initially planned.
+When I found out about IPP and LazyPython I tried to join all three
+into a unified system. I thought this could provide a very nice
+working environment, both for regular programming and scientific
+computing: shell-like features, IDL/Matlab numerics, Mathematica-type
+prompt history and great object introspection and help facilities. I
+think it worked reasonably well, though it was a lot more work than I
+had initially planned.
 
 
 Current status
 --------------
 
 The above listed features work, and quite well for the most part. But
 until a major internal restructuring is done (see below), only bug
 fixing will be done, no other features will be added (unless very minor
 and well localized in the cleaner parts of the code).
 
 IPython consists of some 18000 lines of pure python code, of which
 roughly two thirds is reasonably clean. The rest is, messy code which
 needs a massive restructuring before any further major work is done.
 Even the messy code is fairly well documented though, and most of the
 problems in the (non-existent) class design are well pointed to by a
 PyChecker run. So the rewriting work isn't that bad, it will just be
 time-consuming.
 
 
 Future
 ------
 
 See the separate new_design document for details. Ultimately, I would
 like to see IPython become part of the standard Python distribution as a
 'big brother with batteries' to the standard Python interactive
 interpreter. But that will never happen with the current state of the
 code, so all contributions are welcome.
 
 License
 =======
 
 IPython is released under the terms of the BSD license, whose general
 form can be found at:
 http://www.opensource.org/licenses/bsd-license.php. The full text of the
 IPython license is reproduced below::
 
     IPython is released under a BSD-type license.
 
     Copyright (c) 2001, 2002, 2003, 2004 Fernando Perez
     <[e-mail]>.
 
     Copyright (c) 2001 Janko Hauser <[e-mail]> and  
     Nathaniel Gray <[e-mail]>.
 
     All rights reserved.
 
     Redistribution and use in source and binary forms, with or without
     modification, are permitted provided that the following conditions
     are met:
 
     a. Redistributions of source code must retain the above copyright
     notice, this list of conditions and the following disclaimer.
 
     b. Redistributions in binary form must reproduce the above copyright
     notice, this list of conditions and the following disclaimer in the
     documentation and/or other materials provided with the distribution.
 
     c. Neither the name of the copyright holders nor the names of any
     contributors to this software may be used to endorse or promote
     products derived from this software without specific prior written
     permission.
 
     THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
     "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
     LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS
     FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE
     REGENTS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT,
     INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING,
     BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
     LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
     CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
     LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN
     ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
     POSSIBILITY OF SUCH DAMAGE. 
 
 Individual authors are the holders of the copyright for their code and
 are listed in each file.
 
 Some files (DPyGetOpt.py, for example) may be licensed under different
 conditions. Ultimately each file indicates clearly the conditions under
 which its author/authors have decided to publish the code.
 
 Versions of IPython up to and including 0.6.3 were released under the
 GNU Lesser General Public License (LGPL), available at
 http://www.gnu.org/copyleft/lesser.html.
 
 Credits
 =======
 
 IPython is mainly developed by Fernando Pérez
 <[e-mail]>, but the project was born from mixing in
 Fernando's code with the IPP project by Janko Hauser
 <jhauser-AT-zscout.de> and LazyPython by Nathan Gray
 <n8gray-AT-caltech.edu>. For all IPython-related requests, please
 contact Fernando.
 
 As of early 2006, the following developers have joined the core team:
 
     * [Robert Kern] <rkern-AT-enthought.com>: co-mentored the 2005
       Google Summer of Code project to develop python interactive
       notebooks (XML documents) and graphical interface. This project
       was awarded to the students Tzanko Matev <tsanko-AT-gmail.com> and
       Toni Alatalo <antont-AT-an.org>
     * [Brian Granger] <bgranger-AT-scu.edu>: extending IPython to allow
       support for interactive parallel computing.
     * [Ville Vainio] <vivainio-AT-gmail.com>: Ville is the new
       maintainer for the main trunk of IPython after version 0.7.1.
 
 User or development help should be requested via the IPython mailing lists:
 
 *User list:*
     http://scipy.net/mailman/listinfo/ipython-user 
 *Developer's list:*
     http://scipy.net/mailman/listinfo/ipython-dev 
 
-The IPython project is also very grateful to^7 <footnode.html#foot2913>:
+The IPython project is also very grateful to:
 
 Bill Bumgarner <bbum-AT-friday.com>: for providing the DPyGetOpt module
 which gives very powerful and convenient handling of command-line
 options (light years ahead of what Python 2.1.1's getopt module does).
 
 Ka-Ping Yee <ping-AT-lfw.org>: for providing the Itpl module for
 convenient and powerful string interpolation with a much nicer syntax
 than formatting through the '%' operator.
 
 Arnd Baecker <baecker-AT-physik.tu-dresden.de>: for his many very useful
 suggestions and comments, and lots of help with testing and
 documentation checking. Many of IPython's newer features are a result of
 discussions with him (bugs are still my fault, not his).
 
 Obviously Guido van Rossum and the whole Python development team, that
 goes without saying.
 
 IPython's website is generously hosted at http://ipython.scipy.orgby
 Enthought (http://www.enthought.com). I am very grateful to them and all
 of the SciPy team for their contribution.
 
 Fernando would also like to thank Stephen Figgins <fig-AT-monitor.net>,
 an O'Reilly Python editor. His Oct/11/2001 article about IPP and
 LazyPython, was what got this project started. You can read it at:
 http://www.onlamp.com/pub/a/python/2001/10/11/pythonnews.html.
 
 And last but not least, all the kind IPython users who have emailed new
 code, bug reports, fixes, comments and ideas. A brief list follows,
 please let me know if I have ommitted your name by accident:
 
     * [Jack Moffit] <jack-AT-xiph.org> Bug fixes, including the infamous
       color problem. This bug alone caused many lost hours and
       frustration, many thanks to him for the fix. I've always been a
       fan of Ogg & friends, now I have one more reason to like these folks.
       Jack is also contributing with Debian packaging and many other
       things.
     * [Alexander Schmolck] <a.schmolck-AT-gmx.net> Emacs work, bug
       reports, bug fixes, ideas, lots more. The ipython.el mode for
       (X)Emacs is Alex's code, providing full support for IPython under
       (X)Emacs.
     * [Andrea Riciputi] <andrea.riciputi-AT-libero.it> Mac OSX
       information, Fink package management.
     * [Gary Bishop] <gb-AT-cs.unc.edu> Bug reports, and patches to work
       around the exception handling idiosyncracies of WxPython. Readline
       and color support for Windows.
     * [Jeffrey Collins] <Jeff.Collins-AT-vexcel.com> Bug reports. Much
       improved readline support, including fixes for Python 2.3.
     * [Dryice Liu] <dryice-AT-liu.com.cn> FreeBSD port.
     * [Mike Heeter] <korora-AT-SDF.LONESTAR.ORG>
     * [Christopher Hart] <hart-AT-caltech.edu> PDB integration.
     * [Milan Zamazal] <pdm-AT-zamazal.org> Emacs info.
     * [Philip Hisley] <compsys-AT-starpower.net>
     * [Holger Krekel] <pyth-AT-devel.trillke.net> Tab completion, lots
       more.
     * [Robin Siebler] <robinsiebler-AT-starband.net>
     * [Ralf Ahlbrink] <ralf_ahlbrink-AT-web.de>
     * [Thorsten Kampe] <thorsten-AT-thorstenkampe.de>
     * [Fredrik Kant] <fredrik.kant-AT-front.com> Windows setup.
     * [Syver Enstad] <syver-en-AT-online.no> Windows setup.
     * [Richard] <rxe-AT-renre-europe.com> Global embedding.
     * [Hayden Callow] <h.callow-AT-elec.canterbury.ac.nz> Gnuplot.py 1.6
       compatibility.
     * [Leonardo Santagada] <retype-AT-terra.com.br> Fixes for Windows
       installation.
     * [Christopher Armstrong] <radix-AT-twistedmatrix.com> Bugfixes.
     * [Francois Pinard] <pinard-AT-iro.umontreal.ca> Code and
       documentation fixes.
     * [Cory Dodt] <cdodt-AT-fcoe.k12.ca.us> Bug reports and Windows
       ideas. Patches for Windows installer.
     * [Olivier Aubert] <oaubert-AT-bat710.univ-lyon1.fr> New magics.
     * [King C. Shu] <kingshu-AT-myrealbox.com> Autoindent patch.
     * [Chris Drexler] <chris-AT-ac-drexler.de> Readline packages for
       Win32/CygWin.
     * [Gustavo Cordova Avila] <gcordova-AT-sismex.com> EvalDict code for
       nice, lightweight string interpolation.
     * [Kasper Souren] <Kasper.Souren-AT-ircam.fr> Bug reports, ideas.
     * [Gever Tulley] <gever-AT-helium.com> Code contributions.
     * [Ralf Schmitt] <ralf-AT-brainbot.com> Bug reports & fixes.
     * [Oliver Sander] <osander-AT-gmx.de> Bug reports.
     * [Rod Holland] <rhh-AT-structurelabs.com> Bug reports and fixes to
       logging module.
     * [Daniel 'Dang' Griffith] <pythondev-dang-AT-lazytwinacres.net>
       Fixes, enhancement suggestions for system shell use.
     * [Viktor Ransmayr] <viktor.ransmayr-AT-t-online.de> Tests and
       reports on Windows installation issues. Contributed a true Windows
       binary installer.
     * [Mike Salib] <msalib-AT-mit.edu> Help fixing a subtle bug related
       to traceback printing.
     * [W.J. van der Laan] <gnufnork-AT-hetdigitalegat.nl> Bash-like
       prompt specials.
     * [Antoon Pardon] <Antoon.Pardon-AT-rece.vub.ac.be> Critical fix for
       the multithreaded IPython.
     * [John Hunter] <jdhunter-AT-nitace.bsd.uchicago.edu> Matplotlib
       author, helped with all the development of support for matplotlib
       in IPyhton, including making necessary changes to matplotlib itself.
     * [Matthew Arnison] <maffew-AT-cat.org.au> Bug reports, '%run -d' idea.
     * [Prabhu Ramachandran] <prabhu_r-AT-users.sourceforge.net> Help
       with (X)Emacs support, threading patches, ideas...
     * [Norbert Tretkowski] <tretkowski-AT-inittab.de> help with Debian
       packaging and distribution.
     * [George Sakkis] <gsakkis-AT-eden.rutgers.edu> New matcher for
       tab-completing named arguments of user-defined functions.
     * [Jörgen Stenarson] <jorgen.stenarson-AT-bostream.nu> Wildcard
       support implementation for searching namespaces.
     * [Vivian De Smedt] <vivian-AT-vdesmedt.com> Debugger enhancements,
       so that when pdb is activated from within IPython, coloring, tab
       completion and other features continue to work seamlessly.
     * [Scott Tsai] <scottt958-AT-yahoo.com.tw> Support for automatic
       editor invocation on syntax errors (see
       http://www.scipy.net/roundup/ipython/issue36).
     * [Alexander Belchenko] <bialix-AT-ukr.net> Improvements for win32
       paging system.
     * [Will Maier] <willmaier-AT-ml1.net> Official OpenBSD port.