ipython_directive.py

# -*- coding: utf-8 -*-
"""
Sphinx directive to support embedded IPython code.

This directive allows pasting of entire interactive IPython sessions, prompts
and all, and their code will actually get re-executed at doc build time, with
all prompts renumbered sequentially. It also allows you to input code as a pure
python input by giving the argument python to the directive. The output looks
like an interactive ipython section.

To enable this directive, simply list it in your Sphinx ``conf.py`` file
(making sure the directory where you placed it is visible to sphinx, as is
needed for all Sphinx directives). For example, to enable syntax highlighting
and the IPython directive::

    extensions = ['IPython.sphinxext.ipython_console_highlighting',
                  'IPython.sphinxext.ipython_directive']

The IPython directive outputs code-blocks with the language 'ipython'. So
if you do not have the syntax highlighting extension enabled as well, then
all rendered code-blocks will be uncolored. By default this directive assumes
that your prompts are unchanged IPython ones, but this can be customized.
The configurable options that can be placed in conf.py are:

ipython_savefig_dir:
    The directory in which to save the figures. This is relative to the
    Sphinx source directory. The default is `html_static_path`.
ipython_rgxin:
    The compiled regular expression to denote the start of IPython input
    lines. The default is re.compile('In \[(\d+)\]:\s?(.*)\s*'). You
    shouldn't need to change this.
ipython_rgxout:
    The compiled regular expression to denote the start of IPython output
    lines. The default is re.compile('Out\[(\d+)\]:\s?(.*)\s*'). You
    shouldn't need to change this.
ipython_promptin:
    The string to represent the IPython input prompt in the generated ReST.
    The default is 'In [%d]:'. This expects that the line numbers are used
    in the prompt.
ipython_promptout:
    The string to represent the IPython prompt in the generated ReST. The
    default is 'Out [%d]:'. This expects that the line numbers are used
    in the prompt.
ipython_mplbackend:
    The string which specifies if the embedded Sphinx shell should import
    Matplotlib and set the backend. The value specifies a backend that is
    passed to `matplotlib.use()` before any lines in `ipython_execlines` are
    executed. If not specified in conf.py, then the default value of 'agg' is
    used. To use the IPython directive without matplotlib as a dependency, set
    the value to `None`. It may end up that matplotlib is still imported
    if the user specifies so in `ipython_execlines` or makes use of the
    @savefig pseudo decorator.
ipython_execlines:
    A list of strings to be exec'd in the embedded Sphinx shell. Typical
    usage is to make certain packages always available. Set this to an empty
    list if you wish to have no imports always available. If specified in
    conf.py as `None`, then it has the effect of making no imports available.
    If omitted from conf.py altogether, then the default value of
    ['import numpy as np', 'import matplotlib.pyplot as plt'] is used.
ipython_holdcount
    When the @suppress pseudo-decorator is used, the execution count can be
    incremented or not. The default behavior is to hold the execution count,
    corresponding to a value of `True`. Set this to `False` to increment
    the execution count after each suppressed command.

As an example, to use the IPython directive when `matplotlib` is not available,
one sets the backend to `None`::

    ipython_mplbackend = None

An example usage of the directive is:

.. code-block:: rst

    .. ipython::

        In [1]: x = 1

        In [2]: y = x**2

        In [3]: print(y)

See http://matplotlib.org/sampledoc/ipython_directive.html for additional
documentation.

ToDo
----

- Turn the ad-hoc test() function into a real test suite.
- Break up ipython-specific functionality from matplotlib stuff into better
  separated code.

Authors
-------

- John D Hunter: orignal author.
- Fernando Perez: refactoring, documentation, cleanups, port to 0.11.
- VáclavŠmilauer <eudoxos-AT-arcig.cz>: Prompt generalizations.
- Skipper Seabold, refactoring, cleanups, pure python addition
"""
from __future__ import print_function
from __future__ import unicode_literals

#-----------------------------------------------------------------------------
# Imports
#-----------------------------------------------------------------------------

# Stdlib
import os
import re
import sys
import tempfile
import ast
from pandas.compat import zip, range, map, lmap, u, cStringIO as StringIO
import warnings

# To keep compatibility with various python versions
try:
    from hashlib import md5
except ImportError:
    from md5 import md5

# Third-party
import sphinx
from docutils.parsers.rst import directives
from docutils import nodes
from sphinx.util.compat import Directive

# Our own
from IPython import Config, InteractiveShell
from IPython.core.profiledir import ProfileDir
from IPython.utils import io
from IPython.utils.py3compat import PY3

if PY3:
    from io import StringIO
else:
    from StringIO import StringIO

#-----------------------------------------------------------------------------
# Globals
#-----------------------------------------------------------------------------
# for tokenizing blocks
COMMENT, INPUT, OUTPUT =  range(3)

#-----------------------------------------------------------------------------
# Functions and class declarations
#-----------------------------------------------------------------------------

def block_parser(part, rgxin, rgxout, fmtin, fmtout):
    """
    part is a string of ipython text, comprised of at most one
    input, one ouput, comments, and blank lines.  The block parser
    parses the text into a list of::

      blocks = [ (TOKEN0, data0), (TOKEN1, data1), ...]

    where TOKEN is one of [COMMENT | INPUT | OUTPUT ] and
    data is, depending on the type of token::

      COMMENT : the comment string

      INPUT: the (DECORATOR, INPUT_LINE, REST) where
         DECORATOR: the input decorator (or None)
         INPUT_LINE: the input as string (possibly multi-line)
         REST : any stdout generated by the input line (not OUTPUT)

      OUTPUT: the output string, possibly multi-line

    """
    block = []
    lines = part.split('\n')
    N = len(lines)
    i = 0
    decorator = None
    while 1:

        if i==N:
            # nothing left to parse -- the last line
            break

        line = lines[i]
        i += 1
        line_stripped = line.strip()
        if line_stripped.startswith('#'):
            block.append((COMMENT, line))
            continue

        if line_stripped.startswith('@'):
            # we're assuming at most one decorator -- may need to
            # rethink
            decorator = line_stripped
            continue

        # does this look like an input line?
        matchin = rgxin.match(line)
        if matchin:
            lineno, inputline = int(matchin.group(1)), matchin.group(2)

            # the ....: continuation string
            continuation = '   %s:'%''.join(['.']*(len(str(lineno))+2))
            Nc = len(continuation)
            # input lines can continue on for more than one line, if
            # we have a '\' line continuation char or a function call
            # echo line 'print'.  The input line can only be
            # terminated by the end of the block or an output line, so
            # we parse out the rest of the input line if it is
            # multiline as well as any echo text

            rest = []
            while i<N:

                # look ahead; if the next line is blank, or a comment, or
                # an output line, we're done

                nextline = lines[i]
                matchout = rgxout.match(nextline)
                #print "nextline=%s, continuation=%s, starts=%s"%(nextline, continuation, nextline.startswith(continuation))
                if matchout or nextline.startswith('#'):
                    break
                elif nextline.startswith(continuation):
                    nextline = nextline[Nc:]
                    if nextline and nextline[0] == ' ':
                        nextline = nextline[1:]

                    inputline += '\n' +  nextline

                else:
                    rest.append(nextline)
                i+= 1

            block.append((INPUT, (decorator, inputline, '\n'.join(rest))))
            continue

        # if it looks like an output line grab all the text to the end
        # of the block
        matchout = rgxout.match(line)
        if matchout:
            lineno, output = int(matchout.group(1)), matchout.group(2)
            if i<N-1:
                output = '\n'.join([output] + lines[i:])

            block.append((OUTPUT, output))
            break

    return block


class DecodingStringIO(StringIO, object):
    def __init__(self,buf='',encodings=('utf8',), *args, **kwds):
        super(DecodingStringIO, self).__init__(buf, *args, **kwds)
        self.set_encodings(encodings)

    def set_encodings(self, encodings):
        self.encodings = encodings

    def write(self,data):
        #py 3 compat here
        if isinstance(data,unicode):
            return super(DecodingStringIO, self).write(data)
        else:
            for enc in self.encodings:
                try:
                    data = data.decode(enc)
                    return super(DecodingStringIO, self).write(data)
                except :
                    pass
        # default to brute utf8 if no encoding succeded
            return super(DecodingStringIO, self).write(data.decode('utf8', 'replace'))


class EmbeddedSphinxShell(object):
    """An embedded IPython instance to run inside Sphinx"""

    def __init__(self, exec_lines=None,state=None):

        self.cout = DecodingStringIO(u'')

        if exec_lines is None:
            exec_lines = []

        self.state = state

        # Create config object for IPython
        config = Config()
        config.InteractiveShell.autocall = False
        config.InteractiveShell.autoindent = False
        config.InteractiveShell.colors = 'NoColor'

        # create a profile so instance history isn't saved
        tmp_profile_dir = tempfile.mkdtemp(prefix='profile_')
        profname = 'auto_profile_sphinx_build'
        pdir = os.path.join(tmp_profile_dir,profname)
        profile = ProfileDir.create_profile_dir(pdir)

        # Create and initialize global ipython, but don't start its mainloop.
        # This will persist across different EmbededSphinxShell instances.
        IP = InteractiveShell.instance(config=config, profile_dir=profile)

        # io.stdout redirect must be done after instantiating InteractiveShell
        io.stdout = self.cout
        io.stderr = self.cout

        # For debugging, so we can see normal output, use this:
        #from IPython.utils.io import Tee
        #io.stdout = Tee(self.cout, channel='stdout') # dbg
        #io.stderr = Tee(self.cout, channel='stderr') # dbg

        # Store a few parts of IPython we'll need.
        self.IP = IP
        self.user_ns = self.IP.user_ns
        self.user_global_ns = self.IP.user_global_ns

        self.input = ''
        self.output = ''

        self.is_verbatim = False
        self.is_doctest = False
        self.is_suppress = False

        # Optionally, provide more detailed information to shell.
        self.directive = None

        # on the first call to the savefig decorator, we'll import
        # pyplot as plt so we can make a call to the plt.gcf().savefig
        self._pyplot_imported = False

        # Prepopulate the namespace.
        for line in exec_lines:
            self.process_input_line(line, store_history=False)

    def clear_cout(self):
        self.cout.seek(0)
        self.cout.truncate(0)

    def process_input_line(self, line, store_history=True):
        """process the input, capturing stdout"""

        stdout = sys.stdout
        splitter = self.IP.input_splitter
        try:
            sys.stdout = self.cout
            splitter.push(line)
            more = splitter.push_accepts_more()
            if not more:
                source_raw = splitter.source_raw_reset()[1]
                self.IP.run_cell(source_raw, store_history=store_history)
        finally:
            sys.stdout = stdout

    def process_image(self, decorator):
        """
        # build out an image directive like
        # .. image:: somefile.png
        #    :width 4in
        #
        # from an input like
        # savefig somefile.png width=4in
        """
        savefig_dir = self.savefig_dir
        source_dir = self.source_dir
        saveargs = decorator.split(' ')
        filename = saveargs[1]
        # insert relative path to image file in source
        outfile = os.path.relpath(os.path.join(savefig_dir,filename),
                    source_dir)

        imagerows = ['.. image:: %s'%outfile]

        for kwarg in saveargs[2:]:
            arg, val = kwarg.split('=')
            arg = arg.strip()
            val = val.strip()
            imagerows.append('   :%s: %s'%(arg, val))

        image_file = os.path.basename(outfile) # only return file name
        image_directive = '\n'.join(imagerows)
        return image_file, image_directive

    # Callbacks for each type of token
    def process_input(self, data, input_prompt, lineno):
        """
        Process data block for INPUT token.

        """
        decorator, input, rest = data
        image_file = None
        image_directive = None

        is_verbatim = decorator=='@verbatim' or self.is_verbatim
        is_doctest = (decorator is not None and \
                     decorator.startswith('@doctest')) or self.is_doctest
        is_suppress = decorator=='@suppress' or self.is_suppress
        is_okexcept = decorator=='@okexcept' or self.is_okexcept
        is_okwarning = decorator=='@okwarning' or self.is_okwarning
        is_savefig = decorator is not None and \
                     decorator.startswith('@savefig')

        # set the encodings to be used by DecodingStringIO
        # to convert the execution output into unicode if
        # needed. this attrib is set by IpythonDirective.run()
        # based on the specified block options, defaulting to ['ut
        self.cout.set_encodings(self.output_encoding)

        input_lines = input.split('\n')

        if len(input_lines) > 1:
           if input_lines[-1] != "":
               input_lines.append('') # make sure there's a blank line
                                       # so splitter buffer gets reset

        continuation = '   %s:'%''.join(['.']*(len(str(lineno))+2))

        if is_savefig:
            image_file, image_directive = self.process_image(decorator)

        ret = []
        is_semicolon = False

        # Hold the execution count, if requested to do so.
        if is_suppress and self.hold_count:
            store_history = False
        else:
            store_history = True

        # Note: catch_warnings is not thread safe
        with warnings.catch_warnings(record=True) as ws:
            for i, line in enumerate(input_lines):
                if line.endswith(';'):
                    is_semicolon = True

                if i == 0:
                    # process the first input line
                    if is_verbatim:
                        self.process_input_line('')
                        self.IP.execution_count += 1 # increment it anyway
                    else:
                        # only submit the line in non-verbatim mode
                        self.process_input_line(line, store_history=store_history)
                    formatted_line = '%s %s'%(input_prompt, line)
                else:
                    # process a continuation line
                    if not is_verbatim:
                        self.process_input_line(line, store_history=store_history)

                    formatted_line = '%s %s'%(continuation, line)

                if not is_suppress:
                    ret.append(formatted_line)

        if not is_suppress and len(rest.strip()) and is_verbatim:
            # the "rest" is the standard output of the
            # input, which needs to be added in
            # verbatim mode
            ret.append(rest)

        self.cout.seek(0)
        output = self.cout.read()
        if not is_suppress and not is_semicolon:
            ret.append(output)
        elif is_semicolon: # get spacing right
            ret.append('')

        # context information
        filename = self.state.document.current_source
        lineno = self.state.document.current_line

        # output any exceptions raised during execution to stdout
        # unless :okexcept: has been specified.
        if not is_okexcept and "Traceback" in output:
            s =  "\nException in %s at block ending on line %s\n" % (filename, lineno)
            s += "Specify :okexcept: as an option in the ipython:: block to suppress this message\n"
            sys.stdout.write('\n\n>>>' + ('-' * 73))
            sys.stdout.write(s)
            sys.stdout.write(output)
            sys.stdout.write('<<<' + ('-' * 73) + '\n\n')

        # output any warning raised during execution to stdout
        # unless :okwarning: has been specified.
        if not is_okwarning:
            for w in ws:
                s =  "\nWarning in %s at block ending on line %s\n" % (filename, lineno)
                s += "Specify :okwarning: as an option in the ipython:: block to suppress this message\n"
                sys.stdout.write('\n\n>>>' + ('-' * 73))
                sys.stdout.write(s)
                sys.stdout.write('-' * 76 + '\n')
                s=warnings.formatwarning(w.message, w.category,
                                         w.filename, w.lineno, w.line)
                sys.stdout.write(s)
                sys.stdout.write('<<<' + ('-' * 73) + '\n')

        self.cout.truncate(0)
        return (ret, input_lines, output, is_doctest, decorator, image_file,
                    image_directive)


    def process_output(self, data, output_prompt,
                       input_lines, output, is_doctest, decorator, image_file):
        """
        Process data block for OUTPUT token.

        """
        TAB = ' ' * 4

        if is_doctest and output is not None:

            found = output
            found = found.strip()
            submitted = data.strip()

            if self.directive is None:
                source = 'Unavailable'
                content = 'Unavailable'
            else:
                source = self.directive.state.document.current_source
                content = self.directive.content
                # Add tabs and join into a single string.
                content = '\n'.join([TAB + line for line in content])

            # Make sure the output contains the output prompt.
            ind = found.find(output_prompt)
            if ind < 0:
                e = ('output does not contain output prompt\n\n'
                     'Document source: {0}\n\n'
                     'Raw content: \n{1}\n\n'
                     'Input line(s):\n{TAB}{2}\n\n'
                     'Output line(s):\n{TAB}{3}\n\n')
                e = e.format(source, content, '\n'.join(input_lines),
                             repr(found), TAB=TAB)
                raise RuntimeError(e)
            found = found[len(output_prompt):].strip()

            # Handle the actual doctest comparison.
            if decorator.strip() == '@doctest':
                # Standard doctest
                if found != submitted:
                    e = ('doctest failure\n\n'
                         'Document source: {0}\n\n'
                         'Raw content: \n{1}\n\n'
                         'On input line(s):\n{TAB}{2}\n\n'
                         'we found output:\n{TAB}{3}\n\n'
                         'instead of the expected:\n{TAB}{4}\n\n')
                    e = e.format(source, content, '\n'.join(input_lines),
                                 repr(found), repr(submitted), TAB=TAB)
                    raise RuntimeError(e)
            else:
                self.custom_doctest(decorator, input_lines, found, submitted)

    def process_comment(self, data):
        """Process data fPblock for COMMENT token."""
        if not self.is_suppress:
            return [data]

    def save_image(self, image_file):
        """
        Saves the image file to disk.
        """
        self.ensure_pyplot()
        command = ('plt.gcf().savefig("%s", bbox_inches="tight", '
                   'dpi=100)' % image_file)

        #print 'SAVEFIG', command  # dbg
        self.process_input_line('bookmark ipy_thisdir', store_history=False)
        self.process_input_line('cd -b ipy_savedir', store_history=False)
        self.process_input_line(command, store_history=False)
        self.process_input_line('cd -b ipy_thisdir', store_history=False)
        self.process_input_line('bookmark -d ipy_thisdir', store_history=False)
        self.clear_cout()

    def process_block(self, block):
        """
        process block from the block_parser and return a list of processed lines
        """
        ret = []
        output = None
        input_lines = None
        lineno = self.IP.execution_count

        input_prompt = self.promptin % lineno
        output_prompt = self.promptout % lineno
        image_file = None
        image_directive = None

        for token, data in block:
            if token == COMMENT:
                out_data = self.process_comment(data)
            elif token == INPUT:
                (out_data, input_lines, output, is_doctest, decorator,
                    image_file, image_directive) = \
                          self.process_input(data, input_prompt, lineno)
            elif token == OUTPUT:
                out_data = \
                    self.process_output(data, output_prompt,
                                        input_lines, output, is_doctest,
                                        decorator, image_file)
            if out_data:
                ret.extend(out_data)

        # save the image files
        if image_file is not None:
            self.save_image(image_file)

        return ret, image_directive

    def ensure_pyplot(self):
        """
        Ensures that pyplot has been imported into the embedded IPython shell.

        Also, makes sure to set the backend appropriately if not set already.

        """
        # We are here if the @figure pseudo decorator was used. Thus, it's
        # possible that we could be here even if python_mplbackend were set to
        # `None`. That's also strange and perhaps worthy of raising an
        # exception, but for now, we just set the backend to 'agg'.

        if not self._pyplot_imported:
            if 'matplotlib.backends' not in sys.modules:
                # Then ipython_matplotlib was set to None but there was a
                # call to the @figure decorator (and ipython_execlines did
                # not set a backend).
                #raise Exception("No backend was set, but @figure was used!")
                import matplotlib
                matplotlib.use('agg')

            # Always import pyplot into embedded shell.
            self.process_input_line('import matplotlib.pyplot as plt',
                                    store_history=False)
            self._pyplot_imported = True

    def process_pure_python(self, content):
        """
        content is a list of strings. it is unedited directive content

        This runs it line by line in the InteractiveShell, prepends
        prompts as needed capturing stderr and stdout, then returns
        the content as a list as if it were ipython code
        """
        output = []
        savefig = False # keep up with this to clear figure
        multiline = False # to handle line continuation
        multiline_start = None
        fmtin = self.promptin

        ct = 0

        for lineno, line in enumerate(content):

            line_stripped = line.strip()
            if not len(line):
                output.append(line)
                continue

            # handle decorators
            if line_stripped.startswith('@'):
                output.extend([line])
                if 'savefig' in line:
                    savefig = True # and need to clear figure
                continue

            # handle comments
            if line_stripped.startswith('#'):
                output.extend([line])
                continue

            # deal with lines checking for multiline
            continuation  = u'   %s:'% ''.join(['.']*(len(str(ct))+2))
            if not multiline:
                modified = u"%s %s" % (fmtin % ct, line_stripped)
                output.append(modified)
                ct += 1
                try:
                    ast.parse(line_stripped)
                    output.append(u'')
                except Exception: # on a multiline
                    multiline = True
                    multiline_start = lineno
            else: # still on a multiline
                modified = u'%s %s' % (continuation, line)
                output.append(modified)

                # if the next line is indented, it should be part of multiline
                if len(content) > lineno + 1:
                    nextline = content[lineno + 1]
                    if len(nextline) - len(nextline.lstrip()) > 3:
                        continue
                try:
                    mod = ast.parse(
                            '\n'.join(content[multiline_start:lineno+1]))
                    if isinstance(mod.body[0], ast.FunctionDef):
                        # check to see if we have the whole function
                        for element in mod.body[0].body:
                            if isinstance(element, ast.Return):
                                multiline = False
                    else:
                        output.append(u'')
                        multiline = False
                except Exception:
                    pass

            if savefig: # clear figure if plotted
                self.ensure_pyplot()
                self.process_input_line('plt.clf()', store_history=False)
                self.clear_cout()
                savefig = False

        return output

    def custom_doctest(self, decorator, input_lines, found, submitted):
        """
        Perform a specialized doctest.

        """
        from .custom_doctests import doctests

        args = decorator.split()
        doctest_type = args[1]
        if doctest_type in doctests:
            doctests[doctest_type](self, args, input_lines, found, submitted)
        else:
            e = "Invalid option to @doctest: {0}".format(doctest_type)
            raise Exception(e)


class IPythonDirective(Directive):

    has_content = True
    required_arguments = 0
    optional_arguments = 4 # python, suppress, verbatim, doctest
    final_argumuent_whitespace = True
    option_spec = { 'python': directives.unchanged,
                    'suppress' : directives.flag,
                    'verbatim' : directives.flag,
                    'doctest' : directives.flag,
                    'okexcept': directives.flag,
                    'okwarning': directives.flag,
                    'output_encoding': directives.unchanged_required
                  }

    shell = None

    seen_docs = set()

    def get_config_options(self):
        # contains sphinx configuration variables
        config = self.state.document.settings.env.config

        # get config variables to set figure output directory
        confdir = self.state.document.settings.env.app.confdir
        savefig_dir = config.ipython_savefig_dir
        source_dir = os.path.dirname(self.state.document.current_source)
        if savefig_dir is None:
            savefig_dir = config.html_static_path
        if isinstance(savefig_dir, list):
            savefig_dir = savefig_dir[0] # safe to assume only one path?
        savefig_dir = os.path.join(confdir, savefig_dir)

        # get regex and prompt stuff
        rgxin      = config.ipython_rgxin
        rgxout     = config.ipython_rgxout
        promptin   = config.ipython_promptin
        promptout  = config.ipython_promptout
        mplbackend = config.ipython_mplbackend
        exec_lines = config.ipython_execlines
        hold_count = config.ipython_holdcount

        return (savefig_dir, source_dir, rgxin, rgxout,
                promptin, promptout, mplbackend, exec_lines, hold_count)

    def setup(self):
        # Get configuration values.
        (savefig_dir, source_dir, rgxin, rgxout, promptin, promptout,
         mplbackend, exec_lines, hold_count) = self.get_config_options()

        if self.shell is None:
            # We will be here many times.  However, when the
            # EmbeddedSphinxShell is created, its interactive shell member
            # is the same for each instance.

            if mplbackend:
                import matplotlib
                # Repeated calls to use() will not hurt us since `mplbackend`
                # is the same each time.
                matplotlib.use(mplbackend)

            # Must be called after (potentially) importing matplotlib and
            # setting its backend since exec_lines might import pylab.
            self.shell = EmbeddedSphinxShell(exec_lines, self.state)

            # Store IPython directive to enable better error messages
            self.shell.directive = self

        # reset the execution count if we haven't processed this doc
        #NOTE: this may be borked if there are multiple seen_doc tmp files
        #check time stamp?
        if not self.state.document.current_source in self.seen_docs:
            self.shell.IP.history_manager.reset()
            self.shell.IP.execution_count = 1
            self.shell.IP.prompt_manager.width = 0
            self.seen_docs.add(self.state.document.current_source)

        # and attach to shell so we don't have to pass them around
        self.shell.rgxin = rgxin
        self.shell.rgxout = rgxout
        self.shell.promptin = promptin
        self.shell.promptout = promptout
        self.shell.savefig_dir = savefig_dir
        self.shell.source_dir = source_dir
        self.shell.hold_count = hold_count

        # setup bookmark for saving figures directory
        self.shell.process_input_line('bookmark ipy_savedir %s'%savefig_dir,
                                      store_history=False)
        self.shell.clear_cout()

        return rgxin, rgxout, promptin, promptout

    def teardown(self):
        # delete last bookmark
        self.shell.process_input_line('bookmark -d ipy_savedir',
                                      store_history=False)
        self.shell.clear_cout()

    def run(self):
        debug = False

        #TODO, any reason block_parser can't be a method of embeddable shell
        # then we wouldn't have to carry these around
        rgxin, rgxout, promptin, promptout = self.setup()

        options = self.options
        self.shell.is_suppress = 'suppress' in options
        self.shell.is_doctest = 'doctest' in options
        self.shell.is_verbatim = 'verbatim' in options
        self.shell.is_okexcept = 'okexcept' in options
        self.shell.is_okwarning = 'okwarning' in options

        self.shell.output_encoding = [options.get('output_encoding', 'utf8')]

        # handle pure python code
        if 'python' in self.arguments:
            content = self.content
            self.content = self.shell.process_pure_python(content)

        parts = '\n'.join(self.content).split('\n\n')

        lines = ['.. code-block:: ipython', '']
        figures = []

        for part in parts:
            block = block_parser(part, rgxin, rgxout, promptin, promptout)
            if len(block):
                rows, figure = self.shell.process_block(block)
                for row in rows:
                    lines.extend(['   %s'%line for line in row.split('\n')])

                if figure is not None:
                    figures.append(figure)

        for figure in figures:
            lines.append('')
            lines.extend(figure.split('\n'))
            lines.append('')

        if len(lines)>2:
            if debug:
                print('\n'.join(lines))
            else:
                # This has to do with input, not output. But if we comment
                # these lines out, then no IPython code will appear in the
                # final output.
                self.state_machine.insert_input(
                    lines, self.state_machine.input_lines.source(0))

        # cleanup
        self.teardown()

        return []

# Enable as a proper Sphinx directive
def setup(app):
    setup.app = app

    app.add_directive('ipython', IPythonDirective)
    app.add_config_value('ipython_savefig_dir', None, 'env')
    app.add_config_value('ipython_rgxin',
                         re.compile('In \[(\d+)\]:\s?(.*)\s*'), 'env')
    app.add_config_value('ipython_rgxout',
                         re.compile('Out\[(\d+)\]:\s?(.*)\s*'), 'env')
    app.add_config_value('ipython_promptin', 'In [%d]:', 'env')
    app.add_config_value('ipython_promptout', 'Out[%d]:', 'env')

    # We could just let matplotlib pick whatever is specified as the default
    # backend in the matplotlibrc file, but this would cause issues if the
    # backend didn't work in headless environments. For this reason, 'agg'
    # is a good default backend choice.
    app.add_config_value('ipython_mplbackend', 'agg', 'env')

    # If the user sets this config value to `None`, then EmbeddedSphinxShell's
    # __init__ method will treat it as [].
    execlines = ['import numpy as np', 'import matplotlib.pyplot as plt']
    app.add_config_value('ipython_execlines', execlines, 'env')

    app.add_config_value('ipython_holdcount', True, 'env')

# Simple smoke test, needs to be converted to a proper automatic test.
def test():

    examples = [
        r"""
In [9]: pwd
Out[9]: '/home/jdhunter/py4science/book'

In [10]: cd bookdata/
/home/jdhunter/py4science/book/bookdata

In [2]: from pylab import *

In [2]: ion()

In [3]: im = imread('stinkbug.png')

@savefig mystinkbug.png width=4in
In [4]: imshow(im)
Out[4]: <matplotlib.image.AxesImage object at 0x39ea850>

""",
        r"""

In [1]: x = 'hello world'

# string methods can be
# used to alter the string
@doctest
In [2]: x.upper()
Out[2]: 'HELLO WORLD'

@verbatim
In [3]: x.st<TAB>
x.startswith  x.strip
""",
    r"""

In [130]: url = 'http://ichart.finance.yahoo.com/table.csv?s=CROX\
   .....: &d=9&e=22&f=2009&g=d&a=1&br=8&c=2006&ignore=.csv'

In [131]: print url.split('&')
['http://ichart.finance.yahoo.com/table.csv?s=CROX', 'd=9', 'e=22', 'f=2009', 'g=d', 'a=1', 'b=8', 'c=2006', 'ignore=.csv']

In [60]: import urllib

""",
    r"""\

In [133]: import numpy.random

@suppress
In [134]: numpy.random.seed(2358)

@doctest
In [135]: numpy.random.rand(10,2)
Out[135]:
array([[ 0.64524308,  0.59943846],
       [ 0.47102322,  0.8715456 ],
       [ 0.29370834,  0.74776844],
       [ 0.99539577,  0.1313423 ],
       [ 0.16250302,  0.21103583],
       [ 0.81626524,  0.1312433 ],
       [ 0.67338089,  0.72302393],
       [ 0.7566368 ,  0.07033696],
       [ 0.22591016,  0.77731835],
       [ 0.0072729 ,  0.34273127]])

""",

    r"""
In [106]: print x
jdh

In [109]: for i in range(10):
   .....:     print i
   .....:
   .....:
0
1
2
3
4
5
6
7
8
9
""",

        r"""

In [144]: from pylab import *

In [145]: ion()

# use a semicolon to suppress the output
@savefig test_hist.png width=4in
In [151]: hist(np.random.randn(10000), 100);


@savefig test_plot.png width=4in
In [151]: plot(np.random.randn(10000), 'o');
   """,

        r"""
# use a semicolon to suppress the output
In [151]: plt.clf()

@savefig plot_simple.png width=4in
In [151]: plot([1,2,3])

@savefig hist_simple.png width=4in
In [151]: hist(np.random.randn(10000), 100);

""",
     r"""
# update the current fig
In [151]: ylabel('number')

In [152]: title('normal distribution')


@savefig hist_with_text.png
In [153]: grid(True)

@doctest float
In [154]: 0.1 + 0.2
Out[154]: 0.3

@doctest float
In [155]: np.arange(16).reshape(4,4)
Out[155]:
array([[ 0,  1,  2,  3],
       [ 4,  5,  6,  7],
       [ 8,  9, 10, 11],
       [12, 13, 14, 15]])

In [1]: x = np.arange(16, dtype=float).reshape(4,4)

In [2]: x[0,0] = np.inf

In [3]: x[0,1] = np.nan

@doctest float
In [4]: x
Out[4]:
array([[ inf,  nan,   2.,   3.],
       [  4.,   5.,   6.,   7.],
       [  8.,   9.,  10.,  11.],
       [ 12.,  13.,  14.,  15.]])


        """,
        ]
    # skip local-file depending first example:
    examples = examples[1:]

    #ipython_directive.DEBUG = True  # dbg
    #options = dict(suppress=True)  # dbg
    options = dict()
    for example in examples:
        content = example.split('\n')
        IPythonDirective('debug', arguments=None, options=options,
                          content=content, lineno=0,
                          content_offset=None, block_text=None,
                          state=None, state_machine=None,
                          )

# Run test suite as a script
if __name__=='__main__':
    if not os.path.isdir('_static'):
        os.mkdir('_static')
    test()
    print('All OK? Check figures in _static/')