def MousePos(widget=None):
pos = Experiment._last_instance()._app.mouse_pos_ref
if widget is None:
return pos
else:
return Ref.cond(MouseWithin(widget),
Ref(map, operator.sub, pos, widget.pos), None)
def __init__(self,
textstr,
x=None,
y=None,
anchor_x='center',
anchor_y='center',
font_name=None,
font_size=18,
color=(255, 255, 255, 255),
bold=False,
italic=False,
halign='center',
width=None,
height=None,
multiline=False,
dpi=None,
group=None,
parent=None,
save_log=True):
super(Text, self).__init__(interval=0,
parent=parent,
duration=0,
save_log=save_log)
self.textstr = textstr
self.font_name = font_name
self.font_size = font_size
self.color = color
# set loc to center if none supplied
if x is None:
x = Ref(self['exp']['window'], 'width') // 2
self.x = x
if y is None:
y = Ref(self['exp']['window'], 'height') // 2
self.y = y
self.anchor_x = anchor_x
self.anchor_y = anchor_y
self.bold = bold
self.italic = italic
self.halign = halign
self.width = width
self.height = height
self.multiline = multiline
self.dpi = dpi
self.group = group
self.log_attrs.extend([
'textstr', 'font_name', 'font_size', 'color', 'x', 'y', 'anchor_x',
'anchor_y', 'bold', 'italic', 'halign', 'width', 'height',
'multiline'
])
pass
def _enter(self):
self._button_names = [button._name for button in self.__buttons]
if self._correct_resp is None:
self._correct_resp = []
elif type(self.correct_resp) not in (list, tuple):
self._correct_resp = [self._correct_resp]
self.__pressed_ref = Ref(
lambda lst: [name for name, down in lst if down],
[(button.name, button.state == "down")
for button in self.__buttons])
super(ButtonPress, self)._enter()
def __init__(self):
# set up the values of interest and their refs
self._width = 0.0
self._width_ref = Ref.getattr(self, "_width")
self._height = 0.0
self._height_ref = Ref.getattr(self, "_height")
self._last_flip = event_time(0.0, 0.0)
self._last_flip_ref = Ref.getattr(self, "_last_flip")
self._mouse_pos = (0, 0)
self._mouse_pos_ref = Ref.getattr(self, "_mouse_pos")
self._mouse_button = None
self._mouse_button_ref = Ref.getattr(self, "_mouse_button")
self._keys_down = set()
self._issued_key_refs = weakref.WeakValueDictionary()
def __init__(self):
# set up the values of interest and their refs
self._width = 0.0
self._width_ref = Ref.getattr(self, "_width")
self._height = 0.0
self._height_ref = Ref.getattr(self, "_height")
self._last_flip = event_time(0.0, 0.0)
self._last_flip_ref = Ref.getattr(self, "_last_flip")
self._mouse_pos = (0, 0)
self._mouse_pos_ref = Ref.getattr(self, "_mouse_pos")
self._mouse_button = None
self._mouse_button_ref = Ref.getattr(self, "_mouse_button")
self._keys_down = set()
self._issued_key_refs = weakref.WeakValueDictionary()
def MousePos(widget=None):
"""Returns the position of the mouse.
If given a widget, this function will return the position of the
mouse in reference to the position of the widget. If widget is set
to None, then this function will return the mouse position in
relation to the experiment window.
"""
pos = Experiment._last_instance().screen.mouse_pos
if widget is None:
return pos
else:
return Ref.cond(MouseWithin(widget),
Ref(map, operator.sub, pos, widget.pos), None)
def __init__(self,
imgstr,
x=None,
y=None,
anchor_x=None,
anchor_y=None,
flip_x=False,
flip_y=False,
rotation=0,
scale=1.0,
opacity=255,
group=None,
parent=None,
save_log=True):
super(Image, self).__init__(interval=0,
parent=parent,
duration=0,
save_log=save_log)
self.imgstr = imgstr
self.rotation = rotation
self.scale = scale
self.opacity = opacity
self.group = group
# set loc to center if none supplied
if x is None:
x = Ref(self['exp']['window'], 'width') // 2
self.x = x
if y is None:
y = Ref(self['exp']['window'], 'height') // 2
self.y = y
# eventually process for strings indicating where to anchor,
# such as LEFT, BOTTOM_RIGHT, etc...
self.anchor_x = anchor_x
self.anchor_y = anchor_y
self.flip_x = flip_x
self.flip_y = flip_y
# append log attrs
self.log_attrs.extend([
'imgstr', 'rotation', 'scale', 'opacity', 'x', 'y', 'flip_x',
'flip_y'
])
pass
def get_var_ref(self, name):
try:
return self.__issued_refs[name]
except KeyError:
ref = Ref.getitem(self._vars, name)
self.__issued_refs[name] = ref
return ref
def get_var_ref(self, name):
try:
return self.__issued_refs[name]
except KeyError:
ref = Ref.getitem(self._vars, name)
self.__issued_refs[name] = ref
return ref
def __getitem__(self, index):
if hasattr(self, index):
return Ref(self, index)
else:
class_name = get_class_name(self)[0]
raise ValueError('%s state does not have attribute "%s".' %
(class_name, index))
def _get_key_ref(self, name):
try:
return self._issued_key_refs[name]
except KeyError:
ref = Ref(self._is_key_down, name)
self._issued_key_refs[name] = ref
return ref
def get_var_ref(self, name):
try:
return self.__issued_refs[name]
except KeyError:
# ref = Ref.getitem(self._vars, name)
ref = Ref(self.get_var, name, _parent_state=self)
self.__issued_refs[name] = ref
return ref
def MousePos(widget=None):
pos = Experiment._last_instance()._app.mouse_pos_ref
if widget is None:
return pos
else:
return Ref.cond(MouseWithin(widget),
Ref(map, operator.sub, pos, widget.pos),
None)
def __init__(self,
movstr,
x=None,
y=None,
anchor_x=None,
anchor_y=None,
rotation=0,
scale=1.0,
opacity=255,
framerate=1 / 30.,
group=None,
parent=None,
save_log=True):
super(Movie, self).__init__(interval=framerate,
parent=parent,
duration=-1,
save_log=save_log)
self.movstr = movstr
self.rotation = rotation
self.scale = scale
self.opacity = opacity
self.group = group
# set loc to center if none supplied
if x is None:
x = Ref(self['exp']['window'], 'width') // 2
self.x = x
if y is None:
y = Ref(self['exp']['window'], 'height') // 2
self.y = y
# eventually process for strings indicating where to anchor,
# such as LEFT, BOTTOM_RIGHT, etc...
self.anchor_x = anchor_x
self.anchor_y = anchor_y
self._player = pyglet.media.Player()
self._player.eos_action = self._player.EOS_PAUSE
# append log attrs
self.log_attrs.extend(
['movstr', 'rotation', 'scale', 'opacity', 'x', 'y'])
pass
def __init__(self, new_time=None, parent=None, save_log=True):
# init the parent class
super(ResetClock, self).__init__(interval=0, parent=parent,
duration=0,
save_log=save_log)
if new_time is None:
# eval to now if nothing specified
new_time = Ref(gfunc=lambda:now())
self.new_time = new_time
def __init__(self, exp, fullscreen=None, size=None):
super(ExpApp, self).__init__()
#if size is not None:
# Window.size=size
#if fullscreen is not None:
# Window.fullscreen = fullscreen
self.exp = exp
self.callbacks = {}
self.pending_flip_time = None
self.video_queue = []
self.keys_down = set()
self.issued_key_refs = weakref.WeakValueDictionary()
self.mouse_pos = (None, None)
self.mouse_pos_ref = Ref.getattr(self, "mouse_pos")
self.mouse_button = None
self.mouse_button_ref = Ref.getattr(self, "mouse_button")
self.width_ref = Ref.getattr(Window, "width")
self.height_ref = Ref.getattr(Window, "height")
self.__screen = Screen(self)
def __init__(self, exp, fullscreen=None, size=None):
super(ExpApp, self).__init__()
#if size is not None:
# Window.size=size
#if fullscreen is not None:
# Window.fullscreen = fullscreen
self.exp = exp
self.callbacks = {}
self.pending_flip_time = None
self.video_queue = []
self.keys_down = set()
self.issued_key_refs = weakref.WeakValueDictionary()
self.mouse_pos = (None, None)
self.mouse_pos_ref = Ref.getattr(self, "mouse_pos")
self.mouse_button = None
self.mouse_button_ref = Ref.getattr(self, "mouse_button")
self.width_ref = Ref.getattr(Window, "width")
self.height_ref = Ref.getattr(Window, "height")
self.__screen = Screen(self)
def Get(variable):
"""Retrieve an experiment variable.
Parameters
----------
variable : str
Name of variable to retrieve. Can be a Reference evaluated
at runtime.
"""
gfunc = lambda: Experiment.last_instance()._vars[val(variable)]
return Ref(gfunc=gfunc)
def __getattr__(self, name):
try:
return self.__issued_refs[name]
except KeyError:
try:
props = WidgetState.property_aliases[name]
except KeyError:
if name in self.__widget_param_names:
props = name
else:
return super(WidgetState, self).__getattr__(name)
if isinstance(props, str):
ref = Ref(self.get_current_param, props)
elif isinstance(props, tuple):
ref = tuple(
Ref(self.get_current_param, prop) for prop in props)
else:
raise RuntimeError("Bad value for 'props': %r" % props)
self.__issued_refs[name] = ref
return ref
def _enter(self):
self._button_names = [button._name for button in self.__buttons]
if self._correct_resp is None:
self._correct_resp = []
elif type(self.correct_resp) not in (list, tuple):
self._correct_resp = [self._correct_resp]
self.__pressed_ref = Ref(
lambda lst: [name for name, down in lst if down],
[(button.name, button.state == "down") for
button in self.__buttons])
super(ButtonPress, self)._enter()
def MouseButton(widget=None):
"""Returns a Reference to the next mouse button to be pressed.
If given a widget, it will only return the mouse button pressed if it was pressed
while the mouse was within the widget. If not given a widget, it will return a
reference to the next button to be pressed on the mouse. """
button = Experiment._last_instance()._app.mouse_button_ref
if widget is None:
return button
else:
return Ref.cond(MouseWithin(widget), button, None)
def __init__(self, exp):
super(ExpApp, self).__init__()
self.exp = exp
self.callbacks = {}
self.pending_flip_time = None
self.video_queue = []
self.keys_down = set()
self.issued_key_refs = weakref.WeakValueDictionary()
self.mouse_pos = (None, None)
self.mouse_pos_ref = Ref.getattr(self, "mouse_pos")
self.mouse_button = None
self.mouse_button_ref = Ref.getattr(self, "mouse_button")
self.width_ref = Ref.getattr(Window, "width")
self.height_ref = Ref.getattr(Window, "height")
self.last_flip = event_time(0.0, 0.0)
self.last_flip_ref = Ref.getattr(self, "last_flip")
self.force_blocking_flip = False
self.force_nonblocking_flip = False
self.__screen = Screen(self)
self.flip_interval = 1/60. # default to 60 Hz
def __init__(self, vstate, duration=1.0,
parent=None, save_log=True):
super(Show, self).__init__(parent=parent, duration=duration,
save_log=save_log)
# remove vstate from parent if it exists
self.claim_child(vstate)
# add the wait and unshow states
self._show_state = vstate
self._wait_state = Wait(duration, parent=self)
self._unshow_state = Unshow(vstate, parent=self)
# expose the shown
self.shown = vstate['shown']
# save the show and hide times
self.show_time = Ref(self._show_state,'first_flip')
self.unshow_time = Ref(self._unshow_state,'first_flip')
# append times to log
self.log_attrs.extend(['show_time','unshow_time'])
def While(condition, body=None, name="WHILE", blocking=True):
if body is None:
body = Serial(name="WHILE_BODY")
body.override_instantiation_context()
with Serial(name=name, blocking=blocking) as s:
Wait(until=condition, name="WAIT_TO_START")
with Parallel(name=name) as p:
Wait(until=Ref.not_(condition), name="WAIT_TO_STOP")
p.claim_child(body)
body._blocking = False
p.override_instantiation_context()
s.override_instantiation_context()
return body
def MousePos(widget=None):
"""Returns the position of the mouse.
If given a widget, this function will return the position of the mouse in
reference to the position of the widget. If widget is set to None, then
this function will return the mouse position in relation to the experiment
window. """
pos = Experiment._last_instance()._app.mouse_pos_ref
if widget is None:
return pos
else:
return Ref.cond(MouseWithin(widget),
Ref(map, operator.sub, pos, widget.pos),
None)
def MouseButton(widget=None):
"""Returns a Reference to the next mouse button to be pressed.
If given a widget, it will only return the mouse button pressed if
it was pressed while the mouse was within the widget. If not given
a widget, it will return a reference to the next button to be
pressed on the mouse.
"""
button = Experiment._last_instance().screen.mouse_button
if widget is None:
return button
else:
return Ref.cond(MouseWithin(widget), button, None)
def Get(variable):
"""Retrieve an experiment variable.
Parameters
----------
variable : str
Name of variable to retrieve. Can be a Reference evaluated
at runtime.
Example
-------
with Parallel():
txt = Text('Press a key as quickly as you can!')
key = KeyPress(base_time=txt['last_flip']['time'])
Unshow(txt)
Set('good',key['rt']<0.5)
with If(Get('good')) as if_state:
with if_state.true_state:
Show(Text('Good job!'), duration=1.0)
with if_state.false_state:
Show(Text('Better luck next time.'), duration=1.0)
Text will be shown on the screen, instructing the participant to press
a key as quickly as they can. The participant will press a key while
the text is on the screen, then the text will be removed. The 'Set'
state will be used to define a variable for assessing the participant's
reaction time for the key press that just occurred, and the 'Get' state
accesses that new variable. If the participant's reaction time was
faster than 0.5 seconds, the text 'Good job!' will appear on the
screen. If the participant's reaction time was slower than 0.5 seconds,
the text 'Better luck next time.' will appear on the screen.
Log Parameters
--------------
All parameters above are available to be accessed and
manipulated within the experiment code, and will be automatically
recorded in the state.yaml and state.csv files. Refer to State class
docstring for addtional logged parameters.
"""
gfunc = lambda: Experiment.last_instance()._vars[val(variable)]
return Ref(gfunc=gfunc)
def __init__(self):
self._scale_factor = 1.0
self._scale_factor_ref = Ref.getattr(self, "_scale_factor")
self.scale_down = False
self.scale_up = False
self._scale_box = None
def __init__(self):
self._scale_factor = 1.0
self._scale_factor_ref = Ref.getattr(self, "_scale_factor")
self.scale_down = False
self.scale_up = False
self._scale_box = None
def MouseButton(widget=None):
button = Experiment._last_instance()._app.mouse_button_ref
if widget is None:
return button
else:
return Ref.cond(MouseWithin(widget), button, None)
def MouseButton(widget=None):
button = Experiment._last_instance()._app.mouse_button_ref
if widget is None:
return button
else:
return Ref.cond(MouseWithin(widget), button, None)
class ButtonPress(CallbackState):
def __init__(self,
buttons=None,
correct_resp=None,
base_time=None,
duration=None,
parent=None,
save_log=True,
name=None,
blocking=True):
super(ButtonPress, self).__init__(parent=parent,
duration=duration,
save_log=save_log,
name=name,
blocking=blocking)
if buttons is None:
self.__buttons = []
elif type(buttons) not in (list, tuple):
self.__buttons = [buttons]
else:
self.__buttons = buttons
self._button_names = None
self._init_correct_resp = correct_resp
self._init_base_time = None
self._pressed = ''
self._press_time = {"time": None, "error": None}
self._correct = False
self._rt = None
self.__pressed_ref = None
# append log vars
self._log_attrs.extend([
'button_names', 'correct_resp', 'base_time', 'pressed',
'press_time', 'correct', 'rt'
])
self.__parallel = None
def _enter(self):
self._button_names = [button._name for button in self.__buttons]
if self._correct_resp is None:
self._correct_resp = []
elif type(self.correct_resp) not in (list, tuple):
self._correct_resp = [self._correct_resp]
self.__pressed_ref = Ref(
lambda lst: [name for name, down in lst if down],
[(button.name, button.state == "down")
for button in self.__buttons])
super(ButtonPress, self)._enter()
def _callback(self):
if self._base_time is None:
self._base_time = self._start_time
self._pressed = ''
self._press_time = None
self._correct = False
self._rt = None
self.__pressed_ref.add_change_callback(self.button_callback)
def button_callback(self):
self.claim_exceptions()
pressed_list = self.__pressed_ref.eval()
if not len(pressed_list):
return
button = pressed_list[0]
self._pressed = button
self._press_time = self._exp._app.event_time
# calc RT if something pressed
self._rt = self._press_time['time'] - self._base_time
if self._pressed in self._correct_resp:
self._correct = True
# let's leave b/c we're all done
self.cancel(self._press_time['time'])
def _leave(self):
self.__pressed_ref.remove_change_callback(self.button_callback)
super(ButtonPress, self)._leave()
def __enter__(self):
if self.__parallel is not None:
raise RuntimeError("ButtonPress context is not reentrant!") #!!!
#TODO: make sure we're the previous state?
self.__parallel = Parallel(name="BUTTONPRESS")
self.__parallel.override_instantiation_context()
self.__parallel.claim_child(self)
self.__parallel.__enter__()
return self
def __exit__(self, type, value, tb):
ret = self.__parallel.__exit__(type, value, tb)
for child in self.__parallel._children[1:]:
child._blocking = False
self.__buttons.extend(iter_nested_buttons(self.__parallel))
self.__parallel = None
return ret
def FreeKey(self, lbl, max_duration=10.0, max_resp=100, base_time=None):
"""
Perform free recall typed responses.
Parameters
----------
lbl : Label state
The text that will appear on the screen to indicate to the
participant that they are to type a response. This text
will disappear from the screen when a response is
begun and return when ready for the next response. It's a
good idea to use something like a label with '???????'.
max_duration : {10.0, float}
The amount of time in seconds that the participant is given
to respond.
max_resp : {100, int}
Maximum number of responses that the participant is allowed
to enter.
base_time : float
Manually set a time reference for the start of the state. This
will be used to calculate reaction times.
Example
--------
FreeKey(Label('???????'), max_duration=15.0)
The message '??????' will appear on the screen,
and participants will be given 15 seconds to enter a response,
replacing that text. They can enter as many responses as possible
in the 15 second time period.
Log Parameters
---------------
All parameters above and below are available to be accessed and
manipulated within the experiment code, and will be automatically
recorded in the state.yaml and state.csv files. Refer to State class
docstring for additional logged parameters.
responses : list
List of typed responses, each with the following information:
first_key_time, first_key_rt, enter_key_time, enter_key_rt,
response, response_num.
The time is the actual time, the rt is the time since the
base_time.
"""
# I'd like the lbl to be up until the below is done. How?
# is it just that I would cancel it at the end here?
#lbl = Label(text=txt, font_size=40)
self.claim_child(lbl)
with UntilDone():
# container for responses
self.responses = []
# info for each response
self.fk_num_resp = 0
self.fk_first_key_time = 0
self.fk_first_key_rt = 0
self.fk_cur_resp = ''
# save the starting text and base time
self.fk_start_text = lbl.text
# handle starting values
self.max_duration = max_duration
self.max_resp = max_resp
# handle the base time
with If(base_time):
# use the passed value
self.base_time = base_time
with Else():
# make sure it's available
#Debug(fk_on_screen=lbl.on_screen)
Wait(until=lbl.on_screen)
#Debug(fk_on_screen=lbl.on_screen)
# use the label's appear time
self.base_time = lbl.appear_time['time']
# reset timing to the desired base_time
ResetClock(self.base_time)
# collect responses for the desired max_duration or max_resp
with Loop():
# accept a key response, time is based on label's ontime
kp = KeyPress(keys=asciiplus, base_time=self.base_time)
# process the key
with If(kp.pressed == 'BACKSPACE'):
# if there is text, remove a char
with If(self.fk_cur_resp != ''):
self.fk_cur_resp = self.fk_cur_resp[:-1]
lbl.text = self.fk_cur_resp
with Elif(kp.pressed == 'ENTER'):
# if there is text, log as a response
# increment the response counter
self.fk_num_resp += 1
# append the response to the list
self.responses += [
Ref(dict,
response=self.fk_cur_resp,
response_num=self.fk_num_resp,
first_key_time=self.fk_first_key_time,
first_key_rt=self.fk_first_key_rt,
enter_key_time=kp.press_time,
enter_key_rt=kp.rt)
]
# set starting text back and reset text
self.fk_cur_resp = ''
with If(self.fk_num_resp < self.max_resp):
# gonna keep going
lbl.text = self.fk_start_text
with Else():
# new key, so append it
# if it's first key, save the time
with If(self.fk_cur_resp == ''):
self.fk_first_key_rt = kp.rt
self.fk_first_key_time = kp.press_time
# append the text
with If(kp.pressed == 'SPACEBAR'):
# handle the space
self.fk_cur_resp += ' '
with Else():
# just append the letter
self.fk_cur_resp += kp.pressed
# update the label
lbl.text = self.fk_cur_resp
with UntilDone():
Wait(max_duration, until=(self.fk_num_resp >= max_resp))
# ran out of time, see if there is an unfinished response
with If(self.fk_cur_resp != ''):
# there is something, so log it, too
# increment the response counter
self.fk_num_resp += 1
# append the response to the list, but with no Enter key time
self.responses += [
Ref(dict,
response=self.fk_cur_resp,
response_num=self.fk_num_resp,
first_key_time=self.fk_first_key_time,
first_key_rt=self.fk_first_key_rt,
enter_key_time=None,
enter_key_rt=None)
]
def __init__(self, tag, class_name, id, content, href, rel, referrerpolicy, target):
"""Initialize instance of A class with tag, class_name, id, href, rel, referrerpolicy, and target properties"""
Component.__init__(self, tag, class_name, id, content)
Ref.__init__(self, href, rel, referrerpolicy)
self.target = target
class ButtonPress(CallbackState):
def __init__(self, buttons=None, correct_resp=None, base_time=None,
duration=None, parent=None, save_log=True, name=None,
blocking=True):
super(ButtonPress, self).__init__(parent=parent,
duration=duration,
save_log=save_log,
name=name,
blocking=blocking)
if buttons is None:
self.__buttons = []
elif type(buttons) not in (list, tuple):
self.__buttons = [buttons]
else:
self.__buttons = buttons
self._button_names = None
self._init_correct_resp = correct_resp
self._init_base_time = None
self._pressed = ''
self._press_time = {"time": None, "error": None}
self._correct = False
self._rt = None
self.__pressed_ref = None
# append log vars
self._log_attrs.extend(['button_names', 'correct_resp', 'base_time',
'pressed', 'press_time', 'correct', 'rt'])
self.__parallel = None
def _enter(self):
self._button_names = [button._name for button in self.__buttons]
if self._correct_resp is None:
self._correct_resp = []
elif type(self.correct_resp) not in (list, tuple):
self._correct_resp = [self._correct_resp]
self.__pressed_ref = Ref(
lambda lst: [name for name, down in lst if down],
[(button.name, button.state == "down") for
button in self.__buttons])
super(ButtonPress, self)._enter()
def _callback(self):
if self._base_time is None:
self._base_time = self._start_time
self._pressed = ''
self._press_time = None
self._correct = False
self._rt = None
self.__pressed_ref.add_change_callback(self.button_callback)
def button_callback(self):
self.claim_exceptions()
pressed_list = self.__pressed_ref.eval()
if not len(pressed_list):
return
button = pressed_list[0]
self._pressed = button
self._press_time = self._exp._app.event_time
# calc RT if something pressed
self._rt = self._press_time['time'] - self._base_time
if self._pressed in self._correct_resp:
self._correct = True
# let's leave b/c we're all done
self.cancel(self._press_time['time'])
def _leave(self):
self.__pressed_ref.remove_change_callback(self.button_callback)
super(ButtonPress, self)._leave()
def __enter__(self):
if self.__parallel is not None:
raise RuntimeError("ButtonPress context is not reentrant!") #!!!
#TODO: make sure we're the previous state?
self.__parallel = Parallel(name="BUTTONPRESS")
self.__parallel.override_instantiation_context()
self.__parallel.claim_child(self)
self.__parallel.__enter__()
return self
def __exit__(self, type, value, tb):
ret = self.__parallel.__exit__(type, value, tb)
for child in self.__parallel._children[1:]:
child._blocking = False
self.__buttons.extend(iter_nested_buttons(self.__parallel))
self.__parallel = None
return ret
if len(pmids) <> 1:
continue
pmid = pmids[0].text
back_refs = doc.xpath("/article/back/ref-list/ref")
if len(back_refs) == 0:
continue
int_ext_ids = {}
for ref in back_refs:
int_id_tuple = ref.items()[0]
ref_int_id = int_id_tuple[1]
try:
ref_ext_id = ref.xpath("mixed-citation/pub-id[@pub-id-type='pmid']")[0].text
except IndexError:
continue
int_ext_ids[ref_int_id] = ref_ext_id
body_refs = [Ref(ref) for ref in doc.xpath("/article/body//xref[@ref-type='bibr']")]
for ref in body_refs:
section_title = ref.get_section_title()
section_title = section_title.replace('\t', ' ')
section_title = section_title.replace('\n', ' ')
if section_title.strip() == "":
print(ref.get_sentence(), ref.element.getparent(), ref.element.getparent().getparent(), ref.element.getparent().getparent().getparent())
ref_id = ref.element.values()[1]
try:
ref_pmc_id = int_ext_ids[ref_id]
except KeyError:
continue
par = ''.join((ref.get_text_before(),'*', ref_pmc_id, '*', ref.get_text_after()))
par = par.replace('\t', ' ')
par = par.replace('\n', ' ')
def __call__(self, val):
# Wrap the value in a ref. scale_factor is 1.0 by default, but we are
# always trying to scale a dp value, not a raw pixel value.
return Ref(dp, val) * self._scale_factor_ref