def OnLinkClicked(self, linkinfo):
href = linkinfo.Href
if href.startswith("#"):
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
elif href.startswith('http://'):
webbrowser.open(href)
elif href.startswith('pref:'):
if 'no_display' in href:
cpprefs.set_startup_blurb(False)
self.SetPage('')
self.BackgroundColour = cpprefs.get_background_color()
elif href.startswith('load:'):
pipeline_filename = href[5:]
try:
wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
elif href.startswith('loadexample:'):
# Same as "Load", but specific for example pipelines so the user can be directed as to what to do next.
pipeline_filename = href[12:]
try:
import cellprofiler.modules.loaddata
fd = urllib.urlopen(pipeline_filename)
def fn(fd=fd):
pipeline = wx.GetApp().frame.pipeline
pipeline.load(fd)
for module in pipeline.modules():
if isinstance(module, cellprofiler.modules.loaddata.LoadData):
# Would prefer to call LoadData's do_reload but not sure how at this point
global header_cache
header_cache = {}
try:
module.open_csv()
except:
pass
wx.MessageBox('Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
wx.CallAfter(fn)
#try:
#wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
#wx.CallAfter(wx.MessageBox,
#'Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
else:
newpage = content.find_link(href)
if newpage is not None:
self.SetPage(newpage)
self.BackgroundColour = cpprefs.get_background_color()
else:
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
def on_paint(self, event):
dc = wx.BufferedPaintDC(self)
dc.SetBackground(wx.Brush(cpprefs.get_background_color()))
dc.Clear()
self.draw_groove(dc)
self.draw_ticks(dc)
self.draw_marker(dc)
event.Skip()
def on_paint(self, event):
dc = wx.BufferedPaintDC(self)
dc.SetBackground(wx.Brush(cpprefs.get_background_color()))
dc.Clear()
self.draw_groove(dc)
self.draw_ticks(dc)
self.draw_marker(dc)
event.Skip()
def __init__(self,
parent,
id=-1,
value=0,
min_value=0,
max_value=100,
start_value=0,
stop_value=100,
value_names=None,
pos=wx.DefaultPosition,
size=wx.DefaultSize,
style=wx.TAB_TRAVERSAL | wx.NO_BORDER,
name=MOVIE_SLIDER_NAME_STR):
"""Construct the movie slider
parent - parent control to the movie slider
id - window ID assigned to the top-level window
value - initial position of the slider
min_value - minimum allowed value for selection
max_value - maximum allowed value for selection
stop_value - play will continue until the stop
value_names - sequence of names for each possible value
pos - position for control (2-tuple)
size - size of control (2-tuple)
style - style for panel window
name - window's name
"""
super(MovieSlider, self).__init__(parent, id, pos, size, style, name)
self.BackgroundColour = cpprefs.get_background_color()
self.value_names = value_names
sizer = wx.BoxSizer(wx.VERTICAL)
self.SetSizer(sizer)
self.slider = SliderCtl(self,
value=value,
min_value=min_value,
max_value=max_value,
start_value=start_value,
stop_value=stop_value,
value_names=value_names,
size=(50, -1),
style=wx.SL_VERTICAL | wx.SL_AUTOTICKS)
sizer.Add(self.slider, 1, wx.EXPAND)
#controls_sizer = wx.BoxSizer(wx.HORIZONTAL)
# sizer.Add(controls_sizer,0,wx.ALIGN_CENTER_HORIZONTAL)
#self.skip_start_button = self.make_bitmap_button(BUTTON_SKIPSTART)
#controls_sizer.Add(self.skip_start_button,0,wx.SHAPED)
# self.play_button = self.make_bitmap_button(BUTTON_PLAY)
#controls_sizer.Add(self.play_button, 0, wx.SHAPED | wx.ALIGN_CENTER_HORIZONTAL)
#self.skip_end_button = self.make_bitmap_button(BUTTON_SKIPEND)
#controls_sizer.Add(self.skip_end_button,0,wx.SHAPED)
#self.Bind(wx.EVT_BUTTON, self.on_play_pressed, self.play_button)
self.Bind(EVT_VALUE_CHANGED, self.on_slider_value_changed, self.slider)
self.state = STATE_PAUSED
def __init__(self, parent,
id = -1,
value = 0,
min_value = 0,
max_value = 100,
start_value = 0,
stop_value = 100,
value_names = None,
pos = wx.DefaultPosition,
size = wx.DefaultSize,
style = wx.TAB_TRAVERSAL|wx.NO_BORDER,
name=MOVIE_SLIDER_NAME_STR):
"""Construct the movie slider
parent - parent control to the movie slider
id - window ID assigned to the top-level window
value - initial position of the slider
min_value - minimum allowed value for selection
max_value - maximum allowed value for selection
stop_value - play will continue until the stop
value_names - sequence of names for each possible value
pos - position for control (2-tuple)
size - size of control (2-tuple)
style - style for panel window
name - window's name
"""
super(MovieSlider,self).__init__(parent, id, pos, size, style, name)
self.BackgroundColour = cpprefs.get_background_color()
self.value_names = value_names
sizer = wx.BoxSizer(wx.VERTICAL)
self.SetSizer(sizer)
self.slider = SliderCtl(self,
value = value,
min_value = min_value,
max_value = max_value,
start_value = start_value,
stop_value = stop_value,
value_names = value_names,
size=(50, -1),
style=wx.SL_VERTICAL|wx.SL_AUTOTICKS)
sizer.Add(self.slider,1,wx.EXPAND)
#controls_sizer = wx.BoxSizer(wx.HORIZONTAL)
# sizer.Add(controls_sizer,0,wx.ALIGN_CENTER_HORIZONTAL)
#self.skip_start_button = self.make_bitmap_button(BUTTON_SKIPSTART)
#controls_sizer.Add(self.skip_start_button,0,wx.SHAPED)
# self.play_button = self.make_bitmap_button(BUTTON_PLAY)
#controls_sizer.Add(self.play_button, 0, wx.SHAPED | wx.ALIGN_CENTER_HORIZONTAL)
#self.skip_end_button = self.make_bitmap_button(BUTTON_SKIPEND)
#controls_sizer.Add(self.skip_end_button,0,wx.SHAPED)
#self.Bind(wx.EVT_BUTTON, self.on_play_pressed, self.play_button)
self.Bind(EVT_VALUE_CHANGED, self.on_slider_value_changed, self.slider)
self.state = STATE_PAUSED
def OnLinkClicked(self, linkinfo):
href = linkinfo.Href
if href.startswith("#"):
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
elif href.startswith('http://'):
webbrowser.open(href)
elif href.startswith('pref:'):
if 'no_display' in href:
cpprefs.set_startup_blurb(False)
self.SetPage('')
self.BackgroundColour = cpprefs.get_background_color()
elif href.startswith('load:'):
pipeline_filename = href[5:]
try:
wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
elif href.startswith('loadexample:'):
# Same as "Load", but specific for example pipelines so the user can be directed as to what to do next.
pipeline_filename = href[12:]
try:
wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
wx.CallAfter(wx.MessageBox,
'Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
else:
newpage = content.find_link(href)
if newpage is not None:
self.SetPage(newpage)
self.BackgroundColour = cpprefs.get_background_color()
else:
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
def on_sashwindow_paint(event):
assert isinstance(event, wx.PaintEvent)
window = event.EventObject
assert isinstance(window, wx.SashWindow)
dc = wx.PaintDC(window)
dc.BeginDrawing()
dc.Background = wx.Brush(get_background_color())
dc.Clear()
art = PyAuiDockArt()
w, h = window.GetClientSizeTuple()
for edge, orientation in (
(wx.SASH_LEFT, wx.VERTICAL),
(wx.SASH_TOP, wx.HORIZONTAL),
(wx.SASH_RIGHT, wx.VERTICAL),
(wx.SASH_BOTTOM, wx.HORIZONTAL)):
if window.GetSashVisible(edge):
margin = window.GetEdgeMargin(edge)
pane_info = wx.aui.AuiPaneInfo()
pane_info.Gripper(True)
if orientation == wx.VERTICAL:
sy = 0
sh = h
sw = margin
gw = GRIPPER_HEIGHT
gh = GRIPPER_SIZE
gy = (h - GRIPPER_SIZE) / 2
pane_info.GripperTop(False)
if edge == wx.SASH_LEFT:
gx = sx = 0
else:
sx = w - margin
gx = w - gw
else:
sx = 0
sw = w
sh = margin
gw = GRIPPER_SIZE
gh = GRIPPER_HEIGHT
gx = (w - GRIPPER_SIZE) / 2
pane_info.GripperTop(True)
if edge == wx.SASH_TOP:
gy = sy = 0
else:
sy = h - margin
gy = h - gh
art.DrawSash(dc, window, orientation, wx.Rect(sx, sy, sw, sh))
art.DrawGripper(dc, window, wx.Rect(gx, gy, gw, gh), pane_info)
dc.EndDrawing()
def on_splitter_paint(event):
assert isinstance(event, wx.PaintEvent)
window = event.EventObject
assert isinstance(window, wx.SplitterWindow)
dc = wx.PaintDC(window)
dc.BeginDrawing()
dc.Background = wx.Brush(get_background_color())
dc.Clear()
art = PyAuiDockArt()
pane_info = wx.aui.AuiPaneInfo()
pane_info.Gripper(True)
w, h = window.GetClientSizeTuple()
margin = window.GetSashSize()
pos = window.GetSashPosition()
if window.GetSplitMode() == wx.SPLIT_VERTICAL:
pane_info.GripperTop(False)
sy = 0
sh = h
sw = margin
gw = GRIPPER_HEIGHT
sx = pos - margin/2
gx = pos - gw / 2
gy = (h - GRIPPER_SIZE) / 2
gh = GRIPPER_SIZE
orientation = wx.VERTICAL
else:
pane_info.GripperTop(True)
sx = 0
sw = h
sh = margin
gh = GRIPPER_HEIGHT
sy = pos - margin / 2
gx = (w - GRIPPER_SIZE) / 2
gy = pos - GRIPPER_SIZE / 2
gw = GRIPPER_SIZE
orientation = wx.HORIZONTAL
art.DrawSash(dc, window, orientation, wx.Rect(sx, sy, sw, sh))
art.DrawGripper(dc, window, wx.Rect(gx, gy, gw, gh), pane_info)
def OnLinkClicked(self, linkinfo):
href = linkinfo.Href
if href.startswith("#"):
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
elif href.startswith('http://'):
webbrowser.open(href)
elif href.startswith('pref:'):
if 'no_display' in href:
cpprefs.set_startup_blurb(False)
self.SetPage('')
self.BackgroundColour = cpprefs.get_background_color()
elif href.startswith('load:'):
pipeline_filename = href[5:]
try:
wx.CallAfter(wx.GetApp().frame.pipeline.load,
urllib2.urlopen(pipeline_filename))
except:
wx.MessageBox('CellProfiler was unable to load %s' %
pipeline_filename,
"Error loading pipeline",
style=wx.OK | wx.ICON_ERROR)
elif href.startswith('loadexample:'):
# Same as "Load", but specific for example pipelines so the user can be directed as to what to do next.
pipeline_filename = href[12:]
try:
import cellprofiler.modules.loaddata
fd = urllib.urlopen(pipeline_filename)
def fn(fd=fd):
pipeline = wx.GetApp().frame.pipeline
pipeline.load(fd)
for module in pipeline.modules():
if isinstance(module,
cellprofiler.modules.loaddata.LoadData):
# Would prefer to call LoadData's do_reload but not sure how at this point
global header_cache
header_cache = {}
try:
module.open_csv()
except:
pass
wx.MessageBox(
'Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.',
'', wx.ICON_INFORMATION)
wx.CallAfter(fn)
#try:
#wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
#wx.CallAfter(wx.MessageBox,
#'Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
except:
wx.MessageBox('CellProfiler was unable to load %s' %
pipeline_filename,
"Error loading pipeline",
style=wx.OK | wx.ICON_ERROR)
else:
newpage = content.find_link(href)
if newpage is not None:
self.SetPage(newpage)
self.BackgroundColour = cpprefs.get_background_color()
else:
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
def __init__(self, *args, **kwargs):
wx.html.HtmlWindow.__init__(self, *args, **kwargs)
self.HTMLBackgroundColour = cpprefs.get_background_color()
def __init__(self, *args, **kwds):
'''Instantiate a data tool frame
module_name: name of module to instantiate
measurements_file_name: name of measurements file
'''
assert kwds.has_key("module_name"), "DataToolFrame() needs a module_name argument"
assert kwds.has_key("measurements_file_name"), "DataToolFrame() needs a measurements_file_name argument"
module_name = kwds["module_name"]
measurements_file_name = kwds["measurements_file_name"]
kwds_copy = kwds.copy()
del kwds_copy["module_name"]
del kwds_copy["measurements_file_name"]
kwds_copy["title"]="%s data tool"%module_name
wx.Frame.__init__(self, *args, **kwds_copy)
self.module = instantiate_module(module_name)
self.pipeline = cpp.Pipeline()
if h5py.is_hdf5(measurements_file_name):
self.workspace = cpw.Workspace(self.pipeline, self.module, None, None, None,
None)
self.workspace.load(measurements_file_name, True)
self.measurements = self.workspace.measurements
else:
self.pipeline.load(measurements_file_name)
self.load_measurements(measurements_file_name)
self.workspace = cpw.Workspace(self.pipeline, self.module, None, None,
self.measurements, None)
self.module.module_num = len(self.pipeline.modules())+1
self.pipeline.add_module(self.module)
self.sizer = wx.BoxSizer(wx.VERTICAL)
module_panel = wx.lib.scrolledpanel.ScrolledPanel(self,-1,style=wx.SUNKEN_BORDER)
module_panel.BackgroundColour = cpprefs.get_background_color()
self.BackgroundColour = cpprefs.get_background_color()
self.module_view = ModuleView(module_panel, self.workspace, True)
self.module_view.set_selection(self.module.module_num)
def on_change(caller, event):
setting = event.get_setting()
proposed_value = event.get_proposed_value()
setting.value = proposed_value
self.pipeline.edit_module(event.get_module().module_num, False)
self.module_view.reset_view()
self.module_view.add_listener(on_change)
#
# Add a panel for the "run" button
#
panel = wx.Panel(self)
panel_sizer = wx.BoxSizer(wx.HORIZONTAL)
button = wx.Button(panel, label = "Run")
self.sizer.Add(module_panel, 1, wx.EXPAND)
self.sizer.Add(panel, 0, wx.EXPAND)
panel_sizer.AddStretchSpacer()
panel_sizer.Add(button, 0, wx.RIGHT, button.Size[1])
panel.SetSizer(panel_sizer)
wx.EVT_BUTTON(self, button.Id, self.on_run)
#
# Add a file menu
#
file_menu = wx.Menu()
file_menu.Append(ID_FILE_LOAD_MEASUREMENTS, "&Load measurements")
file_menu.Append(ID_FILE_SAVE_MEASUREMENTS, "&Save measurements")
file_menu.Append(ID_FILE_EXIT, "E&xit")
self.MenuBar = wx.MenuBar()
self.MenuBar.Append(file_menu, "&File")
self.Bind(wx.EVT_MENU, self.on_load_measurements, id=ID_FILE_LOAD_MEASUREMENTS)
self.Bind(wx.EVT_MENU, self.on_save_measurements, id=ID_FILE_SAVE_MEASUREMENTS)
self.Bind(wx.EVT_MENU, self.on_exit, id=ID_FILE_EXIT)
accelerators = wx.AcceleratorTable([
(wx.ACCEL_CMD, ord("W"), ID_FILE_EXIT),
(wx.ACCEL_CMD, ord("O"), ID_FILE_LOAD_MEASUREMENTS),
(wx.ACCEL_CMD, ord("S"), ID_FILE_SAVE_MEASUREMENTS)])
self.SetAcceleratorTable(accelerators)
#
# Add an image menu
#
image_menu = wx.Menu()
image_menu.Append(ID_IMAGE_CHOOSE, "&Choose")
self.MenuBar.Append(image_menu, "&Image")
self.Bind(wx.EVT_MENU, self.on_image_choose, id=ID_IMAGE_CHOOSE)
self.SetSizer(self.sizer)
self.Size = (self.module_view.get_max_width(), self.Size[1])
module_panel.Layout()
self.Show()
self.tbicon = wx.TaskBarIcon()
self.tbicon.SetIcon(get_cp_icon(), "CellProfiler2.0")
self.SetIcon(get_cp_icon())
def __init__(self, *args, **kwargs):
wx.html.HtmlWindow.__init__(self, *args, **kwargs)
self.HTMLBackgroundColour = cpprefs.get_background_color()
def __init__(self, *args, **kwds):
'''Instantiate a data tool frame
module_name: name of module to instantiate
measurements_file_name: name of measurements file
'''
assert kwds.has_key(
"module_name"), "DataToolFrame() needs a module_name argument"
assert kwds.has_key(
"measurements_file_name"
), "DataToolFrame() needs a measurements_file_name argument"
module_name = kwds["module_name"]
measurements_file_name = kwds["measurements_file_name"]
kwds_copy = kwds.copy()
del kwds_copy["module_name"]
del kwds_copy["measurements_file_name"]
kwds_copy["title"] = "%s data tool" % module_name
wx.Frame.__init__(self, *args, **kwds_copy)
self.module = instantiate_module(module_name)
self.module.use_as_data_tool = True
self.pipeline = cpp.Pipeline()
if h5py.is_hdf5(measurements_file_name):
self.workspace = cpw.Workspace(self.pipeline, self.module, None,
None, None, None)
self.workspace.load(measurements_file_name, True)
self.measurements = self.workspace.measurements
else:
self.pipeline.load(measurements_file_name)
self.load_measurements(measurements_file_name)
self.workspace = cpw.Workspace(self.pipeline, self.module, None,
None, self.measurements, None)
self.module.module_num = len(self.pipeline.modules()) + 1
self.pipeline.add_module(self.module)
self.sizer = wx.BoxSizer(wx.VERTICAL)
module_panel = wx.lib.scrolledpanel.ScrolledPanel(
self, -1, style=wx.SUNKEN_BORDER)
module_panel.BackgroundColour = cpprefs.get_background_color()
self.BackgroundColour = cpprefs.get_background_color()
self.module_view = ModuleView(module_panel, self.workspace, True)
self.module_view.set_selection(self.module.module_num)
def on_change(caller, event):
setting = event.get_setting()
proposed_value = event.get_proposed_value()
setting.value = proposed_value
self.pipeline.edit_module(event.get_module().module_num, False)
self.module_view.reset_view()
self.module_view.request_validation()
self.module_view.add_listener(on_change)
#
# Add a panel for the "run" button
#
panel = wx.Panel(self)
panel_sizer = wx.BoxSizer(wx.HORIZONTAL)
button = wx.Button(panel, label="Run")
self.sizer.Add(module_panel, 1, wx.EXPAND)
self.sizer.Add(panel, 0, wx.EXPAND)
panel_sizer.AddStretchSpacer()
panel_sizer.Add(button, 0, wx.RIGHT, button.Size[1])
panel.SetSizer(panel_sizer)
wx.EVT_BUTTON(self, button.Id, self.on_run)
#
# Add a file menu
#
file_menu = wx.Menu()
file_menu.Append(ID_FILE_LOAD_MEASUREMENTS, "&Load measurements")
file_menu.Append(ID_FILE_SAVE_MEASUREMENTS, "&Save measurements")
file_menu.Append(ID_FILE_EXIT, "E&xit")
self.MenuBar = wx.MenuBar()
self.MenuBar.Append(file_menu, "&File")
self.Bind(wx.EVT_MENU,
self.on_load_measurements,
id=ID_FILE_LOAD_MEASUREMENTS)
self.Bind(wx.EVT_MENU,
self.on_save_measurements,
id=ID_FILE_SAVE_MEASUREMENTS)
self.Bind(wx.EVT_MENU, self.on_exit, id=ID_FILE_EXIT)
accelerators = wx.AcceleratorTable([
(wx.ACCEL_CMD, ord("W"), ID_FILE_EXIT),
(wx.ACCEL_CMD, ord("O"), ID_FILE_LOAD_MEASUREMENTS),
(wx.ACCEL_CMD, ord("S"), ID_FILE_SAVE_MEASUREMENTS)
])
self.SetAcceleratorTable(accelerators)
#
# Add an image menu
#
image_menu = wx.Menu()
image_menu.Append(ID_IMAGE_CHOOSE, "&Choose")
self.MenuBar.Append(image_menu, "&Image")
self.Bind(wx.EVT_MENU, self.on_image_choose, id=ID_IMAGE_CHOOSE)
self.SetSizer(self.sizer)
self.Size = (self.module_view.get_max_width(), self.Size[1])
module_panel.Layout()
self.Show()
self.tbicon = wx.TaskBarIcon()
self.tbicon.SetIcon(get_cp_icon(), "CellProfiler2.0")
self.SetIcon(get_cp_icon())
def OnLinkClicked(self, linkinfo):
href = linkinfo.Href
if href.startswith("#"):
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
elif href.startswith('http://'):
webbrowser.open(href)
elif href.startswith('pref:'):
if 'no_display' in href:
cpprefs.set_startup_blurb(False)
# Find the parent frame and, if it's the welcome screen frame,
# "close" it (= hide it)
#
parent = self.Parent
while parent is not None:
if parent.Name == WELCOME_SCREEN_FRAME:
parent.Close()
break
parent = parent.Parent
elif href.startswith('help:'):
href = linkinfo.Href[7:]
html_str = WELCOME_HELP[href]
html_str += '<p>Go <a href="startup_main">back</a> to the welcome screen.</p>'
self.SetPage(html_str)
self.BackgroundColour = cpprefs.get_background_color()
elif href.startswith('load:'):
pipeline_filename = href[5:]
try:
fd = urllib2.urlopen(pipeline_filename)
if fd.code < 200 or fd.code > 299:
wx.MessageBox(
"Sorry, the link, \"%s\" is broken, please contact the webmaster" %
pipeline_filename,
caption = "Unable to access pipeline via internet",
style = wx.OK | wx.ICON_INFORMATION)
return
wx.CallAfter(wx.GetApp().frame.pipeline.load, fd)
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
elif href.startswith('loadexample:'):
# Same as "Load", but specific for example pipelines so the user can be directed as to what to do next.
pipeline_filename = href[12:]
try:
import cellprofiler.modules.loaddata
fd = urllib.urlopen(pipeline_filename)
if fd.code < 200 or fd.code > 299:
wx.MessageBox(
"Sorry, the link, \"%s\" is broken, please contact the webmaster" %
pipeline_filename,
caption = "Unable to access pipeline via internet",
style = wx.OK | wx.ICON_INFORMATION)
return
def fn(fd=fd):
pipeline = wx.GetApp().frame.pipeline
pipeline.load(fd)
for module in pipeline.modules():
if isinstance(module, cellprofiler.modules.loaddata.LoadData):
# Would prefer to call LoadData's do_reload but not sure how at this point
global header_cache
header_cache = {}
try:
module.open_csv()
except:
pass
wx.MessageBox('Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
wx.CallAfter(fn)
#try:
#wx.CallAfter(wx.GetApp().frame.pipeline.load, urllib2.urlopen(pipeline_filename))
#wx.CallAfter(wx.MessageBox,
#'Now that you have loaded an example pipeline, press the "Analyze images" button to access and process a small image set from the CellProfiler website so you can see how CellProfiler works.', '', wx.ICON_INFORMATION)
except:
wx.MessageBox(
'CellProfiler was unable to load %s' %
pipeline_filename, "Error loading pipeline",
style = wx.OK | wx.ICON_ERROR)
else:
newpage = content.find_link(href)
if newpage is not None:
self.SetPage(newpage)
self.BackgroundColour = cpprefs.get_background_color()
else:
super(HtmlClickableWindow, self).OnLinkClicked(linkinfo)
def run(self, workspace):
"""Run the module
workspace - The workspace contains
pipeline - instance of cpp for this run
image_set - the images in the image set being processed
object_set - the objects (labeled masks) in this image set
measurements - the measurements for this run
frame - the parent frame to whatever frame is created. None means don't draw.
"""
if workspace.pipeline.in_batch_mode():
return
if self.action != cpw.DISPOSITION_CONTINUE:
#
# Tell the pipeline to pause after we return
#
workspace.disposition = cpw.DISPOSITION_PAUSE
#
# Make a frame to hold the resume button
#
frame = wx.Frame(None, title="Pause CellProfiler")
frame.BackgroundColour = cpprefs.get_background_color()
#
# Register to hear about the run ending so we can clean up
#
def on_pipeline_event(caller, event):
if isinstance(event, cpp.EndRunEvent):
frame.Close()
workspace.pipeline.add_listener(on_pipeline_event)
#
# Make sure we stop listening when the window closes
#
def on_close(event):
if workspace.disposition == cpw.DISPOSITION_PAUSE:
workspace.disposition = self.action.value
workspace.pipeline.remove_listener(on_pipeline_event)
frame.Destroy()
frame.Bind(wx.EVT_CLOSE, on_close)
#
# Make the UI:
super_sizer = wx.BoxSizer(wx.VERTICAL)
frame.SetSizer(super_sizer)
sizer = wx.BoxSizer(wx.HORIZONTAL)
super_sizer.Add(sizer, 0, wx.EXPAND)
sizer.Add(
wx.StaticBitmap(
frame, -1,
wx.ArtProvider.GetBitmap(wx.ART_INFORMATION,
wx.ART_MESSAGE_BOX)), 0,
wx.EXPAND | wx.ALL, 5)
sizer.Add(
wx.StaticText(
frame, -1,
"""Press "Resume" to continue processing.\nPress "Cancel" to stop."""
), 0, wx.EXPAND | wx.ALL, 5)
super_sizer.Add(wx.StaticLine(frame), 0,
wx.EXPAND | wx.LEFT | wx.RIGHT, 10)
sizer = wx.StdDialogButtonSizer()
super_sizer.Add(sizer, 0, wx.EXPAND)
resume_id = 100
cancel_id = 101
resume_button = wx.Button(frame, resume_id, "Resume")
sizer.AddButton(resume_button)
sizer.SetAffirmativeButton(resume_button)
cancel_button = wx.Button(frame, cancel_id, "Cancel")
sizer.AddButton(cancel_button)
sizer.SetNegativeButton(cancel_button)
sizer.Realize()
frame.Fit()
def on_resume(event):
if self.action == cpw.DISPOSITION_PAUSE:
workspace.disposition = cpw.DISPOSITION_CONTINUE
else:
workspace.disposition = self.action.value
frame.Close()
def on_cancel(event):
workspace.disposition = cpw.DISPOSITION_CANCEL
frame.Close()
frame.Bind(wx.EVT_BUTTON, on_resume, id=resume_id)
frame.Bind(wx.EVT_BUTTON, on_cancel, id=cancel_id)
frame.Show()
def run(self, workspace):
"""Run the module
workspace - The workspace contains
pipeline - instance of cpp for this run
image_set - the images in the image set being processed
object_set - the objects (labeled masks) in this image set
measurements - the measurements for this run
frame - the parent frame to whatever frame is created. None means don't draw.
"""
if workspace.pipeline.in_batch_mode():
return
if self.action != cpw.DISPOSITION_CONTINUE:
#
# Tell the pipeline to pause after we return
#
workspace.disposition = cpw.DISPOSITION_PAUSE
#
# Make a frame to hold the resume button
#
frame = wx.Frame(None,title="Pause CellProfiler")
frame.BackgroundColour = cpprefs.get_background_color()
#
# Register to hear about the run ending so we can clean up
#
def on_pipeline_event(caller, event):
if isinstance(event, cpp.EndRunEvent):
frame.Close()
workspace.pipeline.add_listener(on_pipeline_event)
#
# Make sure we stop listening when the window closes
#
def on_close(event):
if workspace.disposition == cpw.DISPOSITION_PAUSE:
workspace.disposition = self.action.value
workspace.pipeline.remove_listener(on_pipeline_event)
frame.Destroy()
frame.Bind(wx.EVT_CLOSE, on_close)
#
# Make the UI:
super_sizer = wx.BoxSizer(wx.VERTICAL)
frame.SetSizer(super_sizer)
sizer = wx.BoxSizer(wx.HORIZONTAL)
super_sizer.Add(sizer, 0, wx.EXPAND)
sizer.Add(wx.StaticBitmap(frame, -1,
wx.ArtProvider.GetBitmap(wx.ART_INFORMATION,
wx.ART_MESSAGE_BOX)),
0, wx.EXPAND | wx.ALL, 5)
sizer.Add(wx.StaticText(frame,-1, """Press "Resume" to continue processing.\nPress "Cancel" to stop."""),
0, wx.EXPAND | wx.ALL, 5)
super_sizer.Add(wx.StaticLine(frame), 0, wx.EXPAND | wx.LEFT | wx.RIGHT, 10)
sizer = wx.StdDialogButtonSizer()
super_sizer.Add(sizer, 0, wx.EXPAND)
resume_id = 100
cancel_id = 101
resume_button = wx.Button(frame, resume_id, "Resume")
sizer.AddButton(resume_button)
sizer.SetAffirmativeButton(resume_button)
cancel_button = wx.Button(frame, cancel_id, "Cancel")
sizer.AddButton(cancel_button)
sizer.SetNegativeButton(cancel_button)
sizer.Realize()
frame.Fit()
def on_resume(event):
if self.action == cpw.DISPOSITION_PAUSE:
workspace.disposition = cpw.DISPOSITION_CONTINUE
else:
workspace.disposition = self.action.value
frame.Close()
def on_cancel(event):
workspace.disposition = cpw.DISPOSITION_CANCEL
frame.Close()
frame.Bind(wx.EVT_BUTTON, on_resume, id=resume_id)
frame.Bind(wx.EVT_BUTTON, on_cancel, id=cancel_id)
frame.Show()
