def __init__(self, parent):
BaseWindowPanel.__init__(self,
parent,
bg_color=Colour.BLACK,
fg_color=Colour.WHITE)
self._caption_label = StaticText(self,
pos=(70, 5),
size=(20, 0),
label=u"This month, we spent")
self._caption_label.SetFont(
Font(13, FONTFAMILY_DEFAULT, FONTSTYLE_NORMAL, FONTWEIGHT_NORMAL))
self._display = LEDNumberCtrl(self,
pos=(0, 30),
size=(320, 90),
style=LED_ALIGN_RIGHT)
self._display.SetValue("0.00")
self._date_display = LEDNumberCtrl(self,
pos=(110, 150),
size=(210, 40),
style=LED_ALIGN_RIGHT)
self._date_display.SetValue("--.--.--")
self._clock_display = LEDNumberCtrl(self,
pos=(110, 190),
size=(210, 50),
style=LED_ALIGN_RIGHT)
self._clock_display.SetValue("--.--.--")
self.open_button = Button(self,
-1,
"Add",
pos=(10, 125),
size=(70, 35))
self.open_button.SetBackgroundColour(Colour.DARK_GREEN)
self.open_button.SetForegroundColour(Colour.WHITE)
self.list_button = Button(self,
-1,
"List",
pos=(10, 160),
size=(70, 35))
self.list_button.SetBackgroundColour(get_colour(0x333333))
self.list_button.SetForegroundColour(Colour.WHITE)
self.close_button = Button(self,
-1,
"Close",
pos=(10, 195),
size=(70, 35))
self.close_button.SetBackgroundColour(Colour.DARK_RED)
self.close_button.SetForegroundColour(Colour.WHITE)
self._timer = Timer(self)
self._timer.Start(100)
self.Bind(EVT_TIMER, self.on_clock_update, self._timer)
def __init__(self, main_window, *args, **kw):
super().__init__(*args, **kw)
self.timer = Timer(self)
self.main_window = main_window
self.time_display = WatchText(self, label=TIMER_LABEL)
self.start_btn = NormalButton(self, label=START_LABEL)
self.pause_btn = NormalButton(self, label=PAUSE_LABEL)
self.reset_btn = NormalButton(self, label=STOP_LABEL)
self.maneger = TimeManeger(self.main_window, self)
self.layout()
self.Bind(EVT_TIMER, self.update_watch)
def __init__(self,
value=0,
min_=None,
max_=None,
listener=None,
*args,
**kw):
super().__init__(*args, **kw)
self.value = value
self.min = min_
self.max = max_
self.listener = listener
self.left_btn = NormalButton(parent=self, label='◀', size=(30, 30))
self.display = NormalText(parent=self, label=str(self.value))
self.right_btn = NormalButton(parent=self, label='▶', size=(30, 30))
self.timer = Timer()
if self.min is not None and self.value <= self.min:
self.left_btn.Disable()
if self.max is not None and self.value >= self.max:
self.right_btn.Disable()
self.layout()
self.connect()
def __init__(self, wxapp):
wxTimer.__init__(self)
self.wxapp = wxapp
def __init__(self, parent: Window, wxID: int, title: str):
"""
Args:
parent: parent window
wxID: wx ID of this frame
title: Title to display
"""
super().__init__(parent, wxID, title, DefaultPosition,
Size(FrameWidth, FrameHeight))
self.logger: Logger = getLogger(__name__)
# iconFileName: str = resource_filename(IMAGE_RESOURCES_PACKAGE, 'pyut.ico')
# icon: Icon = Icon(iconFileName, BITMAP_TYPE_ICO)
#
# self.SetIcon(icon)
if sysPlatform != PyutConstants.THE_GREAT_MAC_PLATFORM:
fileName: str = PyutUtils.getResourcePath(
packageName=IMAGE_RESOURCES_PACKAGE, fileName='pyut.ico')
icon: Icon = Icon(fileName, BITMAP_TYPE_ICO)
self.SetIcon(icon)
self.Center(BOTH)
longTextStr: str = PyutUtils.retrieveResourceText(
ResourceTextType.KUDOS_TEXT_TYPE)
self._textToShow: List[str] = longTextStr.split('\n')
# Animation panel
self._panel: Panel = Panel(self,
ID_ANY,
size=(FrameWidth, FrameHeight))
# Picture and text
# bmp = Bitmap("img" + os.sep + "pyut.bmp", BITMAP_TYPE_BMP)
# fileName = resource_filename(IMAGE_RESOURCES_PACKAGE, 'pyut.bmp')
fileName: str = PyutUtils.getResourcePath(IMAGE_RESOURCES_PACKAGE,
'pyut.png')
# bmp = Bitmap(fileName, BITMAP_TYPE_PNG)
self._picture: StaticBitmap = StaticBitmap(
self, ID_ANY, ImgPyut.embeddedImage.GetBitmap())
summaryText: str = "2020 The PyUt team and Humberto Sanchez II.\nPublished under the GNU General Public License"
self._label: StaticText = StaticText(self,
ID_ANY,
summaryText,
style=CAPTION)
# Main sizer
self.SetAutoLayout(True)
sizer = BoxSizer(VERTICAL)
sizer.Add(self._picture, 0, ALL | ALIGN_CENTER, 5)
sizer.Add(self._panel, 1, ALL | ALIGN_CENTER, 5)
sizer.Add(self._label, 0, ALL | ALIGN_CENTER, 5)
btnOk: Button = Button(self, ID_OK, "&Ok")
sizer.Add(btnOk, 0, ALL | ALIGN_CENTER, 5)
self.SetSizer(sizer)
sizer.Fit(self)
self._textPosition = 0.0 # Current position
self._timer: Timer = Timer(self)
self.Bind(EVT_TIMER, self._onTimer, self._timer)
self.Bind(EVT_BUTTON, self._onOk, btnOk)
self._panel.Bind(EVT_PAINT, self.OnRefreshPanel)
self.Bind(EVT_CLOSE, self._onOk)
def __init__(self, wxapp):
wxTimer.__init__(self)
self.wxapp = wxapp
def __init__(self, notify, *args, **kw): #PAK
Timer.__init__(self, *args, **kw) #PAK
self.notify = notify
def startMonitor(self):
self._timer: Timer = Timer(self)
self.Bind(EVT_TIMER, self._onTimer, self._timer)
self._timer.Start(DlgDebugDiagramFrame.DEBUG_TIMER_UPDATE_MSECS)
def __init__(self,
WD=None,
write_to_log_file=True,
inp_file=None,
delay_time=3,
data_model=3.0,
test_mode_on=True):
global usr_configs_read, inp_dir, pkg_dir, data_dir, CURRENT_VERSION
# catch user interruption signal (ctrl+c) so app can still close properly
# not working right now
# signal.signal(signal.SIGINT, self.sigint_catcher)
# if write_to_log_file: start_logger()
self.title = "Demag GUI Autoupdate | %s" % (
CURRENT_VERSION.strip("pmagpy-"))
if WD is None:
self.WD = os.getcwd()
else:
self.WD = os.path.realpath(os.path.expanduser(WD))
uncached, num_cached_files = uncache_site_files(self.WD)
# set attribute to be used by read_inp() to warn the user once and only
# once if there are commented lines in inp file
self.warn_comments_in_inpfile = False
if uncached:
print("-I- Unpacking {} site-level MagIC files previously"
" cached".format(num_cached_files))
WD_short = shortpath(self.WD)
if not os.path.isdir(self.WD):
print(f"-E- Working directory {WD_short} does not exist.")
print(f"-I- Working directory set to {WD_short}")
# self.delete_magic_files(self.WD)
self.data_model = data_model
self.delay_time = delay_time
if inp_file is None:
temp_inp_pick = wx.Frame()
if usr_configs_read:
inp_file_name = self.pick_inp(temp_inp_pick, inp_dir)
if inp_file_name is None:
ls_inp_dir = list(
os.path.join(inp_dir, s) for s in os.listdir(inp_dir))
inp_file_name = max(ls_inp_dir, key=os.path.getmtime)
print("-W- No .inp file selected. Reading most recently"
" opened file: %s" %
(os.path.basename(inp_file_name)))
else:
inp_file_name = self.pick_inp(temp_inp_pick, self.WD)
temp_inp_pick.Destroy()
elif not os.path.isfile(os.path.realpath(inp_file)):
inp_file = os.path.realpath(inp_file)
if os.path.isfile(os.path.join(self.WD, inp_file)):
inp_file_name = os.path.join(self.WD, inp_file)
elif usr_configs_read:
if os.path.isfile(
os.path.join(inp_dir, os.path.basename(inp_file))):
inp_file_name = os.path.join(inp_dir,
os.path.basename(inp_file))
else:
print(f"-E- Could not find .inp file {inp_file}")
return
else:
inp_file_name = inp_file
self.inp_file = inp_file_name
magic_files = {}
self.read_inp(self.WD, self.inp_file, magic_files, self.data_model)
self.combine_magic_files(self.WD, magic_files, self.data_model)
# self.on_new_inp()
# self.update_loop(force_update=True)
try:
super(Demag_GUIAU, self).__init__(
WD=WD,
# overwrite this for log testing purposes;
# should override the superclass logging methods
# for this eventually
write_to_log_file=False,
data_model=data_model,
test_mode_on=test_mode_on)
except ValueError:
raise ValueError("-E- Data model you entered is not a number")
# make changes to the demag_gui parent frame
# add buttons for triggering autoupdate functions
self.au_add_buttons()
# set AU icon
self.au_set_icon()
# add read .inp option to menubar
self.menubar = super().GetMenuBar()
menu_file = self.menubar.GetMenu(0)
m_read_inp = menu_file.Insert(1, -1, "Read .inp file\tCtrl-I", "")
self.Bind(wx.EVT_MENU, self.on_menu_pick_read_inp, m_read_inp)
self.menubar.Refresh()
# make statusbar
self.statusbar = self.CreateStatusBar()
# find .inp file
# if inp_file is None:
# if usr_configs_read:
# inp_file_name = self.pick_inp(self,inp_dir)
# else:
# inp_file_name = self.pick_inp(self,self.WD)
# elif not os.path.isfile(os.path.realpath(inp_file)):
# inp_file = os.path.realpath(inp_file)
# if os.path.isfile(os.path.join(self.WD, inp_file)):
# inp_file_name = os.path.join(self.WD, inp_file)
# elif usr_configs_read:
# if os.path.isfile(os.path.join(inp_dir, os.path.basename(inp_file))):
# inp_file_name = os.path.join(inp_dir, os.path.basename(inp_file))
# else:
# print(f"-E- Could not find .inp file {inp_file}")
# return
# else:
# inp_file_name = inp_file
# self.inp_file = inp_file_name
# magic_files = {}
# self.read_inp(self.WD, self.inp_file, magic_files, self.data_model)
# self.combine_magic_files(self.WD, magic_files, self.data_model)
self.on_new_inp()
self.update_loop(force_update=True)
self.set_statusbar()
self.timer = Timer(self, ID_ANY)
self.timer.Start(self.delay_time * 1000)
self.Bind(EVT_TIMER, self.on_timer)
self.Bind(wx.EVT_CLOSE, self.OnClose)
# disable test mode to enable dialogs once GUI has started up
super().set_test_mode(False)
class Demag_GUIAU(dgl.Demag_GUI):
def __init__(self,
WD=None,
write_to_log_file=True,
inp_file=None,
delay_time=3,
data_model=3.0,
test_mode_on=True):
global usr_configs_read, inp_dir, pkg_dir, data_dir, CURRENT_VERSION
# catch user interruption signal (ctrl+c) so app can still close properly
# not working right now
# signal.signal(signal.SIGINT, self.sigint_catcher)
# if write_to_log_file: start_logger()
self.title = "Demag GUI Autoupdate | %s" % (
CURRENT_VERSION.strip("pmagpy-"))
if WD is None:
self.WD = os.getcwd()
else:
self.WD = os.path.realpath(os.path.expanduser(WD))
uncached, num_cached_files = uncache_site_files(self.WD)
# set attribute to be used by read_inp() to warn the user once and only
# once if there are commented lines in inp file
self.warn_comments_in_inpfile = False
if uncached:
print("-I- Unpacking {} site-level MagIC files previously"
" cached".format(num_cached_files))
WD_short = shortpath(self.WD)
if not os.path.isdir(self.WD):
print(f"-E- Working directory {WD_short} does not exist.")
print(f"-I- Working directory set to {WD_short}")
# self.delete_magic_files(self.WD)
self.data_model = data_model
self.delay_time = delay_time
if inp_file is None:
temp_inp_pick = wx.Frame()
if usr_configs_read:
inp_file_name = self.pick_inp(temp_inp_pick, inp_dir)
if inp_file_name is None:
ls_inp_dir = list(
os.path.join(inp_dir, s) for s in os.listdir(inp_dir))
inp_file_name = max(ls_inp_dir, key=os.path.getmtime)
print("-W- No .inp file selected. Reading most recently"
" opened file: %s" %
(os.path.basename(inp_file_name)))
else:
inp_file_name = self.pick_inp(temp_inp_pick, self.WD)
temp_inp_pick.Destroy()
elif not os.path.isfile(os.path.realpath(inp_file)):
inp_file = os.path.realpath(inp_file)
if os.path.isfile(os.path.join(self.WD, inp_file)):
inp_file_name = os.path.join(self.WD, inp_file)
elif usr_configs_read:
if os.path.isfile(
os.path.join(inp_dir, os.path.basename(inp_file))):
inp_file_name = os.path.join(inp_dir,
os.path.basename(inp_file))
else:
print(f"-E- Could not find .inp file {inp_file}")
return
else:
inp_file_name = inp_file
self.inp_file = inp_file_name
magic_files = {}
self.read_inp(self.WD, self.inp_file, magic_files, self.data_model)
self.combine_magic_files(self.WD, magic_files, self.data_model)
# self.on_new_inp()
# self.update_loop(force_update=True)
try:
super(Demag_GUIAU, self).__init__(
WD=WD,
# overwrite this for log testing purposes;
# should override the superclass logging methods
# for this eventually
write_to_log_file=False,
data_model=data_model,
test_mode_on=test_mode_on)
except ValueError:
raise ValueError("-E- Data model you entered is not a number")
# make changes to the demag_gui parent frame
# add buttons for triggering autoupdate functions
self.au_add_buttons()
# set AU icon
self.au_set_icon()
# add read .inp option to menubar
self.menubar = super().GetMenuBar()
menu_file = self.menubar.GetMenu(0)
m_read_inp = menu_file.Insert(1, -1, "Read .inp file\tCtrl-I", "")
self.Bind(wx.EVT_MENU, self.on_menu_pick_read_inp, m_read_inp)
self.menubar.Refresh()
# make statusbar
self.statusbar = self.CreateStatusBar()
# find .inp file
# if inp_file is None:
# if usr_configs_read:
# inp_file_name = self.pick_inp(self,inp_dir)
# else:
# inp_file_name = self.pick_inp(self,self.WD)
# elif not os.path.isfile(os.path.realpath(inp_file)):
# inp_file = os.path.realpath(inp_file)
# if os.path.isfile(os.path.join(self.WD, inp_file)):
# inp_file_name = os.path.join(self.WD, inp_file)
# elif usr_configs_read:
# if os.path.isfile(os.path.join(inp_dir, os.path.basename(inp_file))):
# inp_file_name = os.path.join(inp_dir, os.path.basename(inp_file))
# else:
# print(f"-E- Could not find .inp file {inp_file}")
# return
# else:
# inp_file_name = inp_file
# self.inp_file = inp_file_name
# magic_files = {}
# self.read_inp(self.WD, self.inp_file, magic_files, self.data_model)
# self.combine_magic_files(self.WD, magic_files, self.data_model)
self.on_new_inp()
self.update_loop(force_update=True)
self.set_statusbar()
self.timer = Timer(self, ID_ANY)
self.timer.Start(self.delay_time * 1000)
self.Bind(EVT_TIMER, self.on_timer)
self.Bind(wx.EVT_CLOSE, self.OnClose)
# disable test mode to enable dialogs once GUI has started up
super().set_test_mode(False)
####################################################
# initialization methods/changes to the main GUI #
####################################################
def au_add_buttons(self):
"""
add buttons to toggle timer and to stream from main data directory (Dropbox)
"""
self.top_bar_sizer = self.panel.GetSizer()
self.top_bar_h_space = 10
au_status_sizer = wx.StaticBoxSizer(
wx.StaticBox(self.panel, wx.ID_ANY, "Autoupdate Status"),
wx.VERTICAL)
self.au_status_button = wx.ToggleButton(self.panel,
id=wx.ID_ANY,
size=(100 *
self.GUI_RESOLUTION, 25))
self.au_status_button.SetValue(True)
self.au_status_button.SetLabelMarkup("<span foreground='green'><b>" +
"{}</b></span>".format("Running"))
self.go_live = wx.ToggleButton(self.panel,
id=wx.ID_ANY,
label='Go Live',
size=(100 * self.GUI_RESOLUTION, 25))
au_status_btn_sizer = wx.GridSizer(2, 1, 10, 0)
au_status_btn_sizer.AddMany([
(self.au_status_button, 1, wx.ALIGN_RIGHT | wx.EXPAND),
(self.go_live, 1, wx.ALIGN_RIGHT | wx.EXPAND)
])
au_status_sizer.Add(au_status_btn_sizer, 1, wx.TOP | wx.EXPAND, 5)
self.top_bar_sizer.Add(au_status_sizer, 1, wx.ALIGN_LEFT | wx.LEFT,
self.top_bar_h_space)
self.Bind(wx.EVT_TOGGLEBUTTON, self.on_au_status_button,
self.au_status_button)
self.Bind(wx.EVT_TOGGLEBUTTON, self.on_go_live, self.go_live)
self.top_bar_sizer.Layout()
def au_set_icon(self):
"""
set icon
"""
if usr_configs_read and sys.platform.startswith("darwin"):
self.icon = wx.Icon()
self.icon.LoadFile(os.path.join(pkg_dir, "images",
"dmg_au_icon.icns"),
type=wx.BITMAP_TYPE_ICON,
desiredWidth=1024,
desiredHeight=1024)
self.taskicon = wx.adv.TaskBarIcon(wx.adv.TBI_DOCK)
self.taskicon.SetIcon(self.icon)
self.SetIcon(self.icon)
elif usr_configs_read and sys.platform.startswith("win"):
self.icon = wx.Icon()
self.icon.LoadFile(os.path.join(pkg_dir, "images",
"dmg_au_icon.ico"),
type=wx.BITMAP_TYPE_ICO,
desiredWidth=1024,
desiredHeight=1024)
self.SetIcon(self.icon)
####################
# static methods #
####################
# @staticmethod
# def shortpath(abspath):
# return abspath.replace(os.path.expanduser('~') + os.sep, '~/', 1)
# @staticmethod
# def delete_magic_files(self, WD, data_model=3.0):
# compiled_file_names = [
# 'measurements.txt',
# 'specimens.txt',
# 'samples.txt',
# 'sites.txt',
# 'locations.txt',
# 'contribution.txt',
# 'criteria.txt',
# 'ages.txt',
# 'images.txt',
# '.magic']
# wd_files = list(filter(os.path.isfile, map(lambda x: os.path.join(WD, x),
# os.listdir(WD))))
# mfiles = list(filter(lambda x: any([str(x).endswith(fname) for fname in compiled_file_names]),wd_files))
# for mfile in compiled_file_names:
# os.remove(os.path.relpath(mfile))
# print("-I- Removing %s" % (os.path.relpath(mfile)))
# @staticmethod
# def clr_output(raw_str):
# if str(raw_str).startswith('-I-'):
# print(bcolors.OKGREEN + raw_str + bcolors.ENDC)
# elif str(raw_str).startswith('-W-'):
# print(bcolors.WARNING + raw_str + bcolors.ENDC)
# elif str(raw_str).startswith('-E-'):
# print(bcolors.FAIL + raw_str + bcolors.ENDC)
# else:
# print(raw_str)
##############################################
# get attributes (and other useful values) #
##############################################
def get_inp(self):
"""
get name of current inp file
"""
return self.inp_file
def get_status(self):
try:
timer_status = self.timer.IsRunning()
except:
timer_status = True
return timer_status
def get_status_msg(self):
timer_status = self.get_status()
if timer_status:
return "Running"
else:
return "Paused"
def get_sam_path(self):
inp_file = open(self.inp_file, "r")
lines = inp_file.read().splitlines()
inp_file.close()
all_sam_files = [shortpath(x.split('\t')[0]) for x in lines[2:]]
if len(all_sam_files) == 1:
sam_files = os.path.dirname(all_sam_files[0])
else:
sam_files = os.path.commonpath(all_sam_files)
return sam_files
########################################
# event handlers and related methods #
########################################
def toggle_timer(self):
if self.timer.IsRunning():
self.timer.Stop()
print("-I- Timer stopped")
else:
self.timer.Start(self.delay_time * 1000)
print("-I- Timer started")
self.set_statusbar()
def set_statusbar(self, info=None):
status_font = wx.Font(wx.FontInfo()) # .Bold())
# font settings copied from demag_gui
FONT_WEIGHT = 1
if sys.platform.startswith('win'):
FONT_WEIGHT = -1
font1 = wx.Font(9 + FONT_WEIGHT, wx.SWISS, wx.NORMAL, wx.NORMAL, False,
self.font_type)
font2 = wx.Font(11 + FONT_WEIGHT, wx.SWISS, wx.NORMAL, wx.NORMAL,
False, self.font_type)
font = wx.SystemSettings.GetFont(wx.SYS_SYSTEM_FONT)
font.SetPointSize(10 + FONT_WEIGHT)
timer_status = self.get_status()
self.statusbar.SetFont(font2)
if info is not None:
self.statusbar.SetStatusText(info)
self.statusbar.SetBackgroundColour(wx.Colour(96, 194, 242))
elif timer_status:
self.statusbar.SetStatusText('Reading data from %s' %
(self.get_sam_path()))
self.statusbar.SetBackgroundColour(wx.Colour(193, 240, 193))
else:
self.statusbar.SetStatusText('Paused on data from %s' %
(self.get_sam_path()))
self.statusbar.SetBackgroundColour(wx.Colour(255, 255, 153))
def on_menu_pick_read_inp(self, event):
if self.get_status:
self.toggle_timer()
self.set_statusbar(info="Selecting new inp file...")
global usr_configs_read, inp_dir
if usr_configs_read:
inp_file_name = self.pick_inp(self, inp_dir)
else:
inp_file_name = self.pick_inp(self, self.WD)
if inp_file_name is None:
self.toggle_timer()
return
self.inp_file = inp_file_name
# reinitialize one-shot warning with new inp file
self.warn_comments_in_inpfile = False
magic_files = {}
self.read_inp(self.WD, self.inp_file, magic_files, self.data_model)
self.combine_magic_files(self.WD, magic_files, self.data_model)
# recall a bunch of methods from demag_gui __init__
self.on_new_inp()
self.update_loop(force_update=True)
self.toggle_timer()
return self.inp_file
def on_timer(self, event):
update_thread = Thread(target=self.update_loop,
kwargs={
"inp_file": self.inp_file,
"delay_time": self.delay_time,
"data_model": self.data_model
})
update_thread.start()
def on_au_status_button(self, event):
self.toggle_timer()
status, status_msg = self.get_status(), self.get_status_msg()
if status:
self.au_status_button.SetValue(True)
self.au_status_button.SetLabelMarkup(
"<span foreground='green'><b>{}</b></span>".format(status_msg))
else:
self.au_status_button.SetValue(False)
self.au_status_button.SetLabelMarkup(
"<span foreground='red'>{}</span>".format(status_msg))
def on_go_live(self, event):
if self.go_live.GetValue():
self.au_status_button.Disable()
self.go_live.SetLabelMarkup(
"<span foreground='green'><b>{}</b></span>".format("Live!"))
else:
self.au_status_button.Enable()
self.go_live.SetLabel("Go Live")
def on_new_inp(self):
print("-I- Reading from .inp file %s" % (shortpath(self.inp_file)))
inp = open(self.inp_file, "r")
inp_lines = inp.read().splitlines()[2:]
inp.close()
# filter out commented lines for printing
operable_lines = [x for x in inp_lines if not x.startswith("# ")]
for inp_line in operable_lines:
print("-I- Tracking updates at %s" %
(shortpath(inp_line.split('\t')[0])))
# initialize acceptence criteria with NULL values
self.acceptance_criteria = self.read_criteria_file()
# initalize starting variables and structures
self.font_type = "Arial"
if sys.platform.startswith("linux"):
self.font_type = "Liberation Serif"
self.preferences = self.get_preferences()
self.dpi = 100
self.all_fits_list = []
self.pmag_results_data = {}
for level in ['specimens', 'samples', 'sites', 'locations', 'study']:
self.pmag_results_data[level] = {}
self.high_level_means = {}
for high_level in ['samples', 'sites', 'locations', 'study']:
if high_level not in list(self.high_level_means.keys()):
self.high_level_means[high_level] = {}
self.ie_open = False
self.check_orient_on = False
self.list_bound_loc = 0
self.all_fits_list = []
self.current_fit = None
self.selected_meas = []
self.selected_meas_artists = []
self.displayed_means = []
self.selected_meas_called = False
self.dirtypes = ['DA-DIR', 'DA-DIR-GEO', 'DA-DIR-TILT']
self.bad_fits = []
self.CART_rot, self.CART_rot_good, self.CART_rot_bad = array(
[]), array([]), array([])
# initialize selecting criteria
self.COORDINATE_SYSTEM = 'geographic'
self.UPPER_LEVEL_SHOW = 'specimens'
# Get data
self.Data_info = self.get_data_info() # Read er_* data
# Get data from magic_measurements and rmag_anistropy if exist.
self.Data, self.Data_hierarchy = self.get_data()
# get list of sites
self.locations = list(self.Data_hierarchy['locations'].keys())
self.locations.sort() # get list of sites
# get list of sites
self.sites = list(self.Data_hierarchy['sites'].keys())
self.sites.sort(key=spec_key_func) # get list of sites
self.samples = [] # sort the samples within each site
for site in self.sites:
self.samples.extend(
sorted(self.Data_hierarchy['sites'][site]['samples'],
key=spec_key_func))
self.specimens = [] # sort the specimens within each sample
for samp in self.samples:
self.specimens.extend(
sorted(self.Data_hierarchy['samples'][samp]['specimens'],
key=spec_key_func))
# first initialization of self.s only place besides init_cart_rot where it can be set without calling select_specimen
if len(self.specimens) > 0:
self.s = str(self.specimens[0])
else:
self.s = ""
try:
self.sample = self.Data_hierarchy['sample_of_specimen'][self.s]
except KeyError:
self.sample = ""
try:
self.site = self.Data_hierarchy['site_of_specimen'][self.s]
except KeyError:
self.site = ""
# Draw figures and add text
if self.Data and any(self.Data[s][k] if not isinstance(
self.Data[s][k], type(array([]))) else self.Data[s][k].any()
for s in self.Data for k in self.Data[s]):
# get previous interpretations from pmag tables
if self.data_model == 3.0 and 'specimens' in self.con.tables:
self.get_interpretations3()
else:
self.update_pmag_tables()
if not self.current_fit:
self.update_selection_inp()
else:
self.Add_text()
self.update_fit_boxes()
self.update_high_level_stats()
else:
pass
####################################
# core methods for handling data #
####################################
def update_loop(self,
inp_file=None,
force_update=False,
delay_time=1,
data_model=3.0):
print("-I- checking for updates at {0}".format(asctime()))
if self.inp_file is None:
inp_file_names = self.get_all_inp_files(self.WD)
if inp_file_names == []:
print("-W- No inp files found in any subdirectories of "
"%s, aborting update checking thread" % self.WD)
self.timer.Stop()
return
magic_files = {}
update_list = []
for inp_file_name in inp_file_names:
update_list.append(
self.read_inp(self.WD, inp_file_name, magic_files,
data_model))
update_needed = any(update_list)
else:
inp_file_name = self.inp_file
magic_files = {}
update_needed = self.read_inp(self.WD, inp_file_name, magic_files,
data_model)
if update_needed or force_update:
print("-I- Resetting...")
self.combine_magic_files(self.WD,
magic_files,
data_model=data_model)
CallAfter(self.reset_backend, warn_user=False, reset_interps=False)
print("-I- Reset")
def get_all_inp_files(self, WD=None):
WD = os.path.abspath(WD)
if not os.path.isdir(WD):
print("-W- directory %s does not exist, aborting" % WD)
return []
try:
all_inp_files = []
for root, dirs, files in os.walk(WD):
for d in dirs:
all_inp_files += self.get_all_inp_files(
os.path.join(root, d))
for f in files:
if f.endswith(".inp") and f not in map(
lambda x: os.path.split(x)[1], all_inp_files):
all_inp_files.append(os.path.join(root, f))
return all_inp_files
except RuntimeError:
raise RuntimeError(
"Recursion depth exceded, please use different working "
"directory. There are too many sub-directeries to walk")
def read_inp(self, WD, inp_file_name, magic_files, data_model=3.0):
inp_file = open(inp_file_name, "r")
new_inp_file = ""
if type(magic_files) != dict:
magic_files = {}
if 'measurements' not in magic_files.keys():
magic_files['measurements'] = []
if 'specimens' not in magic_files.keys():
magic_files['specimens'] = []
if 'samples' not in magic_files.keys():
magic_files['samples'] = []
if 'sites' not in magic_files.keys():
magic_files['sites'] = []
if 'locations' not in magic_files.keys():
magic_files['locations'] = []
lines = inp_file.read().splitlines()
if len(lines) < 3:
print("-W- File %s appears to be improperly formatted" %
(os.path.basename(inp_file_name)))
return
new_inp_file = lines[0] + "\r\n" + lines[1] + "\r\n"
[lines.remove('') for i in range(lines.count(''))]
format = lines[0].strip()
header = lines[1].split('\t')
update_files = lines[2:]
# ignore lines that have been commented out (see the final lines of
# this method) due to CIT/MagIC conversion failure, which is
# usually a consequence of insufficient data
#
# (lines commented out will be added back to the inp file at end of this
# method)
update_files_commented = [
x for x in update_files if x.startswith("# ")
]
if len(update_files_commented
) > 0 and not self.warn_comments_in_inpfile:
print(
textwrap.dedent("""\
-W- There are currently {} commented lines in the file {}. These lines
will be ignored until the hash marks/comments are removed by the user.\
""".format(len(update_files_commented),
os.path.basename(self.inp_file))))
self.warn_comments_in_inpfile = True
update_files = [x for x in update_files if not x.startswith("# ")]
update_data = False
for i, update_file in enumerate(update_files):
update_lines = update_file.split('\t')
if not os.path.isfile(update_lines[0]):
print("-I- %s not found; searching for location of file..." %
(update_lines[0]))
sam_file_name = os.path.split(update_lines[0])[-1]
new_file_path = find_file(sam_file_name, WD)
if new_file_path is None or not os.path.isfile(new_file_path):
print(
"-W- %s does not exist in any subdirectory of %s and "
"will be skipped" % (update_lines[0], WD))
new_inp_file += update_file + "\r\n"
continue
else:
print("-I- new location for file found at %s" %
(new_file_path))
update_lines[0] = new_file_path
d = os.path.dirname(update_lines[0])
name = os.path.basename(os.path.splitext(update_lines[0])[0])
erspecf = name + "_specimens.txt"
ersampf = name + "_samples.txt"
ersitef = name + "_sites.txt"
erlocf = name + "_locations.txt"
f = name + ".magic"
if os.path.join(d, f) in magic_files:
new_inp_file += update_file + "\r\n"
continue
if float(update_lines[-1]) >= os.path.getmtime(update_lines[0]):
no_changes = True
# check specimen files for changes
sam_file = open(update_lines[0])
sam_file_lines = sam_file.read().splitlines()
spec_file_paths = map(
lambda x: os.path.join(d, x.strip('\r \n')),
sam_file_lines[2:])
for spec_file_path in spec_file_paths:
if float(update_lines[-1]) < \
os.path.getmtime(spec_file_path):
no_changes = False
break
if no_changes and os.path.isfile(os.path.join(WD, f)) \
and os.path.isfile(os.path.join(WD, erspecf)) \
and os.path.isfile(os.path.join(WD, ersampf)) \
and os.path.isfile(os.path.join(WD, ersitef)) \
and (data_model != 3.0 or
os.path.isfile(os.path.join(WD, erlocf))):
magic_files['measurements'].append(os.path.join(WD, f))
magic_files['specimens'].append(os.path.join(WD, erspecf))
magic_files['samples'].append(os.path.join(WD, ersampf))
magic_files['sites'].append(os.path.join(WD, ersitef))
magic_files['locations'].append(os.path.join(WD, erlocf))
new_inp_file += update_file + "\r\n"
continue
if len(header) != len(update_lines):
print(
"-W- length of header and length of entries for the file "
"%s are different and will be skipped" % (update_lines[0]))
new_inp_file += update_file + "\r\n"
continue
update_dict = {}
for head, entry in zip(header, update_lines):
update_dict[head] = entry
if format == "CIT":
CIT_kwargs = {}
CIT_name = os.path.basename(
os.path.splitext(update_dict["sam_path"])[0])
# cannot output to sam_path since this is in the locked
# Dropbox directory; output to WD instead
# CIT_kwargs["dir_path"] = reduce(lambda x,y: x+"/"+y,
# update_dict["sam_path"].split("/")[:-1])
CIT_kwargs["dir_path"] = WD
CIT_kwargs["user"] = ""
CIT_kwargs["meas_file"] = CIT_name + ".magic"
CIT_kwargs["spec_file"] = CIT_name + "_specimens.txt"
CIT_kwargs["samp_file"] = CIT_name + "_samples.txt"
CIT_kwargs["site_file"] = CIT_name + "_sites.txt"
CIT_kwargs["loc_file"] = CIT_name + "_locations.txt"
CIT_kwargs["locname"] = update_dict["location"]
CIT_kwargs["methods"] = update_dict["field_magic_codes"]
CIT_kwargs["specnum"] = update_dict["num_terminal_char"]
CIT_kwargs["noave"] = update_dict[("dont_average_replicate"
"_measurements")]
CIT_kwargs["samp_con"] = update_dict["naming_convention"]
# CIT_kwargs["peak_AF"] = update_dict["peak_AF"]
CIT_kwargs["magfile"] = os.path.basename(
update_dict["sam_path"])
CIT_kwargs["input_dir_path"] = os.path.dirname(
update_dict["sam_path"])
# CIT_kwargs["data_model"] = data_model
# print('-I- from .inp file, converting {} to MagIC with the'
# 'following parameters:'.format(CIT_kwargs["magfile"]))
# try:
# import textwrap
# print(textwrap.indent(str(CIT_kwargs),4*' '))
# except:
# print(str(CIT_kwargs))
if float(data_model) == 3.0:
program_ran, error_message = convert.cit(**CIT_kwargs)
else:
program_ran, error_message = cit_magic.main(
command_line=False, **CIT_kwargs)
measp = os.path.join(CIT_kwargs["dir_path"],
CIT_kwargs["meas_file"])
specp = os.path.join(CIT_kwargs["dir_path"],
CIT_kwargs["spec_file"])
sampp = os.path.join(CIT_kwargs["dir_path"],
CIT_kwargs["samp_file"])
sitep = os.path.join(CIT_kwargs["dir_path"],
CIT_kwargs["site_file"])
locp = os.path.join(CIT_kwargs["dir_path"],
CIT_kwargs["loc_file"])
# print(measp, specp, sampp, sitep, locp)
if program_ran:
update_data = True
update_lines[-1] = time()
new_inp_file += reduce(lambda x, y: str(x) + "\t" + str(y),
update_lines) + "\r\n"
magic_files['measurements'].append(measp)
magic_files['specimens'].append(specp)
magic_files['samples'].append(sampp)
magic_files['sites'].append(sitep)
magic_files['locations'].append(locp)
else:
# TODO: This depends on convert.cit() returning a False
# value, which was modified in the conversion module (it
# currently always returns True, even if the conversion
# ultimately fails) <09-08-18, Luke Fairchild> #
"""
small note: For the case at present, I've organized and
combined inp files by project, which can nicely be done now
using combine_inp_files.py. However, some sites do not yet
have data yet, which was causing problems in this part of
the code. Being able to comment out lines seems to be a more
elegant solution than deleting these lines manually or
moving the copied inp files out of the local directory.
<09-08-18, Luke Fairchild>
"""
# comment out the lines/sites for which CIT to MagIC conversion
# failed
new_inp_file += "# " + update_file + "\r\n"
print("""\
-W- CIT to MagIC conversion failed for site {}. The
line containing information for this site has been
marked/commented out within the file {} and will be
ignored until modified by the
user.""".format(CIT_name, shortpath(self.inp_file)))
if os.path.isfile(measp) and \
os.path.isfile(specp) and \
os.path.isfile(sampp) and \
os.path.isfile(sitep) and \
os.path.isfile(locp):
magic_files['measurements'].append(measp)
magic_files['specimens'].append(specp)
magic_files['samples'].append(sampp)
magic_files['sites'].append(sitep)
magic_files['locations'].append(locp)
inp_file.close()
out_file = open(inp_file_name, "w")
out_file.write(new_inp_file)
# write back any ignored lines to end of file
for l in update_files_commented:
out_file.write(l + "\r\n")
# out_file.close()
return update_data
def combine_magic_files(self, WD, magic_files, data_model=3.0): # 2.5
if type(magic_files) != dict:
return
if data_model == 3.0:
# try:
if 'measurements' in magic_files.keys():
for dot_magic in magic_files['measurements']:
if not os.path.isfile(dot_magic):
magic_files['measurements'].remove(dot_magic)
print('-W- No data for {}'.format(dot_magic))
combine_magic(magic_files['measurements'],
os.path.join(WD, "measurements.txt"))
if 'specimens' in magic_files.keys():
combine_magic(magic_files['specimens'],
os.path.join(WD, "specimens.txt"))
if 'samples' in magic_files.keys():
combine_magic(magic_files['samples'],
os.path.join(WD, "samples.txt"))
if 'sites' in magic_files.keys():
combine_magic(magic_files['sites'],
os.path.join(WD, "sites.txt"))
if 'locations' in magic_files.keys():
combine_magic(magic_files['locations'],
os.path.join(WD, "locations.txt"))
# except FileNotFoundError:
# pass
else:
if 'measurements' in magic_files.keys():
combine_magic(magic_files['measurements'],
os.path.join(WD, "magic_measurements.txt"))
if 'specimens' in magic_files.keys():
combine_magic(magic_files['specimens'],
os.path.join(WD, "er_specimens.txt"))
if 'samples' in magic_files.keys():
combine_magic(magic_files['samples'],
os.path.join(WD, "er_samples.txt"))
if 'sites' in magic_files.keys():
combine_magic(magic_files['sites'],
os.path.join(WD, "er_sites.txt"))
#############
# dialogs #
#############
def pick_inp(self, parent, WD):
dlg = wx.FileDialog(parent,
message="Choose .inp file",
defaultDir=WD,
defaultFile="magic.inp",
wildcard="*.inp",
style=wx.FD_OPEN)
if dlg.ShowModal() == wx.ID_OK:
inp_file_name = dlg.GetPath()
else:
# notify user that most recent file will be used
disableAll = wx.WindowDisabler()
wait = wx.BusyInfo('No inp file selected. Reading from'
' most recently opened files...')
wx.SafeYield()
sleep(1.5)
del wait
inp_file_name = None
dlg.Destroy()
return inp_file_name
# TODO: The following method should really be implemented in demag_gui; the call
# to self.level_names.SetValue in self.update_selection is ignored because
# the combobox self.level_names is readonly <08-12-18, Luke Fairchild> #
def update_selection_inp(self):
"""
Convenience function update display (figures, text boxes and
statistics windows) with a new selection of specimen
"""
self.clear_boxes()
# commented out to allow propogation of higher level viewing state
self.clear_high_level_pars()
if self.UPPER_LEVEL_SHOW != "specimens":
self.mean_type_box.SetValue("None")
# --------------------------
# check if the coordinate system in the window exists (if not change to "specimen" coordinate system)
# --------------------------
coordinate_system = self.coordinates_box.GetValue()
if coordinate_system == 'tilt-corrected' and \
len(self.Data[self.s]['zijdblock_tilt']) == 0:
self.coordinates_box.SetStringSelection('specimen')
elif coordinate_system == 'geographic' and \
len(self.Data[self.s]['zijdblock_geo']) == 0:
self.coordinates_box.SetStringSelection("specimen")
if coordinate_system != self.coordinates_box.GetValue(
) and self.ie_open:
self.ie.coordinates_box.SetStringSelection(
self.coordinates_box.GetValue())
self.ie.update_editor()
coordinate_system = self.coordinates_box.GetValue()
self.COORDINATE_SYSTEM = coordinate_system
# --------------------------
# update treatment list
# --------------------------
self.update_bounds_boxes()
# --------------------------
# update high level boxes
# --------------------------
high_level = self.level_box.GetValue()
old_string = self.level_names.GetValue()
new_string = old_string
if high_level == 'sample':
if self.s in self.Data_hierarchy['sample_of_specimen']:
new_string = self.Data_hierarchy['sample_of_specimen'][self.s]
else:
new_string = ''
if high_level == 'site':
if self.s in self.Data_hierarchy['site_of_specimen']:
new_string = self.Data_hierarchy['site_of_specimen'][self.s]
else:
new_string = ''
if high_level == 'location':
if self.s in self.Data_hierarchy['location_of_specimen']:
new_string = self.Data_hierarchy['location_of_specimen'][
self.s]
else:
new_string = ''
self.level_names.SetString(0, new_string)
if self.ie_open and new_string != old_string:
self.ie.level_names.SetValue(new_string)
self.ie.on_select_level_name(-1, True)
# --------------------------
# update PCA box
# --------------------------
self.update_PCA_box()
# update warning
self.generate_warning_text()
self.update_warning_box()
# update choices in the fit box
self.update_fit_boxes()
self.update_mean_fit_box()
# measurements text box
self.Add_text()
# draw figures
if self.current_fit:
self.draw_figure(self.s, False)
else:
self.draw_figure(self.s, True)
# update high level stats
self.update_high_level_stats()
# redraw interpretations
self.update_GUI_with_new_interpretation()
# def sigint_catcher(self, sig, frame):
# # wx.PostEvent(self.OnClose, wx.EVT_CLOSE)
# self.OnClose(wx.EVT_CLOSE)
def OnClose(self, event):
"""
Close down all processes
"""
# stop the timer
if self.timer.IsRunning():
self.timer.Stop()
print("-I- Timer stopped")
# cache site-level magic files to de-clutter data directory
cache_site_files(self.WD)
print("-I- Site-level magic files stored in 'magic_cache'")
self.Destroy()
def __init__(self, notify, *args, **kw): #PAK
Timer.__init__(self, *args, **kw) #PAK
self.notify = notify
class TimerDisplay(Panel):
def __init__(self, main_window, *args, **kw):
super().__init__(*args, **kw)
self.timer = Timer(self)
self.main_window = main_window
self.time_display = WatchText(self, label=TIMER_LABEL)
self.start_btn = NormalButton(self, label=START_LABEL)
self.pause_btn = NormalButton(self, label=PAUSE_LABEL)
self.reset_btn = NormalButton(self, label=STOP_LABEL)
self.maneger = TimeManeger(self.main_window, self)
self.layout()
self.Bind(EVT_TIMER, self.update_watch)
def layout(self):
vbox = BoxSizer(VERTICAL)
self.SetSizer(vbox)
hbox = BoxSizer(HORIZONTAL)
hbox.Add(self.start_btn, 1, ALIGN_CENTER | RIGHT, 10)
hbox.Add(self.pause_btn, 1, ALIGN_CENTER | RIGHT | LEFT, 5)
hbox.Add(self.reset_btn, 1, ALIGN_CENTER | LEFT, 10)
vbox.Add(self.time_display, 0, ALIGN_CENTER | ALL, 10)
vbox.Add(hbox, 1, ALIGN_CENTER)
vbox.Add(StaticLine(self, ID_ANY, size=(3000, 2)), 0, TOP, 5)
self.pause_btn.Disable()
self.reset_btn.Disable()
def start(self):
if self.state not in [NORMAL, PAUSE]:
return
if self.state == NORMAL:
self.start_btn.Disable()
self.pause_btn.Enable()
self.reset_btn.Enable()
self.timer.Start(100)
self.maneger.start()
elif self.state == PAUSE:
self.restart()
def pause(self):
self.start_btn.Enable()
self.pause_btn.Disable()
self.timer.Stop()
self.maneger.pause()
def restart(self):
self.start_btn.Disable()
self.pause_btn.Enable()
self.timer.Start()
def reset(self):
self.start_btn.Enable()
self.pause_btn.Disable()
self.reset_btn.Disable()
self.time_display.SetLabel(TIMER_LABEL)
self.timer.Stop()
self.maneger.reset()
def update_watch(self, event):
total_seconds = self.maneger.get_elapsed_time().seconds
h, m, s = map(str, get_hms(total_seconds))
watch_label = '{}:{}:{}'.format(h.zfill(2), m.zfill(2), s.zfill(2))
self.time_display.SetLabel(watch_label)
event.Skip()
@property
def state(self):
if self.start_btn.IsEnabled() and not self.pause_btn.IsEnabled(
) and not self.reset_btn.IsEnabled():
return NORMAL
if not self.start_btn.IsEnabled() and self.pause_btn.IsEnabled(
) and self.reset_btn.IsEnabled():
return RUNNING
if self.start_btn.IsEnabled(
) and not self.pause_btn.IsEnabled() and self.reset_btn.IsEnabled():
return PAUSE
return ERROR