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user_params.py
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user_params.py
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# This file is auto-generated from a Python script that parses a PhysiCell configuration (.xml) file.
#
# Edit at your own risk.
#
import os
from ipywidgets import Label,Text,Checkbox,Button,HBox,VBox,FloatText,IntText,BoundedIntText,BoundedFloatText,Layout,Box
class UserTab(object):
def __init__(self):
micron_units = Label('micron') # use "option m" (Mac, for micro symbol)
constWidth = '180px'
tab_height = '500px'
stepsize = 10
#style = {'description_width': '250px'}
style = {'description_width': '25%'}
layout = {'width': '400px'}
name_button_layout={'width':'25%'}
widget_layout = {'width': '15%'}
units_button_layout ={'width':'15%'}
desc_button_layout={'width':'45%'}
param_name1 = Button(description='tumor_radius', disabled=True, layout=name_button_layout)
param_name1.style.button_color = 'lightgreen'
self.tumor_radius = FloatText(
value=250.0,
step=10,
style=style, layout=widget_layout)
param_name2 = Button(description='oncoprotein_mean', disabled=True, layout=name_button_layout)
param_name2.style.button_color = 'tan'
self.oncoprotein_mean = FloatText(
value=1.0,
step=0.1,
style=style, layout=widget_layout)
param_name3 = Button(description='oncoprotein_sd', disabled=True, layout=name_button_layout)
param_name3.style.button_color = 'lightgreen'
self.oncoprotein_sd = FloatText(
value=0.25,
step=0.01,
style=style, layout=widget_layout)
param_name4 = Button(description='oncoprotein_min', disabled=True, layout=name_button_layout)
param_name4.style.button_color = 'tan'
self.oncoprotein_min = FloatText(
value=0.0,
step=0.01,
style=style, layout=widget_layout)
param_name5 = Button(description='oncoprotein_max', disabled=True, layout=name_button_layout)
param_name5.style.button_color = 'lightgreen'
self.oncoprotein_max = FloatText(
value=2,
step=0.1,
style=style, layout=widget_layout)
param_name6 = Button(description='random_seed', disabled=True, layout=name_button_layout)
param_name6.style.button_color = 'tan'
self.random_seed = IntText(
value=0,
step=1,
style=style, layout=widget_layout)
units_button1 = Button(description='micron', disabled=True, layout=units_button_layout)
units_button1.style.button_color = 'lightgreen'
units_button2 = Button(description='', disabled=True, layout=units_button_layout)
units_button2.style.button_color = 'tan'
units_button3 = Button(description='', disabled=True, layout=units_button_layout)
units_button3.style.button_color = 'lightgreen'
units_button4 = Button(description='', disabled=True, layout=units_button_layout)
units_button4.style.button_color = 'tan'
units_button5 = Button(description='', disabled=True, layout=units_button_layout)
units_button5.style.button_color = 'lightgreen'
units_button6 = Button(description='', disabled=True, layout=units_button_layout)
units_button6.style.button_color = 'tan'
desc_button1 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button1.style.button_color = 'lightgreen'
desc_button2 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button2.style.button_color = 'tan'
desc_button3 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button3.style.button_color = 'lightgreen'
desc_button4 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button4.style.button_color = 'tan'
desc_button5 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button5.style.button_color = 'lightgreen'
desc_button6 = Button(description='', disabled=True, layout=desc_button_layout)
desc_button6.style.button_color = 'tan'
row1 = [param_name1, self.tumor_radius, units_button1, desc_button1]
row2 = [param_name2, self.oncoprotein_mean, units_button2, desc_button2]
row3 = [param_name3, self.oncoprotein_sd, units_button3, desc_button3]
row4 = [param_name4, self.oncoprotein_min, units_button4, desc_button4]
row5 = [param_name5, self.oncoprotein_max, units_button5, desc_button5]
row6 = [param_name6, self.random_seed, units_button6, desc_button6]
box_layout = Layout(display='flex', flex_flow='row', align_items='stretch', width='100%')
box1 = Box(children=row1, layout=box_layout)
box2 = Box(children=row2, layout=box_layout)
box3 = Box(children=row3, layout=box_layout)
box4 = Box(children=row4, layout=box_layout)
box5 = Box(children=row5, layout=box_layout)
box6 = Box(children=row6, layout=box_layout)
self.tab = VBox([
box1,
box2,
box3,
box4,
box5,
box6,
])
# Populate the GUI widgets with values from the XML
def fill_gui(self, xml_root):
uep = xml_root.find('.//microenvironment_setup') # find unique entry point
vp = [] # pointers to <variable> nodes
if uep:
for var in uep.findall('variable'):
vp.append(var)
uep = xml_root.find('.//user_parameters') # find unique entry point
self.tumor_radius.value = float(uep.find('.//tumor_radius').text)
self.oncoprotein_mean.value = float(uep.find('.//oncoprotein_mean').text)
self.oncoprotein_sd.value = float(uep.find('.//oncoprotein_sd').text)
self.oncoprotein_min.value = float(uep.find('.//oncoprotein_min').text)
self.oncoprotein_max.value = float(uep.find('.//oncoprotein_max').text)
self.random_seed.value = int(uep.find('.//random_seed').text)
# Read values from the GUI widgets to enable editing XML
def fill_xml(self, xml_root):
uep = xml_root.find('.//microenvironment_setup') # find unique entry point
vp = [] # pointers to <variable> nodes
if uep:
for var in uep.findall('variable'):
vp.append(var)
uep = xml_root.find('.//user_parameters') # find unique entry point
uep.find('.//tumor_radius').text = str(self.tumor_radius.value)
uep.find('.//oncoprotein_mean').text = str(self.oncoprotein_mean.value)
uep.find('.//oncoprotein_sd').text = str(self.oncoprotein_sd.value)
uep.find('.//oncoprotein_min').text = str(self.oncoprotein_min.value)
uep.find('.//oncoprotein_max').text = str(self.oncoprotein_max.value)
uep.find('.//random_seed').text = str(self.random_seed.value)