def __init__(self, parent, main, app: FastFlixApp, *args, **kwargs):
super().__init__(parent, *args, **kwargs)
self.main = main
self.app = app
self.widgets = Box()
self.labels = Box()
self.opts = Box()
self.only_int = QtGui.QIntValidator()
self.only_float = QtGui.QDoubleValidator()
def append_more_cb(self):
# print("---- append_more_cb()")
# self.create_user_param()
# self.scrollLayout.addRow(NewUserParam(self))
for idx in range(5):
# self.main_layout.addLayout(NewUserParam(self))
hbox = QHBoxLayout()
w = QCheckBox("")
self.select.append(w)
hbox.addWidget(w)
w = QLineEdit()
self.name.append(w)
hbox.addWidget(w)
w = QLineEdit()
self.value.append(w)
w.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(w)
w = QLineEdit()
w.setFixedWidth(self.units_width)
self.units.append(w)
hbox.addWidget(w)
self.main_layout.addLayout(hbox)
hbox = QHBoxLayout()
w = QLabel("Desc:")
hbox.addWidget(w)
w = QLineEdit()
self.description.append(w)
hbox.addWidget(w)
w.setStyleSheet("background-color: lightgray")
# units = QLabel("micron^2/min")
# units.setFixedWidth(units_width)
# hbox.addWidget(units)
self.main_layout.addLayout(hbox)
self.count = self.count + 1
print(self.count)
def __init__(self):
super().__init__()
# global self.microenv_params
self.param_d = {} # a dict of dicts - rwh/todo, used anymore?
# self.substrate = {}
self.current_substrate = None
self.xml_root = None
self.celldef_tab = None
self.new_substrate_count = 1
# self.stacked_w = QStackedWidget()
# self.stack_w = []
# self.stack_w.append(QStackedWidget())
# self.stacked_w.addWidget(self.stack_w[0])
#---------------
# self.cell_defs = CellDefInstances()
self.microenv_hbox = QHBoxLayout()
splitter = QSplitter()
tree_widget_width = 160
self.tree = QTreeWidget() # tree is overkill; list would suffice; meh.
# self.tree.setStyleSheet("background-color: lightgray")
self.tree.setFixedWidth(tree_widget_width)
# self.tree.currentChanged(self.tree_item_changed_cb)
self.tree.itemClicked.connect(self.tree_item_changed_cb)
# self.tree.itemSelectionChanged()
# self.tree.setColumnCount(1)
# self.tree.setCurrentItem(0) # rwh/TODO
header = QTreeWidgetItem(["--- Substrate ---"])
self.tree.setHeaderItem(header)
# cellname = QTreeWidgetItem(["virus"])
# self.tree.insertTopLevelItem(0,cellname)
# cellname = QTreeWidgetItem(["interferon"])
# self.tree.insertTopLevelItem(1,cellname)
self.microenv_hbox.addWidget(self.tree)
self.scroll_cell_def_tree = QScrollArea()
self.scroll_cell_def_tree.setWidget(self.tree)
# splitter.addWidget(self.tree)
splitter.addWidget(self.scroll_cell_def_tree)
#-------------------------------------------
# self.tab = QWidget()
# self.tabs.resize(200,5)
#-------------------------------------------
label_width = 150
units_width = 80
# self.scroll = QScrollArea()
self.scroll_area = QScrollArea()
splitter.addWidget(self.scroll_area)
# self.microenv_hbox.addWidget(self.scroll_area)
self.microenv_params = QWidget()
self.vbox = QVBoxLayout()
self.vbox.addStretch(0)
# self.microenv_hbox.addWidget(self.)
#------------------
controls_hbox = QHBoxLayout()
self.new_button = QPushButton("New")
self.new_button.clicked.connect(self.new_substrate)
controls_hbox.addWidget(self.new_button)
self.copy_button = QPushButton("Copy")
self.copy_button.clicked.connect(self.copy_substrate)
controls_hbox.addWidget(self.copy_button)
self.delete_button = QPushButton("Delete")
self.delete_button.clicked.connect(self.delete_substrate)
controls_hbox.addWidget(self.delete_button)
# self.vbox.addLayout(hbox)
# self.vbox.addWidget(QHLine())
#------------------
hbox = QHBoxLayout()
label = QLabel("Name of substrate:")
label.setFixedWidth(180)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.substrate_name = QLineEdit()
# Want to validate name, e.g., starts with alpha, no special chars, etc.
# self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.substrate_name)
self.vbox.addLayout(hbox)
#------------------
hbox = QHBoxLayout()
label = QLabel("diffusion coefficient")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.diffusion_coef = QLineEdit()
self.diffusion_coef.setValidator(QtGui.QDoubleValidator())
self.diffusion_coef.textChanged.connect(self.diffusion_coef_changed)
# self.diffusion_coef.enter.connect(self.save_xml)
hbox.addWidget(self.diffusion_coef)
units = QLabel("micron^2/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("decay rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.decay_rate = QLineEdit()
self.decay_rate.setValidator(QtGui.QDoubleValidator())
self.decay_rate.textChanged.connect(self.decay_rate_changed)
# self.decay_rate.enter.connect(self.save_xml)
hbox.addWidget(self.decay_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("initial condition")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.init_cond = QLineEdit()
self.init_cond.setValidator(QtGui.QDoubleValidator())
self.init_cond.textChanged.connect(self.init_cond_changed)
# self.init_cond.enter.connect(self.save_xml)
hbox.addWidget(self.init_cond)
units = QLabel("mmol")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Dirichlet BC")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_bc = QLineEdit()
self.dirichlet_bc.setValidator(QtGui.QDoubleValidator())
self.dirichlet_bc.textChanged.connect(self.dirichlet_bc_changed)
# self.bdy_cond.enter.connect(self.save_xml)
hbox.addWidget(self.dirichlet_bc)
units = QLabel("mmol")
units.setFixedWidth(units_width)
hbox.addWidget(units)
# <Dirichlet_boundary_condition units="dimensionless" enabled="false">0</Dirichlet_boundary_condition>
self.dirichlet_bc_enabled = QCheckBox("on/off")
self.dirichlet_bc_enabled.stateChanged.connect(
self.dirichlet_toggle_cb)
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.dirichlet_bc_enabled)
self.vbox.addLayout(hbox)
#--------------------------
# <!--
# <Dirichlet_options>
# <boundary_value ID="xmin" enabled="false">0</boundary_value>
# <boundary_value ID="xmax" enabled="false">0</boundary_value>
# <boundary_value ID="ymin" enabled="false">0</boundary_value>
# <boundary_value ID="ymax" enabled="false">0</boundary_value>
# <boundary_value ID="zmin" enabled="false">1</boundary_value>
# <boundary_value ID="zmax" enabled="false">0</boundary_value>
# </Dirichlet_options>
# -->
# </variable>
dirichlet_options_bdy = QLabel("Dirichlet options per boundary:")
# units.setFixedWidth(units_width)
self.vbox.addWidget(dirichlet_options_bdy)
#----
hbox = QHBoxLayout()
label = QLabel("xmin:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_xmin = QLineEdit()
self.dirichlet_xmin.setValidator(QtGui.QDoubleValidator())
self.dirichlet_xmin.textChanged.connect(self.dirichlet_xmin_changed)
hbox.addWidget(self.dirichlet_xmin)
self.enable_xmin = QCheckBox("on/off")
self.enable_xmin.stateChanged.connect(self.enable_xmin_cb)
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.enable_xmin)
self.vbox.addLayout(hbox)
#----
hbox = QHBoxLayout()
label = QLabel("xmax:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_xmax = QLineEdit()
self.dirichlet_xmax.setValidator(QtGui.QDoubleValidator())
self.dirichlet_xmax.textChanged.connect(self.dirichlet_xmax_changed)
hbox.addWidget(self.dirichlet_xmax)
self.enable_xmax = QCheckBox("on/off")
self.enable_xmax.stateChanged.connect(self.enable_xmax_cb)
hbox.addWidget(self.enable_xmax)
self.vbox.addLayout(hbox)
#---------
hbox = QHBoxLayout()
label = QLabel("ymin:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_ymin = QLineEdit()
self.dirichlet_ymin.setValidator(QtGui.QDoubleValidator())
self.dirichlet_ymin.textChanged.connect(self.dirichlet_ymin_changed)
hbox.addWidget(self.dirichlet_ymin)
self.enable_ymin = QCheckBox("on/off")
self.enable_ymin.stateChanged.connect(self.enable_ymin_cb)
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.enable_ymin)
self.vbox.addLayout(hbox)
#----
hbox = QHBoxLayout()
label = QLabel("ymax:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_ymax = QLineEdit()
self.dirichlet_ymax.setValidator(QtGui.QDoubleValidator())
self.dirichlet_ymax.textChanged.connect(self.dirichlet_ymax_changed)
hbox.addWidget(self.dirichlet_ymax)
self.enable_ymax = QCheckBox("on/off")
self.enable_ymax.stateChanged.connect(self.enable_ymax_cb)
hbox.addWidget(self.enable_ymax)
self.vbox.addLayout(hbox)
#---------
hbox = QHBoxLayout()
label = QLabel("zmin:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_zmin = QLineEdit()
self.dirichlet_zmin.setValidator(QtGui.QDoubleValidator())
self.dirichlet_zmin.textChanged.connect(self.dirichlet_zmin_changed)
hbox.addWidget(self.dirichlet_zmin)
self.enable_zmin = QCheckBox("on/off")
self.enable_zmin.stateChanged.connect(self.enable_zmin_cb)
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.enable_zmin)
self.vbox.addLayout(hbox)
#----
hbox = QHBoxLayout()
label = QLabel("zmax:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.dirichlet_zmax = QLineEdit()
self.dirichlet_zmax.setValidator(QtGui.QDoubleValidator())
self.dirichlet_zmax.textChanged.connect(self.dirichlet_zmax_changed)
hbox.addWidget(self.dirichlet_zmax)
self.enable_zmax = QCheckBox("on/off")
self.enable_zmax.stateChanged.connect(self.enable_zmax_cb)
hbox.addWidget(self.enable_zmax)
self.vbox.addLayout(hbox)
#-------------
# Toggles for overall microenv (all substrates)
self.vbox.addWidget(QHLine())
hbox = QHBoxLayout()
hbox.addWidget(QLabel("For all substrates: "))
self.gradients = QCheckBox("calculate gradients")
# self.gradients.stateChanged.connect(self.gradients_cb)
hbox.addWidget(self.gradients)
# self.vbox.addLayout(hbox)
# hbox = QHBoxLayout()
self.track_in_agents = QCheckBox("track in agents")
# self.track_in_agents.stateChanged.connect(self.track_in_agents_cb)
hbox.addWidget(self.track_in_agents)
self.vbox.addLayout(hbox)
#--------------------------
# Dummy widget for filler??
# label = QLabel("")
# label.setFixedHeight(1000)
# # label.setStyleSheet("background-color: orange")
# label.setAlignment(QtCore.Qt.AlignCenter)
# self.vbox.addWidget(label)
#==================================================================
# self.vbox.setAlignment(QtCore.Qt.AlignTop)
# spacerItem = QSpacerItem(20, 237, QtGui.QSizePolicy.Minimum, QtGui.QSizePolicy.Expanding)
# spacerItem = QSpacerItem(100,500)
# self.vbox.addItem(spacerItem)
self.vbox.addStretch()
self.microenv_params.setLayout(self.vbox)
self.scroll_area.setVerticalScrollBarPolicy(
QtCore.Qt.ScrollBarAlwaysOn)
self.scroll_area.setHorizontalScrollBarPolicy(
QtCore.Qt.ScrollBarAlwaysOn)
self.scroll_area.setWidgetResizable(True)
self.scroll_area.setWidget(self.microenv_params)
# self.save_button = QPushButton("Save")
# self.text = QLabel("Hello World",alignment=QtCore.Qt.AlignCenter)
self.layout = QVBoxLayout(self)
self.layout.addLayout(controls_hbox)
# self.layout.addWidget(self.tabs)
# self.layout.addWidget(QHLine())
# self.layout.addWidget(self.params)
# self.layout.addWidget(self.scroll_area)
self.layout.addWidget(splitter)
def argument_widget_factory(component: str, title: str = None, optional: bool = True) -> QtWidgets.QWidget:
"""
Factory function for generating various subclasses of instance `PySide6.QtWidgets.QWidgets` pre-configured for user-input.
Parameters
----------
1. **components** : ``str``
Allowable values: `date`, `decimal`, `currency`, `integer`, `select`, `flag`, `symbols`, `symbol`. If `components=None`, a `PySide6.QtWidgets.QWidget` will be returned.
"""
widget = atomic_widget_factory(None, None)
widget.setObjectName('input-container')
if optional:
toggle_widget = QtWidgets.QCheckBox()
toggle_widget.setObjectName('input-toggle')
toggle_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Maximum, QtWidgets.QSizePolicy.Maximum))
label_widget = QtWidgets.QLabel(title)
label_widget.setAlignment(QtCore.Qt.AlignBottom)
label_widget.setObjectName('input-label')
if component == 'date':
main_widget = QtWidgets.QDateEdit()
main_widget.setDate(QtCore.QDate.currentDate())
main_widget.setMaximumDate(QtCore.QDate.currentDate())
main_widget.setMinimumDate(QtCore.QDate(
constants.constants['PRICE_YEAR_CUTOFF'], 1, 1))
main_widget.setObjectName(component)
main_widget.setEnabled(False)
elif component == 'decimal':
main_widget = QtWidgets.QLineEdit()
main_widget.setObjectName(component)
main_widget.setValidator(
QtGui.QDoubleValidator(-100, 100, 5, main_widget))
main_widget.setEnabled(False)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Maximum, QtWidgets.QSizePolicy.Maximum))
elif component == 'currency':
main_widget = QtWidgets.QLineEdit()
main_widget.setObjectName(component)
# https://stackoverflow.com/questions/354044/what-is-the-best-u-s-currency-regex
main_widget.setValidator(QtGui.QRegularExpressionValidator(
r"[+-]?[0-9]{1,3}(?:,?[0-9]{3})*(?:\.[0-9]{2})", main_widget))
main_widget.setEnabled(False)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Maximum, QtWidgets.QSizePolicy.Maximum))
elif component == 'integer':
main_widget = QtWidgets.QLineEdit()
main_widget.setObjectName(component)
main_widget.setValidator(QtGui.QIntValidator(0, 100, main_widget))
main_widget.setEnabled(False)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Maximum, QtWidgets.QSizePolicy.Maximum))
elif component == 'select':
return None
elif component == 'flag':
main_widget = QtWidgets.QRadioButton(title)
main_widget.setObjectName(component)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Maximum, QtWidgets.QSizePolicy.Maximum))
elif component == 'symbols':
main_widget = QtWidgets.QLineEdit()
main_widget.setObjectName(component)
main_widget.setMaxLength(100)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Minimum, QtWidgets.QSizePolicy.Maximum))
elif component == 'symbol':
main_widget = QtWidgets.QLineEdit()
main_widget.setObjectName(component)
main_widget.setMaxLength(100)
main_widget.setSizePolicy(QtWidgets.QSizePolicy(
QtWidgets.QSizePolicy.Minimum, QtWidgets.QSizePolicy.Maximum))
main_widget.setValidator(
QtGui.QRegularExpressionValidator(r"[A-Za-z]+", main_widget))
else:
main_widget = QtWidgets.QWidget()
widget.layout().addWidget(label_widget)
widget.layout().addWidget(main_widget)
if optional:
toggle_widget.stateChanged.connect(
lambda: main_widget.setEnabled((not main_widget.isEnabled())))
widget.layout().addWidget(toggle_widget)
return widget
def __init__(self):
super().__init__()
# global self.config_params
self.xml_root = None
# self.tab = QWidget()
# self.tabs.resize(200,5)
#-------------------------------------------
label_width = 110
domain_value_width = 100
value_width = 60
label_height = 20
units_width = 70
self.scroll = QScrollArea() # might contain centralWidget
self.config_params = QWidget()
self.vbox = QVBoxLayout()
self.vbox.addStretch(0)
#============ Domain ================================
label = QLabel("Domain (micron)")
label.setFixedHeight(label_height)
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox.addWidget(label)
hbox = QHBoxLayout()
label = QLabel("Xmin")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.xmin = QLineEdit()
self.xmin.setFixedWidth(domain_value_width)
self.xmin.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.xmin)
label = QLabel("Xmax")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.xmax = QLineEdit()
self.xmax.setFixedWidth(domain_value_width)
self.xmax.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.xmax)
label = QLabel("dx")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.xdel = QLineEdit()
self.xdel.setFixedWidth(value_width)
self.xdel.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.xdel)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Ymin")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.ymin = QLineEdit()
self.ymin.setFixedWidth(domain_value_width)
self.ymin.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.ymin)
label = QLabel("Ymax")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.ymax = QLineEdit()
self.ymax.setFixedWidth(domain_value_width)
self.ymax.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.ymax)
label = QLabel("dy")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.ydel = QLineEdit()
self.ydel.setFixedWidth(value_width)
self.ydel.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.ydel)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Zmin")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.zmin = QLineEdit()
self.zmin.setFixedWidth(domain_value_width)
self.zmin.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.zmin)
label = QLabel("Zmax")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.zmax = QLineEdit()
self.zmax.setFixedWidth(domain_value_width)
self.zmax.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.zmax)
label = QLabel("dz")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.zdel = QLineEdit()
self.zdel.setFixedWidth(value_width)
self.zdel.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.zdel)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
self.virtual_walls = QCheckBox("Virtual walls")
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.virtual_walls)
self.vbox.addLayout(hbox)
# self.vbox.addWidget(QHLine())
#============ Misc ================================
label = QLabel("Misc runtime parameters")
label.setFixedHeight(label_height)
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox.addWidget(label)
hbox = QHBoxLayout()
# hbox.setFixedHeight(label_width)
label = QLabel("Max Time")
# label_width = 210
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.max_time = QLineEdit()
# self.max_time.setFixedWidth(200)
self.max_time.setFixedWidth(domain_value_width)
self.max_time.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.max_time)
label = QLabel("min")
label.setFixedWidth(units_width)
label.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(label)
self.vbox.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("# threads")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.num_threads = QLineEdit()
# self.num_threads.setFixedWidth(value_width)
self.num_threads.setFixedWidth(domain_value_width)
self.num_threads.setValidator(QtGui.QIntValidator())
hbox.addWidget(self.num_threads)
label = QLabel(" ")
label.setFixedWidth(units_width)
label.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(label)
self.vbox.addLayout(hbox)
#------------------
hbox = QHBoxLayout()
label = QLabel("Save data:")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(label)
#------
self.save_svg = QCheckBox("SVG")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.save_svg)
label = QLabel("every")
# label_width = 210
# label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.svg_interval = QLineEdit()
self.svg_interval.setFixedWidth(value_width)
self.svg_interval.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.svg_interval)
label = QLabel("min")
# label.setFixedWidth(units_width)
label.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(label)
#------
self.save_full = QCheckBox("Full")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.save_full)
label = QLabel("every")
# label_width = 210
# label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.full_interval = QLineEdit()
self.full_interval.setFixedWidth(value_width)
self.full_interval.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.full_interval)
label = QLabel("min")
# label.setFixedWidth(units_width)
label.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(label)
self.vbox.addLayout(hbox)
#============ Cells IC ================================
label = QLabel("Initial conditions of cells (x,y,z, type)")
label.setFixedHeight(label_height)
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox.addWidget(label)
self.cells_csv = QCheckBox("config/cells.csv")
self.vbox.addWidget(self.cells_csv)
#--------------------------
# Dummy widget for filler??
# label = QLabel("")
# label.setFixedHeight(1000)
# # label.setStyleSheet("background-color: orange")
# label.setAlignment(QtCore.Qt.AlignCenter)
# self.vbox.addWidget(label)
self.vbox.addStretch()
#==================================================================
self.config_params.setLayout(self.vbox)
self.scroll.setVerticalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setHorizontalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setWidgetResizable(True)
self.scroll.setWidget(
self.config_params) # self.config_params = QWidget()
self.layout = QVBoxLayout(self)
self.layout.addWidget(self.scroll)
def tab_cell_defs(self):
units_width = 70
label_width = 210
layout = QVBoxLayout()
self.params_cell_def = QWidget()
layout = QVBoxLayout()
self.params_config = QWidget()
self.cycle_dropdown = QComboBox()
self.cycle_dropdown.setFixedWidth(300)
self.cycle_dropdown.currentIndexChanged.connect(self.cycle_changed_cb)
# Rf. Section 17 of User Guide
self.cycle_dropdown.addItem("live cells")
self.cycle_dropdown.addItem("basic Ki67")
self.cycle_dropdown.addItem("advanced Ki67")
self.cycle_dropdown.addItem("flow cytometry")
self.cycle_dropdown.addItem("flow cytometry separated")
self.cycle_dropdown.addItem("cycling quiescent")
self.cycle_dropdown.addItem("live apoptotic")
self.cycle_dropdown.addItem("total cells")
layout.addWidget(self.cycle_dropdown)
#===== Phenotype
#============ Cycle ================================
label = QLabel("Phenotype: cycle")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
hbox = QHBoxLayout()
label = QLabel("Phase 0->0 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate0_0 = QLineEdit()
self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate0_0)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
layout.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Phase 0->1 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate0_1 = QLineEdit()
self.cycle_trate0_1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate0_1)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
layout.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Phase 1->2 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate1_2 = QLineEdit()
self.cycle_trate1_2.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate1_2)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
layout.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Phase 2->3 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate2_3 = QLineEdit()
self.cycle_trate2_3.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate2_3)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
layout.addLayout(hbox)
#----------
hbox = QHBoxLayout()
label = QLabel("Phase 3->0 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate3_0 = QLineEdit()
self.cycle_trate3_0.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate3_0)
units = QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
layout.addLayout(hbox)
#============ Death ================================
label = QLabel("Phenotype: death")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
# layout.addWidget(QHLine())
#-----
label = QLabel("Apoptosis")
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
layout.addWidget(label)
hbox = QHBoxLayout()
label = QLabel("death rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.death_apop_rate = QLineEdit()
self.death_apop_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.death_apop_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("phase 0 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase0_duration = QLineEdit()
self.phase0_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase0_duration)
units = QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("phase 1 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase1_duration = QLineEdit()
self.phase1_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase1_duration)
units = QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("unlysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_unlysed_rate = QLineEdit()
self.apoptosis_unlysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_unlysed_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("lysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_lysed_rate = QLineEdit()
self.apoptosis_lysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_lysed_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_cytoplasmic_biomass_change_rate = QLineEdit()
self.apoptosis_cytoplasmic_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_cytoplasmic_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_nuclear_biomass_change_rate = QLineEdit()
self.apoptosis_nuclear_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_nuclear_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("calcification_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcification_rate = QLineEdit()
self.calcification_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcification_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("relative_rupture_volume")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_rupture_volume = QLineEdit()
self.relative_rupture_volume.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.relative_rupture_volume)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
#-----------------------------------------------------------
# layout.addWidget(QHLine())
label = QLabel("Necrosis")
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
layout.addWidget(label)
# layout.addWidget(QHLine())
# label_width = 210
# units_width = 45
hbox = QHBoxLayout()
label = QLabel("death rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.death_necrosis_rate = QLineEdit()
self.death_necrosis_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.death_necrosis_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("phase 0 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase0_duration = QLineEdit()
self.phase0_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase0_duration)
units = QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("phase 1 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase1_duration = QLineEdit()
self.phase1_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase1_duration)
units = QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("unlysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_unlysed_rate = QLineEdit()
self.necrosis_unlysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_unlysed_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("lysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_lysed_rate = QLineEdit()
self.necrosis_lysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_lysed_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_cytoplasmic_biomass_change_rate = QLineEdit()
self.necrosis_cytoplasmic_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_cytoplasmic_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_nuclear_biomass_change_rate = QLineEdit()
self.necrosis_nuclear_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_nuclear_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("calcification_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcification_rate = QLineEdit()
self.calcification_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcification_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("relative_rupture_volume")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_rupture_volume = QLineEdit()
self.relative_rupture_volume.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.relative_rupture_volume)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
#============ Volume ================================
label = QLabel("Phenotype: volume")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
hbox = QHBoxLayout()
label = QLabel("total")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_total = QLineEdit()
self.volume_total.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_total)
units = QLabel("micron^3")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("fluid_fraction")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_fluid_fraction = QLineEdit()
self.volume_fluid_fraction.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_fluid_fraction)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("nuclear")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_nuclear = QLineEdit()
self.volume_nuclear.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_nuclear)
units = QLabel("micron^3")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_fluid_change_rate = QLineEdit()
self.volume_fluid_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_fluid_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cytoplasmic_biomass_change_rate = QLineEdit()
self.cytoplasmic_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.cytoplasmic_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.nuclear_biomass_change_rate = QLineEdit()
self.nuclear_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.nuclear_biomass_change_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("calcified_fraction")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcified_fraction = QLineEdit()
self.calcified_fraction.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcified_fraction)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("calcified_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcified_rate = QLineEdit()
self.calcified_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcified_rate)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
#============ Mechanics ================================
label = QLabel("Phenotype: mechanics")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
# layout.addWidget(QHLine())
hbox = QHBoxLayout()
label = QLabel("cell_cell_adhesion_strength")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_cell_adhesion_strength = QLineEdit()
self.cell_cell_adhesion_strength.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cell_cell_adhesion_strength)
units = QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("cell_cell_repulsion_strength")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_cell_repulsion_strength = QLineEdit()
self.cell_cell_repulsion_strength.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.cell_cell_repulsion_strength)
units = QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("relative_maximum_adhesion_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_maximum_adhesion_distance = QLineEdit()
self.relative_maximum_adhesion_distance.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.relative_maximum_adhesion_distance)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("set_relative_equilibrium_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.set_relative_equilibrium_distance = QLineEdit()
self.set_relative_equilibrium_distance.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.set_relative_equilibrium_distance)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("set_absolute_equilibrium_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.set_absolute_equilibrium_distance = QLineEdit()
self.set_absolute_equilibrium_distance.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.set_absolute_equilibrium_distance)
units = QLabel("micron")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
#============ Motility ================================
label = QLabel("Phenotype: motility")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
# layout.addWidget(QHLine())
hbox = QHBoxLayout()
label = QLabel("speed")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.speed = QLineEdit()
self.speed.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.speed)
units = QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("persistence_time")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.persistence_time = QLineEdit()
self.persistence_time.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.persistence_time)
units = QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("migration_bias")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.migration_bias = QLineEdit()
self.migration_bias.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.migration_bias)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
self.motility_enabled = QCheckBox("enable")
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.motility_enabled)
self.motility_2D = QCheckBox("2D")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.motility_2D)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("Chemotaxis")
label.setFixedWidth(200)
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
hbox.addWidget(label)
self.chemotaxis_enabled = QCheckBox("enabled")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.chemotaxis_enabled)
layout.addLayout(hbox)
self.motility_substrate_dropdown = QComboBox()
self.motility_substrate_dropdown.setFixedWidth(300)
# self.cycle_dropdown.currentIndex.connect(self.cycle_changed_cb)
# self.motility_substrate_dropdown.currentIndexChanged.connect(self.motility_substrate_changed_cb)
self.motility_substrate_dropdown.addItem("oxygen")
layout.addWidget(self.motility_substrate_dropdown)
#============ Secretion ================================
label = QLabel("Phenotype: secretion")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
label = QLabel("oxygen")
label.setStyleSheet('background-color: lightgreen')
label.setFixedWidth(150)
layout.addWidget(label)
hbox = QHBoxLayout()
label = QLabel("secretion_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_rate1 = QLineEdit()
self.secretion_rate1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_rate1)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("target")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_target1 = QLineEdit()
self.secretion_target1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_target1)
units = QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("uptake_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.uptake_rate1 = QLineEdit()
self.uptake_rate1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.uptake_rate1)
units = QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
hbox = QHBoxLayout()
label = QLabel("net_export_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_net_export_rate = QLineEdit()
self.secretion_net_export_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_net_export_rate)
units = QLabel("total/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
layout.addLayout(hbox)
#============ Molecular ================================
label = QLabel("Phenotype: molecular")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
layout.addWidget(label)
# layout.addWidget(QHLine())
#===== Custom data
label = QLabel("Custom data")
label.setStyleSheet("background-color: cyan")
layout.addWidget(label)
#==================================================================
self.params_cell_def.setLayout(layout)
self.scroll = QtWidgets.QScrollArea()
self.scroll.setVerticalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setHorizontalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setWidgetResizable(True)
self.scroll.setWidget(self.params_cell_def)
self.layout = QtWidgets.QVBoxLayout(self)
self.layout.addWidget(self.scroll)
def __init__(self):
super().__init__()
# global self.params_cell_def
self.tabs = QtWidgets.QTabWidget()
self.tab1 = QtWidgets.QWidget()
self.tab2 = QtWidgets.QWidget()
self.tab3 = QtWidgets.QWidget()
self.tab4 = QtWidgets.QWidget()
# self.tabs.resize(300,200)
self.tabs.resize(200, 5)
self.tabs.addTab(self.tab1, "Config")
self.tabs.addTab(self.tab2, "Microenv")
self.tabs.addTab(self.tab3, "Cell Types")
self.tabs.addTab(self.tab4, "User Params")
# self.tabs.addTab("tab1")
self.tabs.currentChanged.connect(self.tab_changed_cb)
#-------------------------------------------
self.vbox_config = QtWidgets.QVBoxLayout()
self.vbox_microenv = QtWidgets.QVBoxLayout()
self.vbox_user_params = QtWidgets.QVBoxLayout()
#-------------------------------------------
self.scroll = QtWidgets.QScrollArea() # might contain centralWidget
self.params_cell_def = QtWidgets.QWidget()
self.vbox_cell_def = QtWidgets.QVBoxLayout()
self.params_config = QtWidgets.QWidget()
self.vbox_config = QtWidgets.QVBoxLayout()
self.cycle_dropdown = QtWidgets.QComboBox()
self.cycle_dropdown.addItem("advanced Ki67")
self.cycle_dropdown.addItem("basic Ki67")
self.cycle_dropdown.addItem("flow cytometry")
self.cycle_dropdown.addItem("live apoptotic")
self.cycle_dropdown.addItem("total cells")
self.cycle_dropdown.addItem("live cells")
self.cycle_dropdown.addItem("flow cytometry separated")
self.cycle_dropdown.addItem("cycling quiescent")
self.vbox_cell_def.addWidget(self.cycle_dropdown)
#===== Phenotype
#============ Cycle ================================
label = QtWidgets.QLabel("Phenotype: cycle")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 0->0 transition rate")
hbox.addWidget(label)
self.cycle_trate0_0 = QtWidgets.QLineEdit()
# self.cycle_trate0_1.setValidator(QtGui.QIntValidator())
self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cycle_trate0_0)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 0->1 transition rate")
hbox.addWidget(label)
self.cycle_trate0_1 = QtWidgets.QLineEdit()
# self.cycle_trate0_1.setValidator(QtGui.QIntValidator())
self.cycle_trate0_1.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cycle_trate0_1)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 1->2 transition rate")
hbox.addWidget(label)
self.cycle_trate1_2 = QtWidgets.QLineEdit()
self.cycle_trate1_2.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate1_2)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 2->3 transition rate")
hbox.addWidget(label)
self.cycle_trate2_3 = QtWidgets.QLineEdit()
self.cycle_trate2_3.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate2_3)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 3->4 transition rate")
hbox.addWidget(label)
self.cycle_trate3_4 = QtWidgets.QLineEdit()
self.cycle_trate3_4.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate3_4)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# self.vbox_cell_def.addWidget(QHLine())
#--------------------------
# hbox = QtWidgets.QHBoxLayout()
# label = QtWidgets.QLabel("Phase0->Phase0 transition rate")
# hbox.addWidget(label)
# self.cycle_trate0_0 = QtWidgets.QLineEdit()
# self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# hbox.addWidget(self.cycle_trate0_0)
# units = QtWidgets.QLabel("1/min")
# hbox.addWidget(units)
# self.vbox_cell_def.addLayout(hbox)
#--------------------------
# self.vbox_cell_def.addWidget(QHLine())
# self.vbox_cell_def.addLayout(hbox)
#----------
#============ Death ================================
label = QtWidgets.QLabel("Phenotype: death")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#-----
label = QtWidgets.QLabel("Apoptosis")
label.setStyleSheet('background-color: yellow')
self.vbox_cell_def.addWidget(label)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("death rate")
hbox.addWidget(label)
self.death_apop_rate = QtWidgets.QLineEdit()
self.death_apop_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.death_apop_rate)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("phase 0 duration")
hbox.addWidget(label)
self.phase0_duration = QtWidgets.QLineEdit()
self.phase0_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase0_duration)
units = QtWidgets.QLabel("min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <phase_durations units="min">
# <duration index="0" fixed_duration="true">516</duration>
# <unlysed_fluid_change_rate units="1/min">0.05</unlysed_fluid_change_rate>
# <lysed_fluid_change_rate units="1/min">0</lysed_fluid_change_rate>
# <cytoplasmic_biomass_change_rate units="1/min">1.66667e-02</cytoplasmic_biomass_change_rate>
# <nuclear_biomass_change_rate units="1/min">5.83333e-03</nuclear_biomass_change_rate>
# <calcification_rate units="1/min">0</calcification_rate>
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("unlysed_fluid_change_rate")
hbox.addWidget(label)
self.apoptosis_unlysed_rate = QtWidgets.QLineEdit()
self.apoptosis_unlysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_unlysed_rate)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("lysed_fluid_change_rate")
hbox.addWidget(label)
self.apoptosis_lysed_rate = QtWidgets.QLineEdit()
self.apoptosis_lysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_lysed_rate)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cytoplasmic_biomass_change_rate")
hbox.addWidget(label)
self.apoptosis_cytoplasmic_biomass_change_rate = QtWidgets.QLineEdit()
self.apoptosis_cytoplasmic_biomass_change_rate.setValidator(
QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_cytoplasmic_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#-----
# self.vbox_cell_def.addWidget(QHLine())
label = QtWidgets.QLabel("Necrosis")
label.setStyleSheet('background-color: yellow')
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#============ Volume ================================
label = QtWidgets.QLabel("Phenotype: volume")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#============ Mechanics ================================
label = QtWidgets.QLabel("Phenotype: mechanics")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#============ Motility ================================
label = QtWidgets.QLabel("Phenotype: motility")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#============ Secretion ================================
label = QtWidgets.QLabel("Phenotype: secretion")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#============ Molecular ================================
label = QtWidgets.QLabel("Phenotype: molecular")
label.setStyleSheet("background-color: orange")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#===== Custom data
label = QtWidgets.QLabel("Custom data")
label.setStyleSheet("background-color: cyan")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#==================================================================
self.params_cell_def.setLayout(self.vbox_cell_def)
self.scroll.setVerticalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setHorizontalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setWidgetResizable(True)
self.scroll.setWidget(self.params_cell_def)
self.save_button = QtWidgets.QPushButton("Save")
# self.text = QtWidgets.QLabel("Hello World",alignment=QtCore.Qt.AlignCenter)
self.layout = QtWidgets.QVBoxLayout(self)
# self.layout.addWidget(self.tabs)
# self.layout.addWidget(QHLine())
# self.layout.addWidget(self.params)
self.layout.addWidget(self.scroll)
# self.layout.addWidget(self.vbox_cell_def)
# self.layout.addWidget(self.text)
self.layout.addWidget(self.save_button)
self.save_button.clicked.connect(self.save_xml)
def itemMeshing(self):
self.form_mesh_airfoil = QtWidgets.QFormLayout()
label = QtWidgets.QLabel(u'Gridpoints along airfoil')
label.setToolTip('Number of points as derived from splining')
points = 0
self.points_on_airfoil = QtWidgets.QLineEdit(str(points))
self.points_on_airfoil.setEnabled(False)
self.form_mesh_airfoil.addRow(label, self.points_on_airfoil)
label = QtWidgets.QLabel(u'Divisions normal to airfoil')
label.setToolTip('Number of points in the mesh which is constructed ' +
' normal to the airfoil contour')
self.points_n = QtWidgets.QSpinBox()
self.points_n.setSingleStep(1)
self.points_n.setRange(1, 500)
self.points_n.setValue(15)
self.form_mesh_airfoil.addRow(label, self.points_n)
label = QtWidgets.QLabel('1st cell layer thickness (m)')
label.setToolTip(
'Thickness of 1st cell layer perpendicular to the airfoil')
self.normal_thickness = QtWidgets.QDoubleSpinBox()
self.normal_thickness.setSingleStep(0.001)
self.normal_thickness.setRange(1.e-10, 1.e10)
self.normal_thickness.setDecimals(8)
self.normal_thickness.setValue(0.00400)
self.form_mesh_airfoil.addRow(label, self.normal_thickness)
label = QtWidgets.QLabel('Cell growth rate (-)')
label.setToolTip('Rate at which 1st cell layer grows')
self.ratio = QtWidgets.QDoubleSpinBox()
self.ratio.setSingleStep(0.01)
self.ratio.setRange(1., 100.)
self.ratio.setValue(1.05)
self.ratio.setDecimals(3)
self.form_mesh_airfoil.addRow(label, self.ratio)
self.form_mesh_TE = QtWidgets.QFormLayout()
label = QtWidgets.QLabel(u'Divisions at trailing edge')
label.setToolTip(
'Number of subdivisions along the vertical part of the TE')
self.te_div = QtWidgets.QSpinBox()
self.te_div.setSingleStep(1)
self.te_div.setRange(1, 20)
self.te_div.setValue(3)
self.form_mesh_TE.addRow(label, self.te_div)
label = QtWidgets.QLabel(u'Divisions downstream')
label.setToolTip(
'Number of subdivisions downstream within the TE block')
self.points_te = QtWidgets.QSpinBox()
self.points_te.setSingleStep(1)
self.points_te.setRange(1, 100)
self.points_te.setValue(15)
self.form_mesh_TE.addRow(label, self.points_te)
label = QtWidgets.QLabel('1st cell layer thickness (m)')
label.setToolTip(
'Thickness of first cell layer in downstream direction')
self.length_te = QtWidgets.QDoubleSpinBox()
self.length_te.setSingleStep(0.001)
self.length_te.setRange(1.e-10, 1.e10)
self.length_te.setDecimals(8)
self.length_te.setValue(0.00400)
self.form_mesh_TE.addRow(label, self.length_te)
label = QtWidgets.QLabel('Cell growth rate (-)')
label.setToolTip(
'Rate at which 1st cell layer downstream the TE grows')
self.ratio_te = QtWidgets.QDoubleSpinBox()
self.ratio_te.setSingleStep(0.01)
self.ratio_te.setRange(1., 100.)
self.ratio_te.setValue(1.05)
self.ratio_te.setDecimals(3)
self.form_mesh_TE.addRow(label, self.ratio_te)
self.form_mesh_tunnel = QtWidgets.QFormLayout()
label = QtWidgets.QLabel('Windtunnel Height (chords)')
label.setToolTip('The height of the windtunnel in units ' +
'of chord length')
self.tunnel_height = QtWidgets.QDoubleSpinBox()
self.tunnel_height.setSingleStep(0.1)
self.tunnel_height.setRange(0.1, 100.)
self.tunnel_height.setValue(3.5)
self.tunnel_height.setDecimals(1)
self.form_mesh_tunnel.addRow(label, self.tunnel_height)
label = QtWidgets.QLabel(u'Divisions of Tunnel Height')
self.divisions_height = QtWidgets.QSpinBox()
self.divisions_height.setSingleStep(10)
self.divisions_height.setRange(1, 1000)
self.divisions_height.setValue(100)
self.form_mesh_tunnel.addRow(label, self.divisions_height)
label = QtWidgets.QLabel('Cell Thickness ratio (-)')
self.ratio_height = QtWidgets.QDoubleSpinBox()
self.ratio_height.setSingleStep(1.0)
self.ratio_height.setRange(0.1, 100.)
self.ratio_height.setValue(10.0)
self.ratio_height.setDecimals(1)
self.form_mesh_tunnel.addRow(label, self.ratio_height)
label = QtWidgets.QLabel('Distribution biasing')
self.dist = QtWidgets.QComboBox()
self.dist.addItems(['symmetric', 'lower', 'upper'])
self.dist.setCurrentIndex(0)
self.form_mesh_tunnel.addRow(label, self.dist)
self.form_mesh_wake = QtWidgets.QFormLayout()
label = QtWidgets.QLabel('Windtunnel Wake (chords)')
label.setToolTip('The length of the wake of the windtunnel in ' +
'units of chord length')
self.tunnel_wake = QtWidgets.QDoubleSpinBox()
self.tunnel_wake.setSingleStep(0.1)
self.tunnel_wake.setRange(0.1, 100.)
self.tunnel_wake.setValue(7.0)
self.tunnel_wake.setDecimals(1)
self.form_mesh_wake.addRow(label, self.tunnel_wake)
label = QtWidgets.QLabel(u'Divisions in the wake')
self.divisions_wake = QtWidgets.QSpinBox()
self.divisions_wake.setSingleStep(10)
self.divisions_wake.setRange(1, 1000)
self.divisions_wake.setValue(100)
self.form_mesh_wake.addRow(label, self.divisions_wake)
label = QtWidgets.QLabel('Cell Thickness ratio (-)')
label.setToolTip('Thickness of the last cell vs. the first cell in ' +
'the wake mesh block')
self.ratio_wake = QtWidgets.QDoubleSpinBox()
self.ratio_wake.setSingleStep(0.1)
self.ratio_wake.setRange(0.01, 100.0)
self.ratio_wake.setValue(15.0)
self.ratio_wake.setDecimals(1)
self.form_mesh_wake.addRow(label, self.ratio_wake)
label = QtWidgets.QLabel('Equalize vertical wake line at (%)')
label.setToolTip('Equalize the wake line vertically. ' +
'Homogeneous vertical distribution at x% downstream')
self.spread = QtWidgets.QDoubleSpinBox()
self.spread.setSingleStep(5.0)
self.spread.setRange(10.0, 90.0)
self.spread.setValue(30.0)
self.spread.setDecimals(1)
self.form_mesh_wake.addRow(label, self.spread)
# smoothing parameters
label = QtWidgets.QLabel('Smoothing')
label.setToolTip('Specify algorithm and parameters for smoothing')
self.btn_smoother_1 = QtWidgets.QRadioButton('Simple (fast)')
self.btn_smoother_2 = QtWidgets.QRadioButton('Elliptic (medium)')
self.btn_smoother_3 = QtWidgets.QRadioButton('Angle based (slow)')
# initialize simple smoother
self.btn_smoother_1.setChecked(True)
self.smoothing_algorithm = 'simple'
self.btn_smoother_1.clicked.connect(self.smoother_btn_clicked)
self.btn_smoother_2.clicked.connect(self.smoother_btn_clicked)
self.btn_smoother_3.clicked.connect(self.smoother_btn_clicked)
smoother_settings = QtWidgets.QFormLayout()
label = QtWidgets.QLabel('Iterations')
self.smoother_iterations = QtWidgets.QSpinBox()
self.smoother_iterations.setValue(20)
self.smoother_iterations.setSingleStep(5)
self.smoother_iterations.setRange(0, 1000)
self.smoother_iterations.setEnabled(False)
smoother_settings.addRow(label, self.smoother_iterations)
label = QtWidgets.QLabel('Tolerance')
self.smoother_tolerance = QtWidgets.QLineEdit()
self.onlyFloat = QtGui.QDoubleValidator()
self.smoother_tolerance.setValidator(self.onlyFloat)
self.smoother_tolerance.setText('1.e-5')
self.onlyFloat.setRange(1.e-8, 1.0)
self.onlyFloat.setDecimals(8)
self.smoother_tolerance.setEnabled(False)
smoother_settings.addRow(label, self.smoother_tolerance)
hbox_smoothing = QtWidgets.QHBoxLayout()
vbox1 = QtWidgets.QVBoxLayout()
vbox2 = QtWidgets.QVBoxLayout()
vbox1.addWidget(self.btn_smoother_1)
vbox1.addWidget(self.btn_smoother_2)
vbox1.addWidget(self.btn_smoother_3)
vbox2.addLayout(smoother_settings)
hbox_smoothing.addLayout(vbox1)
hbox_smoothing.addLayout(vbox2)
vbox = QtWidgets.QVBoxLayout()
vbox.addLayout(self.form_mesh_airfoil)
box_airfoil = QtWidgets.QGroupBox('Airfoil contour mesh')
box_airfoil.setLayout(vbox)
vbox = QtWidgets.QVBoxLayout()
vbox.addLayout(self.form_mesh_TE)
box_TE = QtWidgets.QGroupBox('Airfoil trailing edge mesh')
box_TE.setLayout(vbox)
vbox = QtWidgets.QVBoxLayout()
vbox.addLayout(self.form_mesh_tunnel)
box_tunnel = QtWidgets.QGroupBox('Windtunnel mesh (around airfoil)')
box_tunnel.setLayout(vbox)
vbox = QtWidgets.QVBoxLayout()
vbox.addLayout(self.form_mesh_wake)
box_wake = QtWidgets.QGroupBox('Windtunnel mesh (wake)')
box_wake.setLayout(vbox)
box_smoothing = QtWidgets.QGroupBox('Smoothing')
box_smoothing.setLayout(hbox_smoothing)
self.createMeshButton = QtWidgets.QPushButton('Create Mesh')
hbl_cm = QtWidgets.QHBoxLayout()
hbl_cm.addStretch(stretch=1)
hbl_cm.addWidget(self.createMeshButton, stretch=4)
hbl_cm.addStretch(stretch=1)
# export menu and boundary definitions
self.form_bnd = QtWidgets.QFormLayout()
label = QtWidgets.QLabel('Boundary name for airfoil')
label.setToolTip('Name of the boundary definition for the airfoil')
self.lineedit_airfoil = QtWidgets.QLineEdit('Airfoil')
self.form_bnd.addRow(label, self.lineedit_airfoil)
label = QtWidgets.QLabel('Boundary name for inlet')
label.setToolTip('Name of the boundary definition for the inlet flow')
self.lineedit_inlet = QtWidgets.QLineEdit('Inlet')
self.form_bnd.addRow(label, self.lineedit_inlet)
label = QtWidgets.QLabel('Boundary name for outlet')
label.setToolTip('Name of the boundary definition for the outlet flow')
self.lineedit_outlet = QtWidgets.QLineEdit('Outlet')
self.form_bnd.addRow(label, self.lineedit_outlet)
label = QtWidgets.QLabel('Boundary name for symmetry')
label.setToolTip('Name of the boundary definition for the symmetry')
self.lineedit_symmetry = QtWidgets.QLineEdit('Symmetry')
self.form_bnd.addRow(label, self.lineedit_symmetry)
self.check_FIRE = QtWidgets.QCheckBox('AVL FIRE')
self.check_SU2 = QtWidgets.QCheckBox('SU2')
self.check_GMSH = QtWidgets.QCheckBox('GMSH')
self.check_VTK = QtWidgets.QCheckBox('VTK')
self.check_CGNS = QtWidgets.QCheckBox('CGNS')
self.check_ABAQUS = QtWidgets.QCheckBox('ABAQUS')
self.check_FIRE.setChecked(True)
self.check_SU2.setChecked(True)
self.check_GMSH.setChecked(False)
self.check_VTK.setChecked(True)
self.check_CGNS.setChecked(False)
self.check_ABAQUS.setChecked(False)
label = QtWidgets.QLabel('Export format:')
label.setToolTip('Check format to be exported')
grid = QtWidgets.QGridLayout()
grid.addWidget(label, 0, 0)
grid.addWidget(self.check_FIRE, 0, 1)
grid.addWidget(self.check_SU2, 0, 2)
grid.addWidget(self.check_GMSH, 0, 3)
grid.addWidget(self.check_VTK, 1, 1)
grid.addWidget(self.check_CGNS, 1, 2)
grid.addWidget(self.check_ABAQUS, 1, 3)
exportMeshButton = QtWidgets.QPushButton('Export Mesh')
hbl = QtWidgets.QHBoxLayout()
hbl.addStretch(stretch=1)
hbl.addWidget(exportMeshButton, stretch=4)
hbl.addStretch(stretch=1)
vbl1 = QtWidgets.QVBoxLayout()
vbl1.addLayout(self.form_bnd)
vbl1.addLayout(grid)
vbl1.addLayout(hbl)
self.box_meshexport = QtWidgets.QGroupBox('Mesh Export')
self.box_meshexport.setLayout(vbl1)
self.box_meshexport.setEnabled(False)
vbl = QtWidgets.QVBoxLayout()
vbl.addStretch(1)
vbl.addWidget(box_airfoil)
vbl.addWidget(box_TE)
vbl.addWidget(box_tunnel)
vbl.addWidget(box_wake)
vbl.addWidget(box_smoothing)
vbl.addLayout(hbl_cm)
vbl.addStretch(1)
vbl.addWidget(self.box_meshexport)
vbl.addStretch(10)
self.item_msh = QtWidgets.QWidget()
self.item_msh.setLayout(vbl)
self.createMeshButton.clicked.connect(self.generateMesh)
exportMeshButton.clicked.connect(self.exportMesh)
def __init__(self):
super().__init__()
# global self.params_cell_def
# self.cell_defs = CellDefInstances()
self.cell_def_horiz_layout = QtWidgets.QHBoxLayout()
splitter = QtWidgets.QSplitter()
self.tree = QtWidgets.QTreeWidget()
self.tree.setStyleSheet("background-color: lightgray")
# self.tree.setColumnCount(1)
header = QTreeWidgetItem(["--- Cell Types ---"])
self.tree.setHeaderItem(header)
cellname = QTreeWidgetItem(["epi cell"])
self.tree.insertTopLevelItem(0,cellname)
cellname = QTreeWidgetItem(["macrophage"])
self.tree.insertTopLevelItem(1,cellname)
# cities = QTreeWidgetItem(treeWidget)
# titem = QtWidgets.QTreeWidgetItem
# titem.setText(0,'ttt')
# header.setText(0,"epithelial cell")
# header.setText(1,"macrophage")
# self.tree.addTopLevelItem(QTreeWidgetItem("foo"))
items = []
model = QtCore.QStringListModel()
model.setStringList(["aaa","bbb"])
# self.tree.insertTopLevelItems(None, model)
# slist = QtCore.QStringList()
# for i in range(10):
# items.append(QTreeWidgetItem(None, QtGui.QStringList(QString("item: %1").arg(i))))
# self.tree.insertTopLevelItems(None, items)
# self.log_widget.setHeaderItem(QtWidgets.QTreeWidgetItem(["date", "origin", "type", "message"]))
self.cell_def_horiz_layout.addWidget(self.tree)
self.scroll_cell_def_tree = QtWidgets.QScrollArea()
self.scroll_cell_def_tree.setWidget(self.tree)
# splitter.addWidget(self.tree)
splitter.addWidget(self.scroll_cell_def_tree)
#-------------------------------------------
# self.tab = QtWidgets.QWidget()
# self.tabs.resize(200,5)
#-------------------------------------------
label_width = 210
units_width = 70
self.scroll = QtWidgets.QScrollArea()
splitter.addWidget(self.scroll)
# self.cell_def_horiz_layout.addWidget(self.scroll)
self.params_cell_def = QtWidgets.QWidget()
self.vbox_cell_def = QtWidgets.QVBoxLayout()
# self.cell_def_horiz_layout.addWidget(self.)
#------------------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Name of cell type:")
label.setFixedWidth(110)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_type_name = QLineEdit()
# Want to validate name, e.g., starts with alpha, no special chars, etc.
# self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cell_type_name)
self.vbox_cell_def.addLayout(hbox)
#------------------
self.cycle_dropdown = QtWidgets.QComboBox()
self.cycle_dropdown.setFixedWidth(300)
# self.cycle_dropdown.currentIndex.connect(self.cycle_changed_cb)
self.cycle_dropdown.currentIndexChanged.connect(self.cycle_changed_cb)
# Rf. Section 17 of User Guide
self.cycle_dropdown.addItem("live cells")
self.cycle_dropdown.addItem("basic Ki67")
self.cycle_dropdown.addItem("advanced Ki67")
self.cycle_dropdown.addItem("flow cytometry")
self.cycle_dropdown.addItem("flow cytometry separated")
self.cycle_dropdown.addItem("cycling quiescent")
self.cycle_dropdown.addItem("live apoptotic")
self.cycle_dropdown.addItem("total cells")
self.vbox_cell_def.addWidget(self.cycle_dropdown)
#===== Phenotype
#============ Cycle ================================
label = QtWidgets.QLabel("Phenotype: cycle")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 0->0 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate0_0 = QtWidgets.QLineEdit()
# self.cycle_trate0_1.setValidator(QtGui.QIntValidator())
self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cycle_trate0_0)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 0->1 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate0_1 = QtWidgets.QLineEdit()
# self.cycle_trate0_1.setValidator(QtGui.QIntValidator())
self.cycle_trate0_1.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cycle_trate0_1)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 1->2 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate1_2 = QtWidgets.QLineEdit()
self.cycle_trate1_2.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate1_2)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 2->3 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate2_3 = QtWidgets.QLineEdit()
self.cycle_trate2_3.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate2_3)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Phase 3->0 transition rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cycle_trate3_0 = QtWidgets.QLineEdit()
self.cycle_trate3_0.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cycle_trate3_0)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#============ Death ================================
label = QtWidgets.QLabel("Phenotype: death")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#-----
label = QtWidgets.QLabel("Apoptosis")
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
self.vbox_cell_def.addWidget(label)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("death rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.death_apop_rate = QtWidgets.QLineEdit()
self.death_apop_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.death_apop_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("phase 0 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase0_duration = QtWidgets.QLineEdit()
self.phase0_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase0_duration)
units = QtWidgets.QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("phase 1 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase1_duration = QtWidgets.QLineEdit()
self.phase1_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase1_duration)
units = QtWidgets.QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <phase_durations units="min">
# <duration index="0" fixed_duration="true">516</duration>
# <unlysed_fluid_change_rate units="1/min">0.05</unlysed_fluid_change_rate>
# <lysed_fluid_change_rate units="1/min">0</lysed_fluid_change_rate>
# <cytoplasmic_biomass_change_rate units="1/min">1.66667e-02</cytoplasmic_biomass_change_rate>
# <nuclear_biomass_change_rate units="1/min">5.83333e-03</nuclear_biomass_change_rate>
# <calcification_rate units="1/min">0</calcification_rate>
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("unlysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_unlysed_rate = QtWidgets.QLineEdit()
self.apoptosis_unlysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_unlysed_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("lysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_lysed_rate = QtWidgets.QLineEdit()
self.apoptosis_lysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_lysed_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_cytoplasmic_biomass_change_rate = QtWidgets.QLineEdit()
self.apoptosis_cytoplasmic_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_cytoplasmic_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <nuclear_biomass_change_rate units="1/min">5.83333e-03</nuclear_biomass_change_rate>
# <calcification_rate units="1/min">0</calcification_rate>
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.apoptosis_nuclear_biomass_change_rate = QtWidgets.QLineEdit()
self.apoptosis_nuclear_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.apoptosis_nuclear_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("calcification_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcification_rate = QtWidgets.QLineEdit()
self.calcification_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcification_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("relative_rupture_volume")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_rupture_volume = QtWidgets.QLineEdit()
self.relative_rupture_volume.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.relative_rupture_volume)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#-----------------------------------------------------------
# self.vbox_cell_def.addWidget(QHLine())
label = QtWidgets.QLabel("Necrosis")
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
# label_width = 210
# units_width = 45
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("death rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.death_necrosis_rate = QtWidgets.QLineEdit()
self.death_necrosis_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.death_necrosis_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("phase 0 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase0_duration = QtWidgets.QLineEdit()
self.phase0_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase0_duration)
units = QtWidgets.QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("phase 1 duration")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.phase1_duration = QtWidgets.QLineEdit()
self.phase1_duration.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.phase1_duration)
units = QtWidgets.QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <phase_durations units="min">
# <duration index="0" fixed_duration="true">516</duration>
# <unlysed_fluid_change_rate units="1/min">0.05</unlysed_fluid_change_rate>
# <lysed_fluid_change_rate units="1/min">0</lysed_fluid_change_rate>
# <cytoplasmic_biomass_change_rate units="1/min">1.66667e-02</cytoplasmic_biomass_change_rate>
# <nuclear_biomass_change_rate units="1/min">5.83333e-03</nuclear_biomass_change_rate>
# <calcification_rate units="1/min">0</calcification_rate>
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("unlysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_unlysed_rate = QtWidgets.QLineEdit()
self.necrosis_unlysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_unlysed_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("lysed_fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_lysed_rate = QtWidgets.QLineEdit()
self.necrosis_lysed_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_lysed_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_cytoplasmic_biomass_change_rate = QtWidgets.QLineEdit()
self.necrosis_cytoplasmic_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_cytoplasmic_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <nuclear_biomass_change_rate units="1/min">5.83333e-03</nuclear_biomass_change_rate>
# <calcification_rate units="1/min">0</calcification_rate>
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.necrosis_nuclear_biomass_change_rate = QtWidgets.QLineEdit()
self.necrosis_nuclear_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.necrosis_nuclear_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("calcification_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcification_rate = QtWidgets.QLineEdit()
self.calcification_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcification_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("relative_rupture_volume")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_rupture_volume = QtWidgets.QLineEdit()
self.relative_rupture_volume.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.relative_rupture_volume)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#============ Volume ================================
label = QtWidgets.QLabel("Phenotype: volume")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# <total units="micron^3">2494</total>
# <fluid_fraction units="dimensionless">0.75</fluid_fraction>
# <nuclear units="micron^3">540</nuclear>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("total")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_total = QtWidgets.QLineEdit()
self.volume_total.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_total)
units = QtWidgets.QLabel("micron^3")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("fluid_fraction")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_fluid_fraction = QtWidgets.QLineEdit()
self.volume_fluid_fraction.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_fluid_fraction)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("nuclear")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_nuclear = QtWidgets.QLineEdit()
self.volume_nuclear.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_nuclear)
units = QtWidgets.QLabel("micron^3")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <fluid_change_rate units="1/min">0.05</fluid_change_rate>
# <cytoplasmic_biomass_change_rate units="1/min">0.0045</cytoplasmic_biomass_change_rate>
# <nuclear_biomass_change_rate units="1/min">0.0055</nuclear_biomass_change_rate>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("fluid_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.volume_fluid_change_rate = QtWidgets.QLineEdit()
self.volume_fluid_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.volume_fluid_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cytoplasmic_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cytoplasmic_biomass_change_rate = QtWidgets.QLineEdit()
self.cytoplasmic_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cytoplasmic_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("nuclear_biomass_change_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.nuclear_biomass_change_rate = QtWidgets.QLineEdit()
self.nuclear_biomass_change_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.nuclear_biomass_change_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <calcified_fraction units="dimensionless">0</calcified_fraction>
# <calcification_rate units="1/min">0</calcification_rate>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("calcified_fraction")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcified_fraction = QtWidgets.QLineEdit()
self.calcified_fraction.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcified_fraction)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("calcified_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.calcified_rate = QtWidgets.QLineEdit()
self.calcified_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.calcified_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <relative_rupture_volume units="dimensionless">2.0</relative_rupture_volume>
# self.vbox_cell_def.addWidget(QHLine())
#============ Mechanics ================================
label = QtWidgets.QLabel("Phenotype: mechanics")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
# <cell_cell_adhesion_strength units="micron/min">0.4</cell_cell_adhesion_strength>
# <cell_cell_repulsion_strength units="micron/min">10.0</cell_cell_repulsion_strength>
# <relative_maximum_adhesion_distance units="dimensionless">1.25</relative_maximum_adhesion_distance>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cell_cell_adhesion_strength")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_cell_adhesion_strength = QtWidgets.QLineEdit()
self.cell_cell_adhesion_strength.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cell_cell_adhesion_strength)
units = QtWidgets.QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("cell_cell_repulsion_strength")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_cell_repulsion_strength = QtWidgets.QLineEdit()
self.cell_cell_repulsion_strength.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.cell_cell_repulsion_strength)
units = QtWidgets.QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("relative_maximum_adhesion_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.relative_maximum_adhesion_distance = QtWidgets.QLineEdit()
self.relative_maximum_adhesion_distance.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.relative_maximum_adhesion_distance)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <options>
# <set_relative_equilibrium_distance enabled="false" units="dimensionless">1.8</set_relative_equilibrium_distance>
# <set_absolute_equilibrium_distance enabled="false" units="micron">15.12</set_absolute_equilibrium_distance>
# </options>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("set_relative_equilibrium_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.set_relative_equilibrium_distance = QtWidgets.QLineEdit()
self.set_relative_equilibrium_distance.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.set_relative_equilibrium_distance)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("set_absolute_equilibrium_distance")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.set_absolute_equilibrium_distance = QtWidgets.QLineEdit()
self.set_absolute_equilibrium_distance.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.set_absolute_equilibrium_distance)
units = QtWidgets.QLabel("micron")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#============ Motility ================================
label = QtWidgets.QLabel("Phenotype: motility")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
# <speed units="micron/min">1</speed>
# <persistence_time units="min">1</persistence_time>
# <migration_bias units="dimensionless">.75</migration_bias>
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("speed")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.speed = QtWidgets.QLineEdit()
self.speed.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.speed)
units = QtWidgets.QLabel("micron/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("persistence_time")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.persistence_time = QtWidgets.QLineEdit()
self.persistence_time.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.persistence_time)
units = QtWidgets.QLabel("min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("migration_bias")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.migration_bias = QtWidgets.QLineEdit()
self.migration_bias.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.migration_bias)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
# <options>
# <enabled>false</enabled>
# <use_2D>true</use_2D>
# <chemotaxis>
# <enabled>false</enabled>
# <substrate>virus</substrate>
# <direction>1</direction>
# </chemotaxis>
# </options>
hbox = QtWidgets.QHBoxLayout()
self.motility_enabled = QtWidgets.QCheckBox("enable")
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.motility_enabled)
self.motility_2D = QtWidgets.QCheckBox("2D")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.motility_2D)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Chemotaxis")
label.setFixedWidth(200)
label.setAlignment(QtCore.Qt.AlignCenter)
label.setStyleSheet('background-color: yellow')
hbox.addWidget(label)
self.chemotaxis_enabled = QtWidgets.QCheckBox("enabled")
# self.motility_2D.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(self.chemotaxis_enabled)
self.vbox_cell_def.addLayout(hbox)
self.motility_substrate_dropdown = QtWidgets.QComboBox()
self.motility_substrate_dropdown.setFixedWidth(300)
# self.cycle_dropdown.currentIndex.connect(self.cycle_changed_cb)
# self.motility_substrate_dropdown.currentIndexChanged.connect(self.motility_substrate_changed_cb)
self.motility_substrate_dropdown.addItem("oxygen")
self.vbox_cell_def.addWidget(self.motility_substrate_dropdown)
#============ Secretion ================================
label = QtWidgets.QLabel("Phenotype: secretion")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
# <substrate name="virus">
# <secretion_rate units="1/min">0</secretion_rate>
# <secretion_target units="substrate density">1</secretion_target>
# <uptake_rate units="1/min">10</uptake_rate>
# <net_export_rate units="total substrate/min">0</net_export_rate>
# </substrate>
# <substrate name="interferon">
# <secretion_rate units="1/min">0</secretion_rate>
# <secretion_target units="substrate density">1</secretion_target>
# <uptake_rate units="1/min">0</uptake_rate>
# <net_export_rate units="total substrate/min">0</net_export_rate>
# </substrate>
label = QtWidgets.QLabel("oxygen")
label.setStyleSheet('background-color: lightgreen')
label.setFixedWidth(150)
self.vbox_cell_def.addWidget(label)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("secretion_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_rate1 = QtWidgets.QLineEdit()
self.secretion_rate1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_rate1)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("target")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_target1 = QtWidgets.QLineEdit()
self.secretion_target1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_target1)
units = QtWidgets.QLabel("")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("uptake_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.uptake_rate1 = QtWidgets.QLineEdit()
self.uptake_rate1.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.uptake_rate1)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("net_export_rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.secretion_net_export_rate = QtWidgets.QLineEdit()
self.secretion_net_export_rate.setValidator(QtGui.QDoubleValidator())
hbox.addWidget(self.secretion_net_export_rate)
units = QtWidgets.QLabel("total/min")
units.setFixedWidth(units_width)
units.setAlignment(QtCore.Qt.AlignLeft)
hbox.addWidget(units)
self.vbox_cell_def.addLayout(hbox)
#============ Molecular ================================
label = QtWidgets.QLabel("Phenotype: molecular")
label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#===== Custom data
label = QtWidgets.QLabel("Custom data")
label.setStyleSheet("background-color: cyan")
self.vbox_cell_def.addWidget(label)
# self.vbox_cell_def.addWidget(QHLine())
#==================================================================
self.params_cell_def.setLayout(self.vbox_cell_def)
self.scroll.setVerticalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setHorizontalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setWidgetResizable(True)
self.scroll.setWidget(self.params_cell_def)
self.save_button = QtWidgets.QPushButton("Save")
# self.text = QtWidgets.QLabel("Hello World",alignment=QtCore.Qt.AlignCenter)
self.layout = QtWidgets.QVBoxLayout(self)
# self.layout.addWidget(self.tabs)
# self.layout.addWidget(QHLine())
# self.layout.addWidget(self.params)
# self.layout.addWidget(self.scroll)
self.layout.addWidget(splitter)
def __init__(self):
super().__init__()
# self.current_param = None
self.xml_root = None
self.count = 0
#-------------------------------------------
self.label_width = 150
self.units_width = 90
self.scroll_area = QScrollArea()
# splitter.addWidget(self.scroll)
# self.cell_def_horiz_layout.addWidget(self.scroll)
self.custom_data_params = QWidget()
self.main_layout = QVBoxLayout()
# self.main_layout.addStretch(0)
#------------------
controls_hbox = QHBoxLayout()
# self.new_button = QPushButton("New")
self.new_button = QPushButton("Append 5 more rows")
controls_hbox.addWidget(self.new_button)
self.new_button.clicked.connect(self.append_more_cb)
# self.copy_button = QPushButton("Copy")
# controls_hbox.addWidget(self.copy_button)
self.clear_button = QPushButton("Clear selected rows")
controls_hbox.addWidget(self.clear_button)
self.clear_button.clicked.connect(self.clear_rows_cb)
#------------------
# <random_seed type="int" units="dimensionless">0</random_seed>
# <cargo_signal_D type="double" units="micron/min^2">1e3</cargo_signal_D>
# Fixed names for columns:
hbox = QHBoxLayout()
# self.select = QCheckBox("")
col1 = QLabel("Name (required)")
col1.setAlignment(QtCore.Qt.AlignCenter)
hbox.addWidget(col1)
# col2 = QLabel("Type")
# col2.setAlignment(QtCore.Qt.AlignCenter)
# hbox.addWidget(col2)
col3 = QLabel("Default Value (floating point)")
col3.setAlignment(QtCore.Qt.AlignCenter)
hbox.addWidget(col3)
col4 = QLabel("Units")
col4.setFixedWidth(self.units_width)
col4.setAlignment(QtCore.Qt.AlignCenter)
hbox.addWidget(col4)
# label.setFixedWidth(180)
self.main_layout.addLayout(hbox)
#------------------
# Create lists for the various input boxes
self.select = []
self.name = []
# self.type = []
self.value = []
self.units = []
self.description = []
# self.type_dropdown = QComboBox()
# self.type_dropdown.setFixedWidth(300)
# # self.type_dropdown.currentIndexChanged.connect(self.cycle_changed_cb)
# self.type_dropdown.addItem("int")
# self.type_dropdown.addItem("double")
# self.type_dropdown.addItem("bool")
# self.type_dropdown.addItem("text")
for idx in range(25):
# self.main_layout.addLayout(NewUserParam(self))
hbox = QHBoxLayout()
w = QCheckBox("")
self.select.append(w)
hbox.addWidget(w)
w = QLineEdit()
self.name.append(w)
# self.name.setValidator(QtGui.QDoubleValidator())
# self.diffusion_coef.enter.connect(self.save_xml)
hbox.addWidget(w)
# if idx == 0:
# w.setText("random_seed")
# w = QComboBox()
# # xml2jupyter: {"double":"FloatText", "int":"IntText", "bool":"Checkbox", "string":"Text", "divider":""}
# w.addItem("double")
# w.addItem("int")
# w.addItem("bool")
# w.addItem("string")
# if idx == 0:
# w.setCurrentIndex(1)
# self.type.append(w)
# hbox.addWidget(w)
w = QLineEdit()
w.setText("0.0")
self.value.append(w)
w.setValidator(QtGui.QDoubleValidator())
# if idx == 0:
# w.setText("0")
hbox.addWidget(w)
w = QLineEdit()
w.setFixedWidth(self.units_width)
self.units.append(w)
hbox.addWidget(w)
# units = QLabel("micron^2/min")
# units.setFixedWidth(units_width)
# hbox.addWidget(units)
self.main_layout.addLayout(hbox)
#-----
hbox = QHBoxLayout()
w = QLabel("Desc:")
hbox.addWidget(w)
w = QLineEdit()
self.description.append(w)
hbox.addWidget(w)
w.setStyleSheet("background-color: lightgray")
# w.setStyleSheet("background-color: #e4e4e4")
self.main_layout.addLayout(hbox)
#-----
# self.vbox.addLayout(hbox)
self.count = self.count + 1
# print(self.count)
#==================================================================
self.custom_data_params.setLayout(self.main_layout)
self.scroll_area.setVerticalScrollBarPolicy(
QtCore.Qt.ScrollBarAlwaysOn)
self.scroll_area.setHorizontalScrollBarPolicy(
QtCore.Qt.ScrollBarAlwaysOn)
self.scroll_area.setWidgetResizable(True)
self.scroll_area.setWidget(self.custom_data_params)
self.layout = QVBoxLayout(self)
self.layout.addLayout(controls_hbox)
self.layout.addWidget(self.scroll_area)
def __init__(self):
super().__init__()
# global self.params_cell_def
# self.cell_defs = CellDefInstances()
self.cell_def_horiz_layout = QtWidgets.QHBoxLayout()
splitter = QtWidgets.QSplitter()
self.tree = QtWidgets.QTreeWidget()
self.tree.setStyleSheet("background-color: lightgray")
# self.tree.setColumnCount(1)
header = QTreeWidgetItem(["--- Substrate or Signal---"])
self.tree.setHeaderItem(header)
cellname = QTreeWidgetItem(["virus"])
self.tree.insertTopLevelItem(0, cellname)
cellname = QTreeWidgetItem(["interferon"])
self.tree.insertTopLevelItem(1, cellname)
self.cell_def_horiz_layout.addWidget(self.tree)
self.scroll_cell_def_tree = QtWidgets.QScrollArea()
self.scroll_cell_def_tree.setWidget(self.tree)
# splitter.addWidget(self.tree)
splitter.addWidget(self.scroll_cell_def_tree)
#-------------------------------------------
# self.tab = QtWidgets.QWidget()
# self.tabs.resize(200,5)
#-------------------------------------------
label_width = 150
units_width = 70
self.scroll = QtWidgets.QScrollArea()
splitter.addWidget(self.scroll)
# self.cell_def_horiz_layout.addWidget(self.scroll)
self.params_cell_def = QtWidgets.QWidget()
self.vbox = QtWidgets.QVBoxLayout()
self.vbox.addStretch(0)
# self.cell_def_horiz_layout.addWidget(self.)
#------------------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Name of substrate or signal:")
label.setFixedWidth(180)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.cell_type_name = QLineEdit()
# Want to validate name, e.g., starts with alpha, no special chars, etc.
# self.cycle_trate0_0.setValidator(QtGui.QDoubleValidator())
# self.cycle_trate0_1.enter.connect(self.save_xml)
hbox.addWidget(self.cell_type_name)
self.vbox.addLayout(hbox)
#------------------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("diffusion coefficient")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.diffusion_coef = QtWidgets.QLineEdit()
self.diffusion_coef.setValidator(QtGui.QDoubleValidator())
# self.diffusion_coef.enter.connect(self.save_xml)
hbox.addWidget(self.diffusion_coef)
units = QtWidgets.QLabel("micron^2/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("decay rate")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.decay_rate = QtWidgets.QLineEdit()
self.decay_rate.setValidator(QtGui.QDoubleValidator())
# self.decay_rate.enter.connect(self.save_xml)
hbox.addWidget(self.decay_rate)
units = QtWidgets.QLabel("1/min")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("initial condition")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.init_cond = QtWidgets.QLineEdit()
self.init_cond.setValidator(QtGui.QDoubleValidator())
# self.init_cond.enter.connect(self.save_xml)
hbox.addWidget(self.init_cond)
units = QtWidgets.QLabel("mmol")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.vbox.addLayout(hbox)
#----------
hbox = QtWidgets.QHBoxLayout()
label = QtWidgets.QLabel("Dirichlet BC")
label.setFixedWidth(label_width)
label.setAlignment(QtCore.Qt.AlignRight)
hbox.addWidget(label)
self.bdy_cond = QtWidgets.QLineEdit()
self.bdy_cond.setValidator(QtGui.QDoubleValidator())
# self.bdy_cond.enter.connect(self.save_xml)
hbox.addWidget(self.bdy_cond)
units = QtWidgets.QLabel("mmol")
units.setFixedWidth(units_width)
hbox.addWidget(units)
self.dirichlet_bc_enabled = QtWidgets.QCheckBox("on/off")
# self.motility_enabled.setAlignment(QtCore.Qt.AlignRight)
# label.setFixedWidth(label_width)
hbox.addWidget(self.dirichlet_bc_enabled)
self.vbox.addLayout(hbox)
#-------------
hbox = QtWidgets.QHBoxLayout()
self.gradients = QtWidgets.QCheckBox("calculate gradients")
hbox.addWidget(self.gradients)
self.vbox.addLayout(hbox)
hbox = QtWidgets.QHBoxLayout()
self.track_in_agents = QtWidgets.QCheckBox("track in agents")
hbox.addWidget(self.track_in_agents)
self.vbox.addLayout(hbox)
#--------------------------
# Dummy widget for filler??
label = QLabel("")
label.setFixedHeight(300)
# label.setStyleSheet("background-color: orange")
label.setAlignment(QtCore.Qt.AlignCenter)
self.vbox.addWidget(label)
#==================================================================
self.params_cell_def.setLayout(self.vbox)
self.scroll.setVerticalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setHorizontalScrollBarPolicy(QtCore.Qt.ScrollBarAlwaysOn)
self.scroll.setWidgetResizable(True)
self.scroll.setWidget(self.params_cell_def)
# self.save_button = QtWidgets.QPushButton("Save")
# self.text = QtWidgets.QLabel("Hello World",alignment=QtCore.Qt.AlignCenter)
self.layout = QtWidgets.QVBoxLayout(self)
# self.layout.addWidget(self.tabs)
# self.layout.addWidget(QHLine())
# self.layout.addWidget(self.params)
# self.layout.addWidget(self.scroll)
self.layout.addWidget(splitter)
