homedir = os.getcwd()
tool_title = widgets.Label(r'\(\textbf{pc4cancerimmune}\)')
if nanoHUB_flag or hublib_flag:
# define this, but don't use (yet)
remote_cb = widgets.Checkbox(
indent=False,
value=False,
description='Submit as Batch Job to Clusters/Grid')
top_row = widgets.HBox(children=[read_config, tool_title])
gui = widgets.VBox(children=[top_row, tabs, run_button.w])
else: # missing hublib (e.g. Windows desktop)
gui_height = '900px'
gui_layout = widgets.Layout(
width='auto',
height=gui_height,
overflow_y='scroll',
)
top_row = widgets.HBox(children=[tool_title])
gui = widgets.VBox(children=[top_row, tabs, run_button], layout=gui_layout)
fill_gui_params(read_config.options['DEFAULT'])
# pass in (relative) directory where output data is located
output_dir = "tmpdir"
svg.update(output_dir)
sub.update_dropdown_fields("data")
sub.update(output_dir)
write_config_file(new_config_file)
# subprocess.call(["biorobots", xml_file_out])
# subprocess.call(["myproj", new_config_file]) # spews to shell, but not ctl-C'able
# subprocess.call(["myproj", new_config_file], shell=True) # no
subprocess.Popen(["myproj", new_config_file])
run_button = widgets.Button(
description='Run',
button_style='success', # 'success', 'info', 'warning', 'danger' or ''
tooltip='Update '+ main_xml_filename +' and run a simulation',
)
run_button.on_click(run_button_cb)
titles = ['Basics', 'User Params', 'Cell Plots', 'Substrate Plots']
tabs = widgets.Tab(children=[basics_tab.tab, user_tab.tab, svg.tab, sub.tab],
_titles={i: t for i, t in enumerate(titles)},
layout=tab_layout)
#gui = widgets.VBox(children=[tabs, write_button])
gui = widgets.VBox(children=[tabs, run_button])
fill_gui_params(full_xml_filename)
# pass in (relative) directory where output data is located
#svg.update(read_config.value)
output_dir = "output" # for local desktop
if nanoHUB_flag:
output_dir = "tmpdir" # for nanoHUB?
svg.update(output_dir)
sub.update_dropdown_fields(output_dir)
sub.update(output_dir)
homedir = os.getcwd()
tool_title = widgets.Label(r'\(\textbf{pc4nanobio}\)')
if nanoHUB_flag or hublib_flag:
# define this, but don't use (yet)
remote_cb = widgets.Checkbox(
indent=False,
value=False,
description='Submit as Batch Job to Clusters/Grid')
top_row = widgets.HBox(children=[read_config, tool_title])
gui = widgets.VBox(children=[top_row, tabs, run_button.w])
fill_gui_params(read_config.options['DEFAULT'])
else:
top_row = widgets.HBox(children=[tool_title])
gui = widgets.VBox(children=[top_row, tabs, run_button])
fill_gui_params("data/PhysiCell_settings.xml")
# pass in (relative) directory where output data is located
output_dir = "tmpdir"
# svg.update(output_dir)
sub.update_dropdown_fields(
"data") # WARNING: generates multiple "<Figure size...>" stdout!
# animate_tab.update_dropdown_fields("data")
# print('config_tab.svg_interval.value= ',config_tab.svg_interval.value )
# print('config_tab.mcds_interval.value= ',config_tab.mcds_interval.value )
#sub.update_params(config_tab)
value=False,
description='Submit as Batch Job to Clusters/Grid')
#gui = widgets.VBox(children=[read_config, tabs, write_config_row, remote_cb, run_button.w])
# Let's not allow for batch runs for this tool.
# gui = widgets.VBox(children=[read_config, tabs, remote_cb, run_button.w])
gui = widgets.VBox(children=[read_config, tabs, run_button.w])
#gui = widgets.VBox(children=[tabs, run_button.w])
else:
#gui = widgets.VBox(children=[read_config, tabs, write_config_row, run_button.w])
#gui = widgets.VBox(children=[read_config, tabs, run_button.w])
if (hublib_flag):
gui = widgets.VBox(children=[tabs, run_button.w])
else:
gui = widgets.VBox(children=[tabs, run_button])
fill_gui_params(read_config.options['DEFAULT'])
# pass in (relative) directory where output data is located
#svg.update(read_config.value)
#output_dir = "output"
output_dir = "tmpdir"
output_dir = os.getcwd()
output_dir = os.path.join(os.getcwd(), "tmpdir")
svg.update(output_dir)
#sub.update_dropdown_fields(output_dir)
# sub.update_dropdown_fields("data")
data_dir = os.path.join(os.getcwd(), "data")
sub.update_dropdown_fields(data_dir)
sub.update(output_dir)
