======================
USAGE
======================
To compile:
	user$>make

To run:
	user$>./threaded [config_file] [output_filename]
	  OR
	user$>./unthreaded [config_file] [output_filename]

The executable "threaded" and "unthreaded" differ exactly how their names imply; "threaded" is a threaded version of "unthreaded."

If config_file is not specified, template.txt is used. If output_filename is given, the state of the network at the end of all calculations is output to output_filename as a "defined" type network.

======================
CONFIG FILE
======================

@NETWORK_SIZE
[long number_of_neurons_in_network] [long number_of_compartments_per_neuron]

@RUNTIME
[double simulation_start_time] [double simulation_start_time]

@PARAMS
[int number_of_global_params]
[char* param_name] [double param_value]
...

@STIMULI
[long num_neuron] [long num_compartment] [int 0_for_electrode_current_or_1_for_presynaptic_input] [double from_time] [double to_time] [double electrode_current]
...

@TETANUS
[long num_neuron] [long num_compartment] [int direct?] [double start_time] [double stimulus_length] [double periodicity] [double stimulus_current]

@DEFAULT_STATE [long compartment_number]
[int number_of_params_for_each_compartment]
[char * param_name] [ double param_value]
... (multiple [@DEFAULT_STATE long compartment_number] for multiple compartments' default states)

@DEFAULT_LINK_STATE
[long num_variables]
[char* param_name] [double param_value]
...

@INIT_STATE
[long number_of_neurons_with_differing_initial_states]
[long neuron_id] [long compartment_number_of_neuron] [double* list_of_parameter_values_in_same_order_as_in_@DEFAULT_STATE]
...

@LINKS
[total | random | defined]
[
	if total:
	   [double initial weight] [default conductance time]
	if random:
	   [double probability two neurons are connected] [0|1 random weights?] [default weight] [0|1 random ctimes?] [default ctime]
	if defined:
	   [long from_neuron_number] [long from_neuron_compartment_number] [long to_neuron_number] [long to_neuon_compartment_number] [double weight] [conductance_time]
	   ...
]