//genesis


/***************************		MS Model, Version 9.1	*********************
**************************** 	      proto.g 	*********************
	Avrama Blackwell 	kblackw1@gmu.edu
	Wonryull Koh		wkoh1@gmu.edu
	Rebekah Evans 		rcolema2@gmu.edu
	Sriram 				dsriraman@gmail.com	
******************************************************************************

*****************************************************************************
*******************************************************************************
	proto.g is called by MScell.g
	it contains one primary routine:  
		make_prototypes
 	and two local routines 
		make_cylind_compartment
		make_spines - this one needs much work
	these are used by the primary and are not intended for external calls
	The primary function, make_prototypes is called exactly once by MSsim.g

******************************************************************************/

include MScell/include_channels.g		// required for calls in make_protypes

//************************ Begin Local Subroutines ****************************

	//********************* Begin function make_cylind_compartment *************
	function make_cylind_compartment
		if (!{exists compartment})
			echo "COMPARTMENT DID NOT EXIST PRIOR TO CALL TO:"
			echo 			"make_cylind_compartment"
			create	compartment compartment
		end

   	addfield compartment position   // add a new field "postion" to store distance to soma
	setfield compartment 		\ 
     		Em         {ELEAK} 	\
      	    initVm     {EREST_ACT} 	\
            inject		0.0 	\
      	    position    0.0
	end
	//************************ End function make_cylind_compartment ************

	//**************************************************************************

//************************ End Local Subroutines ******************************
//*****************************************************************************

//************** Begin function make_prototypes (primary routine) *************
function make_prototypes

  	create neutral /library
  	disable /library
	pushe /library

        make_cylind_compartment

	//********************* create non-synaptic channels in library ************************
       //voltage dependent Na and K channels
	//make functions are in their resepective channel .g files
 	make_NaF_channel	
	make_NaFd_channel
	make_KAf_channel		
	make_KAs_channel	
	make_KIR_channel	
	make_Krp_channel  

       //voltage dependent Ca channels
 	create_CaL12 
	create_CaL13	
	create_CaN
	create_CaR
 	create_CaT

       //Ca dependent K channels
	make_BK_channel
	make_SK_channel
	//********************* End channels in library ************************

end
//************************ End function make_prototypes ***********************