// genesis

// Setting the axonal propagation velocity
float CABLE_VEL = 1	// scale factor = 1/(cable velocity) sec/meter

float destlim = {P5IBb_P5IBd_destlim}

/*
 * Usage :
 * volumeconnect source-path destination-path
 *		 [-relative]
 *		 [-sourcemask {box,ellipse} x1 y1 x2 y2]
 *		 [-sourcehole {box,ellipse} x1 y1 x2 y2]
 *		 [-destmask   {box,ellipse} x1 y1 x2 y2]
 *		 [-desthole   {box,ellipse} x1 y1 x2 y2]
 *		 [-probability p]
 */

echo Making connections from the P5IBb cells to the P5IBd cells.


//P5IBb - P5IBd AMPA

str s

//Load synapse location array

str locations = "apdend1 apdend2 apdend3 apdend4 apdend5 apdend6 apdend7 apdend8 apdend9 apdend10 apdend11 apdend12 apdend13 apobdistLa apobdistLb apobdistLc apobmidLa apobmidLb apobmidLc apobproxLa apobproxLb apobproxLc apobdistRa apobdistRb apobdistRc apobmidRa apobmidRb apobmidRc apobproxRa apobproxRb apobproxRc basalLsupera basalLsuperb basalLsuperc basalLmida basalLmidb basalLmidc basalRsupera basalRsuperb basalRsuperc basalRmida basalRmidb basalRmidc basaldeepa basaldeepb basaldeepc"

foreach s ({arglist {locations}})

    rvolumeconnect /P5IBbnet/P5IBb[]/soma/spk7  \
	      /P5IBdnet/P5IBd[]/{s}/Ex_ch9P5IBAMPA@all	    \
	      -relative			    \
	      -sourcemask box -1 -1  -1  1  1  1  \
	      -destmask   box -{destlim} -{destlim}  -1  {destlim}  {destlim}  1   \
          -probability 0.02174*{P5IBb_P5IBd_prob}

end

//P5IBb - P5IBd NMDA

str s

//Load synapse location array

str locations = "apdend1 apdend2 apdend3 apdend4 apdend5 apdend6 apdend7 apdend8 apdend9 apdend10 apdend11 apdend12 apdend13 apobdistLa apobdistLb apobdistLc apobmidLa apobmidLb apobmidLc apobproxLa apobproxLb apobproxLc apobdistRa apobdistRb apobdistRc apobmidRa apobmidRb apobmidRc apobproxRa apobproxRb apobproxRc basalLsupera basalLsuperb basalLsuperc basalLmida basalLmidb basalLmidc basalRsupera basalRsuperb basalRsuperc basalRmida basalRmidb basalRmidc basaldeepa basaldeepb basaldeepc"

foreach s ({arglist {locations}})

    rvolumeconnect /P5IBbnet/P5IBb[]/soma/spk7  \
	      /P5IBdnet/P5IBd[]/{s}/Ex_ch9P5IBNMDA@all	    \
	      -relative			    \
	      -sourcemask box -1 -1  -1  1  1  1  \
	      -destmask   box -{destlim} -{destlim}  -1  {destlim}  {destlim}  1   \
          -probability 0.02174*{P5IBb_P5IBd_prob}

end

echo Setting weights and delays for P5IBb->P5IBd connections.

// assigning delays using the volumedelay function

/* 
 * Usage :
 * volumedelay path 
 * [-fixed delay]
 * [-radial propagation_velocity] 
 * [-uniform range]   (not used here)
 * [-gaussian sd max] (not used here)
 * [-exp mid max]     (not used here)
 * [-absoluterandom]  (not used here)
 */

rvolumedelay /P5IBbnet/P5IBb[]/soma/spk7 -radial  {P5IBb_P5IBd_axdelayCV} -add -gaussian {P5IBb_P5IBd_axdelaystdev} {P5IBb_P5IBd_axdelaymaxdev}

//P5IBb - P5IBd AMPA

str s

//Load synapse location array

str locations = "apdend1 apdend2 apdend3 apdend4 apdend5 apdend6 apdend7 apdend8 apdend9 apdend10 apdend11 apdend12 apdend13 apobdistLa apobdistLb apobdistLc apobmidLa apobmidLb apobmidLc apobproxLa apobproxLb apobproxLc apobdistRa apobdistRb apobdistRc apobmidRa apobmidRb apobmidRc apobproxRa apobproxRb apobproxRc basalLsupera basalLsuperb basalLsuperc basalLmida basalLmidb basalLmidc basalRsupera basalRsuperb basalRsuperc basalRmida basalRmidb basalRmidc basaldeepa basaldeepb basaldeepc"

foreach s ({arglist {locations}})

    syndelay    /P5IBdnet/P5IBd[]/{s}/Ex_ch9P5IBAMPA {P5IBb_P5IBd_syndelay} -add -gaussian {P5IBb_P5IBd_syndelaystdev} {P5IBb_P5IBd_syndelaymaxdev}

end

//P5IBb - P5IBd NMDA

str s

//Load synapse location array

str locations = "apdend1 apdend2 apdend3 apdend4 apdend5 apdend6 apdend7 apdend8 apdend9 apdend10 apdend11 apdend12 apdend13 apobdistLa apobdistLb apobdistLc apobmidLa apobmidLb apobmidLc apobproxLa apobproxLb apobproxLc apobdistRa apobdistRb apobdistRc apobmidRa apobmidRb apobmidRc apobproxRa apobproxRb apobproxRc basalLsupera basalLsuperb basalLsuperc basalLmida basalLmidb basalLmidc basalRsupera basalRsuperb basalRsuperc basalRmida basalRmidb basalRmidc basaldeepa basaldeepb basaldeepc"

foreach s ({arglist {locations}})

    syndelay    /P5IBdnet/P5IBd[]/{s}/Ex_ch9P5IBNMDA {P5IBb_P5IBd_syndelay} -add -gaussian {P5IBb_P5IBd_syndelaystdev} {P5IBb_P5IBd_syndelaymaxdev}

end

// assigning weights using the volumeweight function

/* 
 * Usage :
 *  volumeweight sourcepath 
 *          [-fixed weight]
 *          [-decay decay_rate max_weight min_weight]
 *          [-uniform range] 
 *          [-gaussian sd max] 
 *          [-exponential mid max]
 *          [-absoluterandom]
 */

rvolumeweight /P5IBbnet/P5IBb[]/soma/spk7 -decay {P5IBdecayrate} {P5IBmaxwgt} {P5IBminwgt}