// B5FScell3Dpk.p

//	Format of file :
// x,y,z,dia are in microns, all other units are SI (Meter Kilogram Sec Amp)
// In polar mode 'r' is in microns, theta and phi in degrees 
// Control line options start with a '*'
// The format for each compartment parameter line is :
//name	parent	r	theta	phi	d	ch	dens ...
//in polar mode, and in cartesian mode :
//name	parent	x	y	z	d	ch	dens ...
// For channels, "dens" =  maximum conductance per unit area of compartment
// For spike elements, "dens" is the spike threshold
//		Coordinate mode
*relative
*cartesian
*asymmetric

//		Specifying constants
   *set_compt_param	RM	2.50  //0.33333 (2.50)
   *set_compt_param	RA	2.00  //0.3 (2.00)
   *set_compt_param	CM	0.01  //0.01 (0.01)
   *set_compt_param     EREST_ACT	-0.07   //
   *set_compt_param     ELEAK           -0.0666   // -0.0735


//SOMA *************************************************************   
// For the soma, use the leakage potential (-0.07 + 0.0106) for Em
//*set_compt_param     ELEAK	-0.0594
// Actually, after Cunningham et al. PNAS 2004;101:7152-7157, will maintain
// leakage potential at ELEAK   -0.07
soma  none  0   0  20 15.0    Ca_s10  -5.5173713E16   NaF10  900 \
                              KDR10  1000  KA10  1  CaH10  1  KCs10  1 
// KCs10  250  KA10 10
//*set_compt_param        ELEAK   -0.075
*set_compt_param	RM	2.50  //0.33333 (2.50)
*set_compt_param	RA	2.00  //0.3 (2.00)
*set_compt_param	CM	0.01  //0.01 (0.01)

//PROXIMAL DENDRITE COMPARTMENTS ***************************************

// proxdendN   Cunningham et al., PNAS  2004;101:7152-7157
proxdendN  soma  0  0  40 2.12  Ca_d10 -3.90380092E17    NaF10     600   \
                                KDR10       1000   \
                                KA10          10   \
                                CaH10          1         KCd10     250   
                              
// proxdendE   Cunningham et al., PNAS  2004;101:7152-7157
proxdendE  soma  40  0 0 2.12    Ca_d10 -3.90380092E17   NaF10     600   \
                                 KDR10       1000   \
                                 KA10          10   \
                                 CaH10          1        KCd10     250   

// proxdendS   Cunningham et al., PNAS  2004;101:7152-7157
proxdendS  soma  0  0  -40 2.12 Ca_d10 -3.90380092E17     NaF10     600   \
                                KDR10       1000   \
                                KA10          10   \
                                CaH10          1          KCd10     250   

// proxdendW   Cunningham et al., PNAS  2004;101:7152-7157
proxdendW  soma  -40 0 0 2.12    Ca_d10 -3.90380092E17    NaF10     600   \
                                 KDR10       1000   \
                                 KA10          10   \
                                 CaH10          1         KCd10     250   

*set_compt_param	RM	2.50  //0.33333 (2.50)
*set_compt_param	RA	2.00  //0.3 (2.00)
*set_compt_param	CM	0.01  //0.01 (0.01)
//*set_compt_param     ELEAK	-0.075


//North DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendNlonga   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlonga  proxdendN  -6.84  11.8 37.6 1.34  Ca_d10 -6.2070579E17     NaF10     600   \
                                                  KDR10       1000   \
                                                  KA10          10   \
                                                  CaH10          1         KCd10     250   

// distdendNlongb   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlongb  distdendNlonga  -6.84 11.8 37.6 0.84    Ca_d10 -9.8766113E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250   

// distdendNlongc   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlongc  distdendNlongb  -6.84 11.8 37.6 0.84    Ca_d10 -9.876647E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250  

// distdendNlongd   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlongd  distdendNlongc  -6.84 11.8 37.6 0.84    Ca_d10 -9.8765206E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250   

// distdendNlonge   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlonge  distdendNlongd  -6.84 11.8 37.6 0.84    Ca_d10 -9.8767418E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250   

// distdendNlongf   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlongf  distdendNlonge  -6.84 11.8 37.6 0.84    Ca_d10 -9.876737E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250   

// distdendNlongg   Cunningham et al., PNAS  2004;101:7152-7157
distdendNlongg  distdendNlongf  -6.84 11.8 37.6 0.84    Ca_d10 -9.8760354E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250   

// distdendNmida   Cunningham et al., PNAS  2004;101:7152-7157
distdendNmida  proxdendN  6.84  -11.8  37.6  1.34   Ca_d10 -6.2070579E17     NaF10     600   \
                                                    KDR10       1000   \
                                                    KA10          10   \
                                                    CaH10          1         KCd10     250   

// distdendNmidb   Cunningham et al., PNAS  2004;101:7152-7157
distdendNmidb  distdendNmida  6.84 -11.8  37.6  1.34     Ca_d10 -9.8765082E17     NaF10     100   \
                                                         KDR10       100    \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250   

// distdendNmidc   Cunningham et al., PNAS  2004;101:7152-7157
distdendNmidc  distdendNmidb  6.84 -11.8 37.6  1.34      Ca_d10 -6.2070847E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250   

// distdendNshorta   Cunningham et al., PNAS  2004;101:7152-7157
distdendNshorta  distdendNlonga   6.84  -11.8  37.6  0.84  Ca_d10 -9.8766113E17     NaF10     100   \
                                                           KDR10        100   \
                                                           KA10          10   \
                                                           CaH10          2         KCd10     250   

// distdendNshortb   Cunningham et al., PNAS  2004;101:7152-7157
distdendNshortb  distdendNshorta 6.84 -11.8 37.6  0.84   Ca_d10 -9.8768566E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250   

//East DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendElonga   Cunningham et al., PNAS  2004;101:7152-7157
distdendElonga  proxdendE  32.5  18.8 13.68 1.34  Ca_d10 -6.2070579E17     NaF10     600   \
                                                  KDR10       1000   \
                                                  KA10          10   \
                                                  CaH10          1         KCd10     250

// distdendElongb   Cunningham et al., PNAS  2004;101:7152-7157
distdendElongb  distdendElonga  32.5 18.8 13.68 0.84   Ca_d10 -9.8766113E17     NaF10     100   \
                                                       KDR10        100   \
                                                       KA10          10   \
                                                       CaH10          2         KCd10     250

// distdendElongc   Cunningham et al., PNAS  2004;101:7152-7157
distdendElongc  distdendElongb  32.5 18.8 13.68 0.84  Ca_d10 -9.876647E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendElongd   Cunningham et al., PNAS  2004;101:7152-7157
distdendElongd  distdendElongc  32.5 18.8 13.68 0.84   Ca_d10 -9.8765206E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendElonge   Cunningham et al., PNAS  2004;101:7152-7157
distdendElonge  distdendElongd  32.5 18.8 13.68 0.84   Ca_d10 -9.8767418E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendElongf   Cunningham et al., PNAS  2004;101:7152-7157
distdendElongf  distdendElonge  32.5 18.8 13.68 0.84   Ca_d10 -9.876737E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendElongg   Cunningham et al., PNAS  2004;101:7152-7157
distdendElongg  distdendElongf  32.5 18.8 13.68 0.84   Ca_d10 -9.8760354E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendEmida   Cunningham et al., PNAS  2004;101:7152-7157
distdendEmida  proxdendE  32.5 18.8 -13.68 1.34   Ca_d10 -6.2070579E17     NaF10     600   \
                                                    KDR10       1000   \
                                                    KA10          10   \
                                                    CaH10          1         KCd10     250

// distdendEmidb   Cunningham et al., PNAS  2004;101:7152-7157
distdendEmidb  distdendEmida 32.5 18.8 -13.68  0.84    Ca_d10 -9.8765082E17     NaF10     100   \
                                                         KDR10       100    \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendEmidc   Cunningham et al., PNAS  2004;101:7152-7157
distdendEmidc  distdendEmidb  32.5 18.8 -13.68  0.84   Ca_d10 -6.2070847E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendEshorta   Cunningham et al., PNAS  2004;101:7152-7157
distdendEshorta  distdendElonga   32.5  18.8  -13.68 0.84 Ca_d10 -9.8766113E17     NaF10     100   \
                                                           KDR10        100   \
                                                           KA10          10   \
                                                           CaH10          2         KCd10     250

// distdendEshortb   Cunningham et al., PNAS  2004;101:7152-7157
distdendEshortb  distdendEshorta 32.5 18.8 -13.68 0.84   Ca_d10 -9.8768566E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

//South DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendSlonga   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlonga  proxdendS  6.84  -11.8  -37.6 1.34  Ca_d10 -6.2070579E17     NaF10     600   \
                                                    KDR10       1000   \
                                                    KA10          10   \
                                                    CaH10          1         KCd10     250

// distdendSlongb   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlongb  distdendSlonga  6.84 -11.8 -37.6 0.84    Ca_d10 -9.8766113E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSlongc   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlongc  distdendSlongb  6.84 -11.8 -37.6 0.84    Ca_d10 -9.876647E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSlongd   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlongd  distdendSlongc  6.84 -11.8 -37.6 0.84    Ca_d10 -9.8765206E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSlonge   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlonge  distdendSlongd  6.84 -11.8 -37.6 0.84    Ca_d10 -9.8767418E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSlongf   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlongf  distdendSlonge  6.84 -11.8 -37.6 0.84    Ca_d10 -9.876737E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSlongg   Cunningham et al., PNAS  2004;101:7152-7157
distdendSlongg  distdendSlongf  6.84 -11.8 -37.6 0.84    Ca_d10 -9.8760354E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendSmida   Cunningham et al., PNAS  2004;101:7152-7157
distdendSmida  proxdendS  -6.84  11.8 -37.6 1.34   Ca_d10 -6.2070579E17     NaF10     600   \
                                                    KDR10       1000   \
                                                    KA10          10   \
                                                    CaH10          1         KCd10     250

// distdendSmidb   Cunningham et al., PNAS  2004;101:7152-7157
distdendSmidb  distdendSmida  -6.84 11.8  -37.6 0.84    Ca_d10 -9.8765082E17     NaF10     100   \
                                                         KDR10       100    \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendSmidc   Cunningham et al., PNAS  2004;101:7152-7157
distdendSmidc  distdendSmidb  -6.84 11.8 -37.6  0.84    Ca_d10 -6.2070847E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendSshorta   Cunningham et al., PNAS  2004;101:7152-7157
distdendSshorta  distdendSlonga   -6.84  11.8  -37.6 0.84  Ca_d10 -9.8766113E17     NaF10     100   \
                                                           KDR10        100   \
                                                           KA10          10   \
                                                           CaH10          2         KCd10     250

// distdendSshortb   Cunningham et al., PNAS  2004;101:7152-7157
distdendSshortb  distdendSshorta -6.84 11.8 -37.6 0.84   Ca_d10 -9.8768566E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

//West DISTAL DENDRITE COMPARTMENTS ***************************************
// distdendWlonga   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlonga  proxdendW -32.5  -18.8 13.68 1.34  Ca_d10 -6.2070579E17     NaF10     600   \
                                                   KDR10       1000   \
                                                   KA10          10   \
                                                   CaH10          1         KCd10     250

// distdendWlongb   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlongb  distdendWlonga -32.5  -18.8 13.68 0.84   Ca_d10 -9.8766113E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWlongc   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlongc  distdendWlongb -32.5  -18.8 13.68 0.84   Ca_d10 -9.876647E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWlongd   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlongd  distdendWlongc -32.5  -18.8 13.68 0.84   Ca_d10 -9.8765206E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWlonge   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlonge  distdendWlongd -32.5  -18.8 13.68 0.84   Ca_d10 -9.8767418E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWlongf   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlongf  distdendWlonge -32.5  -18.8 13.68 0.84   Ca_d10 -9.876737E17      NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWlongg   Cunningham et al., PNAS  2004;101:7152-7157
distdendWlongg  distdendWlongf -32.5  -18.8 13.68 0.84   Ca_d10 -9.8760354E17     NaF10     100   \
                                                        KDR10        100   \
                                                        KA10          10   \
                                                        CaH10          2         KCd10     250

// distdendWmida   Cunningham et al., PNAS  2004;101:7152-7157
distdendWmida  proxdendW  -32.5 -18.8 -13.68 1.34  Ca_d10 -6.2070579E17     NaF10     600   \
                                                    KDR10       1000   \
                                                    KA10          10   \
                                                    CaH10          1         KCd10     250

// distdendWmidb   Cunningham et al., PNAS  2004;101:7152-7157
distdendWmidb  distdendWmida -32.5 -18.8 -13.68  0.84   Ca_d10 -9.8765082E17     NaF10     100   \
                                                         KDR10       100    \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendWmidc   Cunningham et al., PNAS  2004;101:7152-7157
distdendWmidc  distdendWmidb  -32.5 -18.8 -13.68  0.84  Ca_d10 -6.2070847E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

// distdendWshorta   Cunningham et al., PNAS  2004;101:7152-7157
distdendWshorta  distdendWlonga   -32.5  -18.8 -13.68 0.84 Ca_d10 -9.8766113E17     NaF10     100   \
                                                           KDR10        100   \
                                                           KA10          10   \
                                                           CaH10          2         KCd10     250

// distdendWshortb   Cunningham et al., PNAS  2004;101:7152-7157
distdendWshortb  distdendWshorta -32.5 -18.8 -13.68 0.84  Ca_d10 -9.8768566E17     NaF10     100   \
                                                         KDR10        100   \
                                                         KA10          10   \
                                                         CaH10          2         KCd10     250

//		Specifying constants for axonal compartment

   *set_compt_param	RM	0.1   // (0.1)
   *set_compt_param	RA	1.0   // (1.0)
   *set_compt_param	CM	0.01  // (0.01) RC = 0.001
   *set_compt_param     ELEAK -0.0666 
// axona Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axona  soma  0  0 -25  1.4      NaF10       4000   \
                                KDR10       4000   \
                                KA10          10   

// axonb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonb  axona  0  0 -50  1.2     NaF10       4000   \
                                KDR10       4000   \
                                KA10          10   

// axonLa Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonLa  axonb  -8.7  0 -49.2  1.0    NaF10       4000   \
                                     KDR10       4000   \
                                     KA10          10

// axonLb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonLb  axonLa  -8.7  0 -49.2  1.0   NaF10       4000   \
                                     KDR10       4000   \
                                     KA10          10    

// axonRa Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonRa  axonb   8.7  0 -49.2  1.0    NaF10       4000   \
                                     KDR10       4000   \
                                     KA10          10

// axonRb Fig 1. Traub et al., J Neurophysiol 2003;89:909-921
// Differs from Traub et al., in that axon is vertical
axonRb  axonRa   8.7  0 -49.2  1.0   NaF10       4000   \
                                     KDR10       4000   \
                                     KA10          10