Click here to Download # # DS_Pre_Fac.1.a # mod_type pop sscale 0.04 # degr/pix (this is different from stim) tscale 0.002 # sec/frame xn 32 # x size yn 32 # y size tn 1024 # t size <area> name v1 # Area name x0 10.0 # Origin wrt stim grid y0 10.0 # xn 12 # width yn 12 # height umx 64.0 (um) # microns per Area grid unit (for now, Area = Stim grid) </area> <map> name orimap # ID for reference type ori # Type of map ncol_x 3 # Number of ori columns in X-direction phase_x 90.0 (deg) # Phase of pinwheel centers along x-axis, 0-360 phase_y 90.0 (deg) # Phase of pinwheel centers along y-axis, 0-360 phase_p 135.0 (deg) # Phase of color around pinwheel center, 0-360 </map> model_noise_seed 231965 # Controls trial seed #--------------------------------------.--------------------------------------# # # # IN # # # #-----------------------------------------------------------------------------# <pop> name in area v1 <icon> shape circle r 0.4 g 0.4 b 0.8 </icon> map_ori orimap # Set orientations using the named map <geometry> zn 4 # Depth of layer </geometry> <mech> name ex type psg_alpha # Mechanism type tau 0.003 # (s) Tau for excit PSC amp 1.0 # (nS) Amplitude for excit PSC syntype 1 # 1-excit, 2-inhib <> <mech> name in type psg_alpha # Mechanism type tau 0.004 # (s) Tau for inhib PSC amp 4.0 # (nS) Amplitude for inhib PSC syntype 2 # 1-excit, 2-inhib <> <mech> name lgn_ex type psg_doe # Mechanism type ### EPSG from LGN to cortex, Diff Of Exp tau_r 1.0 # (ms) rise time constant tau_f 4.0 # (ms) fall time constant amp 1.0 # (nS) amplitude sdf 1.0 # () synaptic depression, ampl after spike sdtau 99.0 # (ms) synaptic depression, recovery time constant <> <input> # LGN input type lgn_on_off receptor lgn_ex pop_origin lgn # Population of origin of LGN inputs [lgn] sf 2.0 # (cyc/deg) Spatial frequency sd_orth 0.125 # (deg) Gaussian SD for Gabor RF orthog to ori sd_par 0.215 # (deg) Gaussian SD for Gabor RF parallel to ori phseed 23092 # for chosing phase (random in 1 of 4 phases) ph0 0.0 # (degr) initial phase seed 1237 # for chosing DOG sampling phtype 1 # 0-const, 1-regular phase steps, 4-regular quads phstep 90.0 # (degr) phase step nsamp 30 # () number of samples to select as inputs maxrep 1 # number of times any one connection can be sampled eps 0.05 # no connections where profile < this frac of max balance 0 # Balance the # of ON and OFF connections </input> <input> type bg # Background input spikes ex_rate 100.0 # spikes/s ex_amp 2.0 # relative to _psc_amp_ex in_rate 50.0 # spikes/s in_amp 2.0 # relative to _psc_amp_in </input> <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -57.8 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 80.0 # (ms) Adaptation fall time gbar_ad 0.0 # (nS) Adaptation conductance v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -81.6 # (mV) Leakage reversal g_leak_x 18.0 # (nS) Leakage conductance c_x 214.0 # (pF) Membrane capacitance trefr_x 1.5 # (ms) Refractory period gx_scale 2.0 # () Scale excit g, before adding bias gx_bias 0.0 # (nS) Constant added to g, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 4.0 (nS) # standard deviation tsd 2.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # IN_D # # # #-----------------------------------------------------------------------------# <pop> name in_d area v1 <icon> shape circle r 0.4 g 0.4 b 0.8 </icon> map_ori orimap # Set orientations using the named map <geometry> zn 4 # Depth of layer </geometry> <mech> name ex type psg_alpha # Mechanism type tau 0.003 # (s) Tau for excit PSC amp 1.0 # (nS) Amplitude for excit PSC syntype 1 # 1-excit, 2-inhib <> <mech> name in type psg_alpha # Mechanism type tau 0.004 # (s) Tau for inhib PSC amp 4.0 # (nS) Amplitude for inhib PSC syntype 2 # 1-excit, 2-inhib <> <mech> name lgn_ex type psg_doe # Mechanism type ### EPSG from LGN to cortex, Diff Of Exp tau_r 1.0 # (ms) rise time constant tau_f 4.0 # (ms) fall time constant amp 1.0 # (nS) amplitude sdf 1.0 # () synaptic depression, ampl after spike sdtau 99.0 # (ms) synaptic depression, recovery time constant <> <input> # LGN input type lgn_on_off receptor lgn_ex pop_origin lgn_d # Population of origin of LGN inputs [lgn] sf 2.0 # (cyc/deg) Spatial frequency sd_orth 0.125 # (deg) Gaussian SD for Gabor RF orthog to ori sd_par 0.215 # (deg) Gaussian SD for Gabor RF parallel to ori phseed 23092 # for chosing phase (random in 1 of 4 phases) ph0 0.0 # (degr) initial phase seed 1237 # for chosing DOG sampling phtype 1 # 0-const, 1-regular phase steps, 4-regular quads phstep 90.0 # (degr) phase step nsamp 30 # () number of samples to select as inputs maxrep 1 # number of times any one connection can be sampled eps 0.05 # no connections where profile < this frac of max balance 0 # Balance the # of ON and OFF connections </input> <input> type bg # Background input spikes ex_rate 100.0 # spikes/s ex_amp 2.0 # relative to _psc_amp_ex in_rate 50.0 # spikes/s in_amp 2.0 # relative to _psc_amp_in </input> <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -57.8 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 80.0 # (ms) Adaptation fall time gbar_ad 0.0 # (nS) Adaptation conductance v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -81.6 # (mV) Leakage reversal g_leak_x 18.0 # (nS) Leakage conductance c_x 214.0 # (pF) Membrane capacitance trefr_x 1.5 # (ms) Refractory period gx_scale 2.0 # () Scale excit g, before adding bias gx_bias 0.0 # (nS) Constant added to g, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 4.0 (nS) # standard deviation tsd 2.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # EX # # # #-----------------------------------------------------------------------------# <pop> name ex area v1 <icon> shape stellate r 0.0 g 0.8 b 0.2 npoint 5 </icon> map_ori orimap # Set orientations using the named map <geometry> zn 4 </geometry> <mech> # Incoming excitatory spikes name ex type psg_alpha # Mechanism type tau 0.003 # (s) Tau for excit PSC amp 1.0 # (nS) Amplitude for excit PSC syntype 1 # 1-excit, 2-inhib <> <mech> # Incoming inhibitory spikes name in type psg_alpha # Mechanism type tau 0.004 # (s) Tau for inhib PSC amp 4.0 # (nS) Amplitude for inhib PSC syntype 2 # 1-excit, 2-inhib <> <mech> name lgn_ex type psg_doe # Mechanism type ### EPSG from LGN to cortex, Diff Of Exp tau_r 1.0 # (ms) rise time constant tau_f 4.0 # (ms) fall time constant amp 1.0 # (nS) amplitude sdf 1.0 # () synaptic depression, ampl after spike sdtau 99.0 # (ms) synaptic depression, recovery time constant <> <input> type bg # Background input spikes ex_rate 0.0 # spikes/s ex_amp 1.0 # relative to _psc_amp_ex in_rate 200.0 # spikes/s in_amp 6.0 # relative to _psc_amp_in </input> <input> # Ex layer input connections (from LGN) name lgn type lgn_on_off receptor lgn_ex pop_origin lgn sf 2.00 # (cyc/deg) Spatial frequency sd_orth 0.125 # (deg) Gaussian SD for Gabor RF, orthog to ori sd_par 0.215 # (deg) Gaussian SD for Gabor RF, parallel to ori phseed 485401 # for chosing phase (random in 1 of 4 phases) seed 1777 # for chosing DOG sampling nsamp 30 # () number of samples to select as inputs maxrep 1 # number of times any one connection can be sampled eps 0.03 # no connections where profile < this frac of max phtype 1 # 0-const, 1-regular phase steps, 4-regular quads ph0 0.0 # (degr) initial phase phstep 90.0 # (degr) phase step balance 0 # Balance the # of ON and OFF connections </input> <input> ### i2e inputs type regular # pop_origin in # Where it comes from receptor in # Where it lands <distrib> type corr_lgn # Correlation corr_sign -1 # 1-correlated, -1-anticorrelated algorithm 1 # run new picking algorithm, 0 calls old minw 0.5 # minimum weight cdist 500.0 (um) # Cutoff distance (probably need to mult x 2 amp) normw 10.0 # Based on cell center </distrib> </input> <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -56.5 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 83.3 # (ms) Adaptation fall time gbar_ad 0.0 # (nS) Adaptation conductance v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -73.6 # (mV) Leakage reversal g_leak_x 25.0 # (nS) Leakage conductance c_x 500.0 # (pF) Membrane capacitance trefr_x 2.5 # (ms) Refractory period gx_scale 5.0 # () Scale excit g, before adding bias gx_bias 0.0 # (nS) Constant added to g, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 2.0 (nS) # standard deviation tsd 1.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # EX_D # # # #-----------------------------------------------------------------------------# <pop> name ex_d area v1 <icon> shape stellate r 0.0 g 0.8 b 0.2 npoint 5 </icon> map_ori orimap # Set orientations using the named map <geometry> zn 4 </geometry> <mech> # Incoming excitatory spikes name ex type psg_alpha # Mechanism type tau 0.003 # (s) Tau for excit PSC amp 1.0 # (nS) Amplitude for excit PSC syntype 1 # 1-excit, 2-inhib <> <mech> # Incoming inhibitory spikes name in type psg_alpha # Mechanism type tau 0.004 # (s) Tau for inhib PSC amp 4.0 # (nS) Amplitude for inhib PSC syntype 2 # 1-excit, 2-inhib <> <mech> name lgn_ex type psg_doe # Mechanism type ### EPSG from LGN to cortex, Diff Of Exp tau_r 1.0 # (ms) rise time constant tau_f 4.0 # (ms) fall time constant amp 1.0 # (nS) amplitude sdf 1.0 # () synaptic depression, ampl after spike sdtau 99.0 # (ms) synaptic depression, recovery time constant <> <input> type bg # Background input spikes ex_rate 0.0 # spikes/s ex_amp 1.0 # relative to _psc_amp_ex in_rate 200.0 # spikes/s in_amp 6.0 # relative to _psc_amp_in </input> <input> # Ex layer input connections (from LGN) name lgn_d type lgn_on_off receptor lgn_ex pop_origin lgn_d sf 2.00 # (cyc/deg) Spatial frequency sd_orth 0.125 # (deg) Gaussian SD for Gabor RF, orthog to ori sd_par 0.215 # (deg) Gaussian SD for Gabor RF, parallel to ori phseed 485401 # for chosing phase (random in 1 of 4 phases) seed 1777 # for chosing DOG sampling nsamp 30 # () number of samples to select as inputs maxrep 1 # number of times any one connection can be sampled eps 0.03 # no connections where profile < this frac of max phtype 1 # 0-const, 1-regular phase steps, 4-regular quads ph0 90.0 # (degr) initial phase phstep 90.0 # (degr) phase step balance 0 # Balance the # of ON and OFF connections </input> <input> ### i2e inputs type regular # pop_origin in_d # Where it comes from receptor in # Where it lands <distrib> type corr_lgn # Correlation corr_sign -1 # 1-correlated, -1-anticorrelated algorithm 1 # run new picking algorithm, 0 calls old minw 0.5 # minimum weight cdist 500.0 (um) # Cutoff distance (probably need to mult x 2 amp) normw 10.0 # Based on cell center </distrib> </input> <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -56.5 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 83.3 # (ms) Adaptation fall time gbar_ad 0.0 # (nS) Adaptation conductance v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -73.6 # (mV) Leakage reversal g_leak_x 25.0 # (nS) Leakage conductance c_x 500.0 # (pF) Membrane capacitance trefr_x 2.5 # (ms) Refractory period gx_scale 5.0 # () Scale excit g, before adding bias gx_bias 0.0 # (nS) Constant added to g, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 2.0 (nS) # standard deviation tsd 1.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # DS # # # #-----------------------------------------------------------------------------# <pop> name ds area v1 <icon> shape triangle r 0.8 g 0.8 b 0.2 </icon> map_ori orimap # Set orientations using the named map map_dir_flag ori # for SI02 <geometry> xn 2 # Layer dimensions yn 2 x0 5 y0 5 </geometry> <mech> # Incoming excitatory spikes name ex type psg_alpha # Mechanism type tau 0.003 # (s) Tau for excit PSC amp 1.0 # (nS) Amplitude for excit PSC syntype 1 # 1-excit, 2-inhib <> <mech> # Incoming inhibitory spikes name in type psg_alpha # Mechanism type tau 0.004 # (s) Tau for inhib PSC amp 4.0 # (nS) Amplitude for inhib PSC syntype 2 # 1-excit, 2-inhib <> # # Pairing rule and non-linearity # <mech> name pair1 type si_nonlin # Synaptic interaction nonlin mult # 'mask', 'symmask', 'mult' mask_amp 1.75 # Mask amplitude dt 0.003 # (s) Peak interaction time or SD masktype 5 # 1 - sinusoid, down-up-down # 2 - maxwell function # 3 - sine positive lobe only # 4 - half-Gaussian (dt is SD) # 5 - alpha function (dt is 'alpha') <> # # Paired input # <input> name paired type regular # Input type pop_origin ex # Where it comes from receptor ex # Where it lands <input_pair> syn_int pair1 # Synaptic interaction <pair_distrib> type rf_dist_phase # RF distance is pairing criterion direction 0.0 (deg) # Offset direction distance 0.0 (deg) # Offset distance jitter_para 0.0 (deg) # Jitter parallel to offset vector jitter_orth 0.0 (deg) # Jitter orthogonal to offset vector jitter_seed 1121 # Randomization seed ph_shift 90.0 ph_dev 5.0 </pair_distrib> pop_origin_2 ex_d # Population of origin of LGN inputs [lgn] pop_origin_2_z all # z-layer (0,1,..."same", "all", ... </input_pair> <distrib> type ori_dist cdist 40.0 # (um) crit connection distance (SD) cori 10.0 # (degr) crit orientation difference (SD) ori_mean_flag 0 # 0-self, 1-offset, 2-fixed absolute [0] cori_offset 0 # Only used if 'ori_mean_flag' is 1 minw 0.05 # () suppress connections with lower weight normw 50.0 # () normalize weights to this many unitary seed 32510 # Randomization seed for probabilistic sampling prob 0.2 </distrib> </input> <input> name dsbg type bg # Background input spikes ex_rate 150.0 # spikes/s ex_amp 5.0 # relative to _psc_amp_ex in_rate 200.0 # spikes/s in_amp 2.0 # relative to _psc_amp_in </input> <spike_gen ID=ds_ifc> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -56.5 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 83.3 # (ms) Adaptation fall time gbar_ad 0.0 # (nS) Adaptation conductance v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -73.6 # (mV) Leakage reversal g_leak_x 25.0 # (nS) Leakage conductance c_x 500.0 # (pF) Membrane capacitance trefr_x 2.5 # (ms) Refractory period <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 2.0 (nS) # standard deviation tsd 1.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # LGN # # # # DoG.0.a.moo # # # #-----------------------------------------------------------------------------# <pop> name lgn type lgn # Layer type area lgn <icon> shape cs r 1.0 g 1.0 b 1.0 r1 0.5 g1 0.5 b1 0.5 </icon> <geometry> zn 2 # Depth of layer </geometry> binocular 0 # 0-monocular, 1-binocular mesh_flag 0 # 0-default, 1-mesh sig1 0.05 # SD Center (deg) sig2 0.25 # SD Surr (deg) amp1 4.00 # Amp Center amp2 0.10 # Amp Surr tsig 25.00 # SD Gaussian to multiply temporal filter (ms) tab_k 200.00 # ABTemporal filter 'k' tab_n 3.00 # ABTemporal filter 'n' cs_delay_s 0.008 # Delay of surround w.r.t. center (s) tdelay 0.010 # Time delay, to simulate latency (s) write_dog_temporal NULL # Set a name to do the dump [NULL] ifc_dump_center 0 # IFC dump for middle unit <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -56.5 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 80.0 # (ms) Adaptation fall time (fast avoids biphasic onset) gbar_ad 0.0 # (nS) Adaptation conductance (zero to avoid transient) v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -73.6 # (mV) Leakage reversal g_leak_x 75.0 # (nS) Leakage conductance c_x 200.0 # (pF) Membrane capacitance trefr_x 0.5 # (ms) Refractory period trefr_x_sd 2.0 # (ms) Add rectified Gaussian noise to refr period gx_scale 260.0 # () Scale exc conductance, before adding bias gx_bias 0.0 # (nS) Constant added to cond, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 2.0 (nS) # standard deviation tsd 1.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise dump 0 # </spike_gen> </pop> #--------------------------------------.--------------------------------------# # # # LGN_D # # # # DoG.0.a.moo (except tdelay is 30 ms) # # # #-----------------------------------------------------------------------------# <pop> name lgn_d type lgn # Layer type area lgn <icon> shape cs r 1.0 g 1.0 b 1.0 r1 0.5 g1 0.5 b1 0.5 </icon> <geometry> zn 2 # Depth of layer </geometry> binocular 0 # 0-monocular, 1-binocular mesh_flag 0 # 0-default, 1-mesh sig1 0.05 # SD Center (deg) sig2 0.25 # SD Surr (deg) amp1 4.00 # Amp Center amp2 0.10 # Amp Surr tsig 25.00 # SD Gaussian to multiply temporal filter (ms) tab_k 200.00 # ABTemporal filter 'k' tab_n 3.00 # ABTemporal filter 'n' cs_delay_s 0.008 # Delay of surround w.r.t. center (s) tdelay 0.030 # Delay is 20 ms longer than that for 'lgn' write_dog_temporal NULL # Set a name to do the dump [NULL] ifc_dump_center 0 # IFC dump for middle unit <spike_gen> type ifc # Conductance driven integrate and fire v_spike 10.0 # (mV) Spike height v_th_x -52.5 # (mV) Spike threshold v_reset_x -56.5 # (mV) Spike reset voltage tau_r_ad 1.00 # (ms) Adaptation rise time tau_f_ad 80.0 # (ms) Adaptation fall time (fast avoids biphasic onset) gbar_ad 0.0 # (nS) Adaptation conductance (zero to avoid transient) v_ex 0.0 # (mV) Excitatory reversal v_in -70.0 # (mV) Inhibitory reversal v_ad -90.0 # (mV) Adaptation reversal v_leak_x -73.6 # (mV) Leakage reversal g_leak_x 75.0 # (nS) Leakage conductance c_x 200.0 # (pF) Membrane capacitance trefr_x 0.5 # (ms) Refractory period trefr_x_sd 2.0 # (ms) Add rectified Gaussian noise to refr period gx_scale 260.0 # () Scale exc conductance, before adding bias gx_bias 0.0 # (nS) Constant added to cond, after any scaling <gx_noise> type gfg # gfg = Gaussian filtered Gaussian noise mean 0.0 (nS) # mean sd 2.0 (nS) # standard deviation tsd 1.0 (ms) # temporal SD <> grect 1 # half-wave rectify gx, gi after adding noise dump 0 # </spike_gen> </pop>