fix: use correct names for gates

NeuroML · Nov 22, 2023 · c3a857d · c3a857d
1 parent 4f457aa
commit c3a857d
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Showing 3 changed files with 8 additions and 8 deletions.
diff --git a/source/Userdocs/NML2_examples/HH_example_na_channel.nml b/source/Userdocs/NML2_examples/HH_example_na_channel.nml
@@ -2,12 +2,12 @@
     <notes>Na channel for HH neuron</notes>
     <ionChannelHH id="na_channel" species="na" conductance="10pS">
         <notes>Sodium channel for HH cell</notes>
-        <gateHHrates id="na_m" instances="3">
+        <gateHHrates id="m" instances="3">
             <notes>m gate for na channel</notes>
             <forwardRate type="HHExpLinearRate" rate="1per_ms" midpoint="-40mV" scale="10mV"/>
             <reverseRate type="HHExpRate" rate="4per_ms" midpoint="-65mV" scale="-18mV"/>
         </gateHHrates>
-        <gateHHrates id="na_h" instances="1">
+        <gateHHrates id="h" instances="1">
             <notes>h gate for na channel</notes>
             <forwardRate type="HHExpRate" rate="0.07per_ms" midpoint="-65mV" scale="-20mV"/>
             <reverseRate type="HHSigmoidRate" rate="1per_ms" midpoint="-35mV" scale="10mV"/>

diff --git a/source/Userdocs/NML2_examples/HH_single_compartment.ipynb b/source/Userdocs/NML2_examples/HH_single_compartment.ipynb
@@ -72,15 +72,15 @@
     "    returns: name of the created file\n",
     "    \"\"\"\n",
     "    na_channel = IonChannelHH(id=\"na_channel\", notes=\"Sodium channel for HH cell\", conductance=\"10pS\", species=\"na\")\n",
-    "    gate_m = GateHHRates(id=\"na_m\", instances=\"3\", notes=\"m gate for na channel\")\n",
+    "    gate_m = GateHHRates(id=\"m\", instances=\"3\", notes=\"m gate for na channel\")\n",
     "\n",
     "    m_forward_rate = HHRate(type=\"HHExpLinearRate\", rate=\"1per_ms\", midpoint=\"-40mV\", scale=\"10mV\")\n",
     "    m_reverse_rate = HHRate(type=\"HHExpRate\", rate=\"4per_ms\", midpoint=\"-65mV\", scale=\"-18mV\")\n",
     "    gate_m.forward_rate = m_forward_rate\n",
     "    gate_m.reverse_rate = m_reverse_rate\n",
     "    na_channel.gate_hh_rates.append(gate_m)\n",
     "\n",
-    "    gate_h = GateHHRates(id=\"na_h\", instances=\"1\", notes=\"h gate for na channel\")\n",
+    "    gate_h = GateHHRates(id=\"h\", instances=\"1\", notes=\"h gate for na channel\")\n",
     "    h_forward_rate = HHRate(type=\"HHExpRate\", rate=\"0.07per_ms\", midpoint=\"-65mV\", scale=\"-20mV\")\n",
     "    h_reverse_rate = HHRate(type=\"HHSigmoidRate\", rate=\"1per_ms\", midpoint=\"-35mV\", scale=\"10mV\")\n",
     "    gate_h.forward_rate = h_forward_rate\n",
@@ -111,7 +111,7 @@
     "    :returns: name of the K channel file\n",
     "    \"\"\"\n",
     "    k_channel = IonChannelHH(id=\"k_channel\", notes=\"Potassium channel for HH cell\", conductance=\"10pS\", species=\"k\")\n",
-    "    gate_n = GateHHRates(id=\"k_n\", instances=\"4\", notes=\"n gate for k channel\")\n",
+    "    gate_n = GateHHRates(id=\"n\", instances=\"4\", notes=\"n gate for k channel\")\n",
     "    n_forward_rate = HHRate(type=\"HHExpLinearRate\", rate=\"0.1per_ms\", midpoint=\"-55mV\", scale=\"10mV\")\n",
     "    n_reverse_rate = HHRate(type=\"HHExpRate\", rate=\"0.125per_ms\", midpoint=\"-65mV\", scale=\"-80mV\")\n",
     "    gate_n.forward_rate = n_forward_rate\n",

diff --git a/source/Userdocs/NML2_examples/hh-single-compartment.py b/source/Userdocs/NML2_examples/hh-single-compartment.py
@@ -121,7 +121,7 @@ def create_na_channel():
     )
     gate_m = component_factory(
         "GateHHRates",
-        id="na_m",
+        id="m",
         instances="3",
         notes="m gate for na channel",
         validate=False,
@@ -139,7 +139,7 @@ def create_na_channel():
 
     gate_h = component_factory(
         "GateHHRates",
-        id="na_h",
+        id="h",
         instances="1",
         notes="h gate for na channel",
         validate=False,
@@ -186,7 +186,7 @@ def create_k_channel():
     )
     gate_n = component_factory(
         "GateHHRates",
-        id="k_n",
+        id="n",
         instances="4",
         notes="n gate for k channel",
         validate=False,