Fixed Sphinx documentation (Tutorial.rst)

-updated line numbers in Tutorial.rst for updated python script

Author: irahulsonkar

Tutorial/Source/HodgkinHuxley.py

@@ -120,13 +120,13 @@ def I_inj(self, t):
             return 10*(t>100) - 10*(t>200) + 35*(t>300) - 35*(t>400)
 
         #""" running jupyterLab notebook """
-        #advanced input (if checkbox selected)
+        #injection current is defined
         elif self.I_inj_width>0:              
             return self.I_inj_max*(t>self.I_inj_trans) - self.I_inj_max*(t>self.I_inj_trans+self.I_inj_width)
 
-        #basic input
+        #default injection current
         else:
-            return 10*(t>100) - 10*(t>200) + 35*(t>300) - 35*(t>400)
+            return 10*(t>150) - 10*(t>300)
 
     @staticmethod
     def dALLdt(X, t, self):
@@ -164,6 +164,7 @@ def Main(self):
             plt.rcParams['figure.figsize'] = [12, 8]
             plt.rcParams['font.size'] = 15
             plt.rcParams['legend.fontsize'] = 12
+            plt.rcParams['legend.loc'] = "upper right"
 
         fig=plt.figure()
 
@@ -189,7 +190,6 @@ def Main(self):
         plt.legend()
 
         plt.subplot(4,1,4, sharex = ax1)
-       
         plt.plot(self.t, V, 'k')
         plt.ylabel('V (mV)')
         plt.xlabel('t (ms)')

Tutorial/_media/figure_1.png

@@ -48,7 +48,7 @@ This variable from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 8-9
+   :lines: 12-15
 
 Is used in this line in `hhcell.cell.nml <hhcell.html>`_:
 
@@ -65,11 +65,11 @@ These variables from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 11-12
+   :lines: 12-13,17-18
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 20-21
+   :lines: 26-27
 
 Are used in this line in `hhcell.cell.nml <hhcell.html>`_:
 
@@ -87,11 +87,11 @@ These variables from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 14-15
+   :lines: 12-13,20-21
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 23-24
+   :lines: 29-30
 
 Are used in this line in `hhcell.cell.nml <hhcell.html>`_:
 
@@ -108,11 +108,11 @@ These variables from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 17-18
+   :lines: 12-13,23-24
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 26-27
+   :lines: 32-33
 
 Are used in this line in `hhcell.cell.nml <hhcell.html>`_:
 
@@ -129,7 +129,7 @@ This variable from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 29-30
+   :lines: 12-13,35-36
 
 Is used in this line in `LEMS_HH_Simulation.xml <LEMS_HH_Simulation.html>`_:
 
@@ -266,7 +266,7 @@ This line from `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 124
+   :lines: 153
 
 Is used to define the initial values for the model in `hhcell.cell.nml <hhcell.html>`_:
 
@@ -294,7 +294,7 @@ This line in `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 135-138
+   :lines: 191-194
 
 Is used in these lines in `LEMS_HH_Simulation.xml <LEMS_HH_Simulation.html>`_:
 
@@ -306,7 +306,7 @@ This line in `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 140-145
+   :lines: 177-182
 
 Is used in these lines in `LEMS_HH_Simulation.xml <LEMS_HH_Simulation.html>`_:
 
@@ -318,7 +318,7 @@ This line in `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 147-152
+   :lines: 184-189
 
 Is used in these lines in `LEMS_HH_Simulation.xml <LEMS_HH_Simulation.html>`_:
 
@@ -330,7 +330,7 @@ This line in `HodgkinHuxley.py <Hodgkin%20Huxley.html>`_:
 
 .. literalinclude:: ../Source/HodgkinHuxley.py
    :language: python
-   :lines: 154-158
+   :lines: 170-175
 
 Is used in these lines in `LEMS_HH_Simulation.xml <LEMS_HH_Simulation.html>`_: