Merge pull request #68 from NeuroML/experimental

Better plotting in sweep

Author: pgleeson

docs/NeuroMLlite_specification.json

@@ -1,5 +1,5 @@
 {
-    "version": "NeuroMLlite v0.5.8",
+    "version": "NeuroMLlite v0.5.9",
     "specification": {
         "Network": {
             "definition": "A Network containing multiple Population's, connected by Projection's and receiving Input's",

docs/NeuroMLlite_specification.yaml

@@ -1,4 +1,4 @@
-version: NeuroMLlite v0.5.8
+version: NeuroMLlite v0.5.9
 specification:
     Network:
         definition: A Network containing multiple Population's, connected by Projection's

docs/README.md

@@ -1,4 +1,4 @@
-# Specification of NeuroMLlite v0.5.8
+# Specification of NeuroMLlite v0.5.9
 **Note: the NeuroMLlite specification is still in development! Subject to change...**
 
 ## Network

examples/LEMS_SimExample3.xml

@@ -2,7 +2,7 @@
 
     <!-- 
 
-        This LEMS file has been automatically generated using PyNeuroML v1.1.14 (libNeuroML v0.5.8)
+        This LEMS file has been automatically generated using PyNeuroML v1.2.3 (libNeuroML v0.5.8)
 
      -->
 

examples/LEMS_SimExample4.xml

@@ -2,7 +2,7 @@
 
     <!-- 
 
-        This LEMS file has been automatically generated using PyNeuroML v1.1.14 (libNeuroML v0.5.8)
+        This LEMS file has been automatically generated using PyNeuroML v1.2.3 (libNeuroML v0.5.8)
 
      -->
 

neuromllite/sweep/ParameterSweep.py

@@ -98,7 +98,7 @@ def __init__(
                 "Traces generated from %s" % self.sim.id,  # Title
                 labels=[],
                 xaxis="Time (ms)",  # x axis legend
-                yaxis="Membrane potential (mV)",  # y axis legend
+                yaxis="(SI units)",  # y axis legend
                 title_above_plot=True,
                 show_plot_already=False,
             )  # Save figure
@@ -283,7 +283,7 @@ def _run_all(self):
                             label = "%s (%s)" % (y, params)
                             self.ax.plot(
                                 [t * 1000 for t in traces["t"]],
-                                [v * 1000 for v in traces[y]],
+                                [v for v in traces[y]],
                                 label=label,
                             )
 
@@ -532,7 +532,7 @@ def plotLines(
             logx=logx,
             logy=logy,
             show_plot_already=False,
-            legend_position="right",
+            legend_position="bottom center",
             save_figure_to=save_figure_to,
         )  # Save figure
 
@@ -766,7 +766,7 @@ def run_once(self, job_dir, **kwargs):
         vary = {"c": [-3, -1, 1, 3]}
         # vary = {'a':[.8,1,1.2]}
         # vary = {'eta':['100Hz']}
-        # vary = {'stim_amp':['1.5pA']}
+        vary = {'I':[5,5.2]}
 
         simulator = "jNeuroML"
         simulator = "jNeuroML_NEURON"