Remove whitespaces xml files

Author: pgleeson

examples/MultiRunSimulation.xml

@@ -4,15 +4,15 @@
 <ComponentType name="DisplayList">
     <Parameter name="timeScale" dimension="time"/>
     <Children name="lines" type="Line"/>
-    
-    <Text name="title"/>  
+
+    <Text name="title"/>
     <Text name="display"/>
 </ComponentType>
 
 
 
 <ComponentType name="Display">
-    <Text name="title"/>   
+    <Text name="title"/>
 	<Parameter name="xmin" dimension="none"/>
 	<Parameter name="xmax" dimension="none"/>
 	<Parameter name="ymin" dimension="none"/>
@@ -45,7 +45,7 @@
     <Dynamics>
         <StateVariable name="t" dimension="time"/>
     </Dynamics>
-    
+
     <Simulation>
         <Run component="target" variable="t" increment="step" total="length"/>
     </Simulation>
@@ -56,8 +56,8 @@
 <ComponentType name="SimulationSet">
     <Children name="simulations" type="Simulation"/>
     <Children name="displays" type="Display"/>
-    
-    
+
+
 </ComponentType>
 
-</Lems>
+</Lems>

examples/SimpleTest.xml

@@ -1,70 +1,70 @@
 <Lems>
 
     <Target component="sim1"/>
-    
+
     <!-- Include standard NeuroML2 ComponentType definitions -->
     <Include file="Simulation.xml"/>
-    
-    
+
+
     <ComponentType name="simpleCell">
-        
+
         <Parameter name="v0" dimension="voltage"/>
         <Parameter name="v1" dimension="voltage"/>
         <Parameter name="tau" dimension="time"/>
-        
+
         <Exposure name="v" dimension="voltage" description="Membrane potential"/>
-        
+
         <Child name="membrane" type="membrane"/>
-        
+
         <Dynamics>
             <DerivedVariable name="v" dimension="voltage" exposure="v" value="v0 + (t*(v1-v0)/tau)"/>
 
         </Dynamics>
 
     </ComponentType>
-    
+
     <ComponentType name="membrane">
-        
+
         <Parameter name="g" dimension="conductance"/>
         <Parameter name="E" dimension="voltage"/>
         <Exposure name="I" dimension="current"/>
         <Exposure name="I2" dimension="none"/>
         <Requirement name="v" dimension="voltage"/>
-        
+
         <Dynamics>
             <DerivedVariable name="I" dimension="current" exposure="I" value="g * (E-v)"/>
             <DerivedVariable name="I2" dimension="none" exposure="I2" value="v/E"/>
         </Dynamics>
 
     </ComponentType>
-    
-    
-    
+
+
+
     <simpleCell id="cell0" v0="-100 mV" v1="100 mV" tau="200 ms">
         <membrane g="10 pS" E="50 mV"/>
     </simpleCell>
-    
-    
+
+
     <Simulation id="sim1" length="5ms" step="1ms" target="cell0">
-    
+
         <Display id="d1" title="Voltage" timeScale="1ms" xmin="-20" xmax="220" ymin="-110" ymax="110">
             <Line id="v" quantity="v" scale="1mV"  color="#ffffff" timeScale="1ms"/>
         </Display>
-        
+
         <Display id="d2" title="Current" timeScale="1ms" xmin="-20" xmax="220" ymin="-1" ymax="2">
             <Line id="I" quantity="membrane/I" scale="1pS"  color="#ffffff" timeScale="1ms"/>
             <Line id="I2" quantity="membrane/I2" scale="1"  color="#f22fff" timeScale="1ms"/>
         </Display>
-    
+
 
         <OutputFile id="of0" fileName="simp.dat">
             <OutputColumn id="v" quantity="v"/>
             <OutputColumn id="m" quantity="membrane/I"/>
             <OutputColumn id="m" quantity="membrane/I2"/>
-        </OutputFile> 
+        </OutputFile>
 
     </Simulation>
 
 
 
-</Lems>
+</Lems>

examples/bounce-conditional.xml

@@ -1,12 +1,12 @@
 <Lems>
 
-    <Target component="sim"/> 
-  
+    <Target component="sim"/>
+
     <Dimension name="length" l="1" />
     <Dimension name="time" t="1" />
     <Dimension name="speed" l="1" t="-1"/>
     <Dimension name="acceleration" l="1" t="-2"/>
-	
+
     <Unit symbol="s" dimension="time"/>
     <Unit symbol="m" dimension="length"/>
     <Unit symbol="m_per_s" dimension="speed"/>
@@ -20,18 +20,18 @@
         <Parameter name="t1" dimension="time"/>
         <Parameter name="t2" dimension="time"/>
         <Exposure name="height" dimension="time"/>
-        
+
         <Constant name="AccG" dimension="acceleration" value="9.8m_per_s2"/>
-    
+
         <Dynamics>
             <StateVariable name="height" exposure="height" dimension="length"/>
             <StateVariable name="vel" dimension="speed"/>
-			
+
             <OnStart>
                 <StateAssignment variable="height" value="y0"/>
                 <StateAssignment variable="vel" value="0"/>
             </OnStart>
-	
+
             <ConditionalDerivedVariable name="effacc" dimension="acceleration">
                 <Case condition="t .lt. t1" value="-1 * AccG"/>
                 <Case condition="t .lt. t2" value="-0.1 * AccG"/>
@@ -48,25 +48,25 @@
             </OnCondition>
         </Dynamics>
     </ComponentType>
-        
- 
 
- 
+
+
+
     <ball id="ball" fbounce="0.9" y0="5m" t1="5s" t2="10s"/>
-	
-	
+
+
     <Include file="SingleSimulation.xml" />
- 
+
 
 
     <Simulation id="sim" length="20s" step="0.01s" target="ball">
         <Display id="disp1" title="Net1" xmin="0" xmax="30" ymin="-1" ymax="6" timeScale="1s">
             <Line id="g0"  timeScale="1s" quantity="height" scale="1m" color="#0000f0"/>
-        
-        </Display> 
- 	
-  
- 
+
+        </Display>
+
+
+
     </Simulation>
 
-</Lems>
+</Lems>

examples/example10_Q10.xml

@@ -1,15 +1,15 @@
 <Lems>
- 
-<Target component="simset"/> 
- 
+
+<Target component="simset"/>
+
 <Include file="ex2dims.xml"/>
-<Include file="hhchannel.xml"/> 
+<Include file="hhchannel.xml"/>
 <Include file="hhcell.xml"/>
 <Include file="hhmodels.xml"/>
 <Include file="MultiRunSimulation.xml"/>
 
 
-    <ComponentType name="TemperatureDependency">    
+    <ComponentType name="TemperatureDependency">
         <Exposure name="rateFactor" dimension="none"/>
         <Requirement name="temperature" dimension="temperature"/>
     </ComponentType>
@@ -21,31 +21,31 @@
 	    <Parameter name="baseTemperature" dimension="temperature"/>
 	    <Constant name="tenC" dimension="temperature" value="10 degC"/>
          <Dynamics>
-            <DerivedVariable name="rateFactor" exposure="rateFactor" dimension="none" 
+            <DerivedVariable name="rateFactor" exposure="rateFactor" dimension="none"
                        value="Q10^((temperature - baseTemperature) / tenC)"/>
         </Dynamics>
     </ComponentType>
- 
-     
+
+
 
   <ComponentType name="HHGateQ10" extends="HHGate">
      <Child name="temperatureDependency" type="TemperatureDependency"/>
-     
+
     <Dynamics simultaneous="false">
         <StateVariable name="x" dimension="none"/>
 
-       <DerivedVariable name="rateFactor" dimension="none" select="temperatureDependency/rateFactor" 
+       <DerivedVariable name="rateFactor" dimension="none" select="temperatureDependency/rateFactor"
        			reduce="multiply" required="false"/>
 
         <DerivedVariable name="rf" dimension="per_time" select="Forward/r"/>
-        <DerivedVariable name="rr" dimension="per_time" select="Reverse/r"/> 
-        
+        <DerivedVariable name="rr" dimension="per_time" select="Reverse/r"/>
+
         <TimeDerivative variable="x" value="(1 + ex)^2 / ex * (rateFactor * rf * (1 - q) -  rateFactor * rr * q)"/>
-      
+
         <DerivedVariable name="ex" dimension="none" value="exp(x)"/>
         <DerivedVariable name="q" dimension="none" value="ex / (1 + ex)"/>
         <DerivedVariable name="fcond" exposure="fcond" value="q^power"/>
-    </Dynamics>    
+    </Dynamics>
 </ComponentType>
 
 
@@ -55,7 +55,7 @@
 <HHChannel id="naq10"  conductance="10pS">
 
    <HHGateQ10 id="m" power="3">
-        <temperatureDependency type="Q10TemperatureDependency" Q10="3" baseTemperature="32degC" /> 
+        <temperatureDependency type="Q10TemperatureDependency" Q10="3" baseTemperature="32degC" />
         <Forward type="HHExpLinearRate" rate="1per_ms" midpoint="-40mV" scale="10mV"/>
         <Reverse type="HHExpRate" rate="4per_ms" midpoint="-65mV" scale="-18mV"/>
    </HHGateQ10>
@@ -77,24 +77,24 @@
     <ChannelPopulation id="NaPop" channel="naq10" number="8000" erev="50mV"/>
     <ChannelPopulation id="KPop" channel="k" number="1100" erev="-77mV"/>
 </HHCellT>
- 
- 
-  
+
+
+
 
 <SimulationSet id="simset">
 	<Display id="disp1" title="Example 10: Challen kinetics with Q10" xmin="0" xmax="80" ymin="-80" ymax="50"/>
-	 
+
 	<Simulation id="sim1" length="80ms" step="0.05ms" target="hhcell_1" display="disp1">
     	<DisplayList timeScale="1ms" title="">
              <Line id="V" quantity="v" scale="1mV" timeScale="1ms" color="#0000f0"/>
-         
+
         <Line id="Na_q" quantity="NaPop/geff" scale="1nS" timeScale="1ms" color="#f00000"/>
         <Line id="K_q" quantity="KPop/geff" scale="1nS" timeScale="1ms" color="#00f000"/>
-        
-        
+
+
     	</DisplayList>
 	</Simulation>
 </SimulationSet>
 
 
-</Lems>
+</Lems>