From 826f4c23cad09f1467ab6029967cb2c1ba77d6c6 Mon Sep 17 00:00:00 2001
From: pgleeson <p.gleeson@gmail.com>
Date: Wed, 27 Nov 2024 12:14:30 +0000
Subject: [PATCH] Tweak sedml

---
 .gitignore                     |  1 +
 LEMS_SimTestNet.xml            |  2 +-
 SBML/BIOMD0000000138_url.sedml | 11 +++++++++--
 3 files changed, 11 insertions(+), 3 deletions(-)

diff --git a/.gitignore b/.gitignore
index 1687cff..21f7529 100644
--- a/.gitignore
+++ b/.gitignore
@@ -14,3 +14,4 @@ TestNet.net.png
 /BallAndStick.cell.svg
 /TestNet.net.svg
 /x86_64
+/SBML/*.pdf
diff --git a/LEMS_SimTestNet.xml b/LEMS_SimTestNet.xml
index cb0f536..0ad241b 100644
--- a/LEMS_SimTestNet.xml
+++ b/LEMS_SimTestNet.xml
@@ -2,7 +2,7 @@
 
     <!-- 
 
-        This LEMS file has been automatically generated using PyNeuroML v1.3.12 (libNeuroML v0.6.5)
+        This LEMS file has been automatically generated using PyNeuroML v1.3.12 (libNeuroML v0.6.6)
 
      -->
 
diff --git a/SBML/BIOMD0000000138_url.sedml b/SBML/BIOMD0000000138_url.sedml
index 65f4014..bc65740 100644
--- a/SBML/BIOMD0000000138_url.sedml
+++ b/SBML/BIOMD0000000138_url.sedml
@@ -4,7 +4,7 @@
     <model id="BIOMD0000000138_url" language="urn:sedml:language:sbml" source="BIOMD0000000138_url.xml"/>
   </listOfModels>
   <listOfSimulations>
-    <uniformTimeCourse id="auto_ten_seconds" initialTime="0" outputStartTime="0" outputEndTime="10" numberOfSteps="1000">
+    <uniformTimeCourse id="auto_ten_seconds" initialTime="0" outputStartTime="0" outputEndTime="3000" numberOfSteps="10000">
       <algorithm name="ODE solver" kisaoID="KISAO:0000694"/>
     </uniformTimeCourse>
   </listOfSimulations>
@@ -414,7 +414,14 @@
         <dataSet id="autogen_task1_reaction_0000004" label="reaction_0000004" dataReference="auto_dg_for_task1_reaction_0000004"/>
       </listOfDataSets>
     </report>
-    <plot2D id="autogen_plot_for_task1" name="Auto-generated plot for task1, including all species.">
+    <plot2D id="autogen_plot_for_task1" name="Just V.">
+      <xAxis name="Time" type="linear"/>
+      <yAxis name="Species" type="linear"/>
+      <listOfCurves>
+        <curve id="autogen_curve_task1_V" name="V" logX="false" xDataReference="auto_time_for_task1" logY="false" yDataReference="auto_dg_for_task1_V"/>
+      </listOfCurves>
+    </plot2D>
+    <plot2D id="autogen_plot_for_task2" name="Just c.">
       <xAxis name="Time" type="linear"/>
       <yAxis name="Species" type="linear"/>
       <listOfCurves>