Automated update fixed versions of entries

sys-bio · Jun 4, 2024 · 069e537 · 069e537
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diff --git a/final/BIOMD0000000916/Kraan1992.sedml b/final/BIOMD0000000916/Kraan1992.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="3" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000917/Phillips2007.sedml b/final/BIOMD0000000917/Phillips2007.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="72" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000918/Schwarz2018.sedml b/final/BIOMD0000000918/Schwarz2018.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="20" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000919/Ledzewicz2013.sedml b/final/BIOMD0000000919/Ledzewicz2013.sedml
@@ -5,7 +5,7 @@
   </listOfModels>
   <listOfSimulations>
     <steadyState id="steady2">
-      <algorithm name="KINSOL" kisaoID="KISAO:0000407"/>
+      <algorithm name="Steady state root-finding method" kisaoID="KISAO:0000407"/>
     </steadyState>
   </listOfSimulations>
   <listOfTasks>

diff --git a/final/BIOMD0000000920/Jarrett2015.sedml b/final/BIOMD0000000920/Jarrett2015.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="35" outputStartTime="35" outputEndTime="70" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000921/khajanchi2017.sedml b/final/BIOMD0000000921/khajanchi2017.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="60" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000922/Turner2015_ELP.sedml b/final/BIOMD0000000922/Turner2015_ELP.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="auto_ten_seconds" initialTime="0" outputStartTime="0" outputEndTime="10" numberOfSteps="1000">
-      <algorithm name="CVODE" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter name="absolute tolerance" kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter name="absolute tolerance adjustment factor" kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter name="integrate reduced model" kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter name="maximum number of steps" kisaoID="KISAO_0000415" value="100000"/>
           <algorithmParameter name="relative tolerance" kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000923/Lio2012_Modelling osteomyelitis_Control Model.sedml b/final/BIOMD0000000923/Lio2012_Modelling osteomyelitis_Control Model.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="1200" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000924/Smith2011_V1.sedml b/final/BIOMD0000000924/Smith2011_V1.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="120" numberOfSteps="150">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000924/Smith2011_V1_Fig5.sedml b/final/BIOMD0000000924/Smith2011_V1_Fig5.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="120" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000925/Dunster2016_Nondimensional_Model1.sedml b/final/BIOMD0000000925/Dunster2016_Nondimensional_Model1.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0.001" outputEndTime="1000" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000925/Dunster2016_Nondimensional_Model_Curated.sedml b/final/BIOMD0000000925/Dunster2016_Nondimensional_Model_Curated.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0.0001" outputEndTime="1000" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000926/Rhodes2019-Immune-Mediated theory of Metastasis.sedml b/final/BIOMD0000000926/Rhodes2019-Immune-Mediated theory of Metastasis.sedml
@@ -7,7 +7,7 @@
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="100" numberOfSteps="1000">
       <algorithm name="Stochastic Runge Kutta (RI5)" kisaoID="KISAO_0000566">
         <listOfAlgorithmParameters>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-06"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-06"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100"/>
           <algorithmParameter name="Tolerance for Root Finder" kisaoID="KISAO:0000565" value="1e-06"/>
           <algorithmParameter name="Force Physical Correctness" kisaoID="KISAO:0000567" value="1"/>

diff --git a/final/BIOMD0000000926/Rhodes2019-Immune-Mediated theory of Metastasis_V1.sedml b/final/BIOMD0000000926/Rhodes2019-Immune-Mediated theory of Metastasis_V1.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="400" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000927/Grigolon2018_fig1b.sedml b/final/BIOMD0000000927/Grigolon2018_fig1b.sedml
@@ -5,7 +5,7 @@
   </listOfModels>
   <listOfSimulations>
     <steadyState id="steady2">
-      <algorithm name="KINSOL" kisaoID="KISAO:0000407"/>
+      <algorithm name="Steady state root-finding method" kisaoID="KISAO:0000407"/>
     </steadyState>
   </listOfSimulations>
   <listOfTasks>

diff --git a/final/BIOMD0000000928/Baker2017_Fig14.a_1.sedml b/final/BIOMD0000000928/Baker2017_Fig14.a_1.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="39" numberOfSteps="385">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000928/Baker2017_Fig14.a_2.sedml b/final/BIOMD0000000928/Baker2017_Fig14.a_2.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="39" numberOfPoints="500">
-      <algorithm kisaoID="KISAO_0000560">
+      <algorithm kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000928/Baker2017_Fig14.a_3.sedml b/final/BIOMD0000000928/Baker2017_Fig14.a_3.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="39" numberOfPoints="375">
-      <algorithm kisaoID="KISAO_0000560">
+      <algorithm kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000928/Baker2017_Fig14.b_1.sedml b/final/BIOMD0000000928/Baker2017_Fig14.b_1.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="52" numberOfPoints="500">
-      <algorithm kisaoID="KISAO_0000560">
+      <algorithm kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000928/Baker2017_Fig14.b_2.sedml b/final/BIOMD0000000928/Baker2017_Fig14.b_2.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="52" numberOfPoints="500">
-      <algorithm kisaoID="KISAO_0000560">
+      <algorithm kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000929/Li2016.sedml b/final/BIOMD0000000929/Li2016.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="1000" numberOfSteps="1000">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000930/Liu2017.sedml b/final/BIOMD0000000930/Liu2017.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="50" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="10000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000931/Voliotis2019-original.sedml b/final/BIOMD0000000931/Voliotis2019-original.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="auto_ten_seconds" initialTime="0" outputStartTime="0" outputEndTime="10" numberOfSteps="1000">
-      <algorithm name="CVODE" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter name="absolute tolerance" kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter name="absolute tolerance adjustment factor" kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter name="integrate reduced model" kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter name="maximum number of steps" kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter name="relative tolerance" kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000931/Voliotis2019.sedml b/final/BIOMD0000000931/Voliotis2019.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="auto_ten_seconds" initialTime="0" outputStartTime="0" outputEndTime="10" numberOfSteps="1000">
-      <algorithm name="CVODE" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter name="absolute tolerance" kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter name="absolute tolerance adjustment factor" kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter name="integrate reduced model" kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter name="maximum number of steps" kisaoID="KISAO_0000415" value="10000"/>
           <algorithmParameter name="relative tolerance" kisaoID="KISAO_0000209" value="1e-6"/>

diff --git a/final/BIOMD0000000932/Garde2020-Fig2.sedml b/final/BIOMD0000000932/Garde2020-Fig2.sedml
@@ -5,10 +5,10 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="25" numberOfSteps="100">
-      <algorithm name="Deterministic (LSODA)" kisaoID="KISAO_0000560">
+      <algorithm name="ODE solver" kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
           <algorithmParameter name="Relative Tolerance" kisaoID="KISAO:0000209" value="1e-06"/>
-          <algorithmParameter name="Absolute Tolerance" kisaoID="KISAO:0000211" value="1e-12"/>
+          <algorithmParameter name="Absolute tolerance adjustment factor" kisaoID="KISAO:0000571" value="1e-12"/>
           <algorithmParameter name="Integrate Reduced Model" kisaoID="KISAO:0000216" value="0"/>
           <algorithmParameter name="Max Internal Steps" kisaoID="KISAO:0000415" value="100000"/>
         </listOfAlgorithmParameters>

diff --git a/final/BIOMD0000000932/Garde2020-Fig4.sedml b/final/BIOMD0000000932/Garde2020-Fig4.sedml
@@ -5,9 +5,9 @@
   </listOfModels>
   <listOfSimulations>
     <uniformTimeCourse id="sim1" initialTime="0" outputStartTime="0" outputEndTime="10" numberOfPoints="100">
-      <algorithm kisaoID="KISAO_0000560">
+      <algorithm kisaoID="KISAO_0000694">
         <listOfAlgorithmParameters>
-          <algorithmParameter kisaoID="KISAO_0000211" value="1e-12"/>
+          <algorithmParameter kisaoID="KISAO_0000571" value="1e-12"/>
           <algorithmParameter kisaoID="KISAO_0000216" value="false"/>
           <algorithmParameter kisaoID="KISAO_0000415" value="100000"/>
           <algorithmParameter kisaoID="KISAO_0000209" value="1e-6"/>