Test: BIOMD0000000058.xml - Ok

test: BIOMD0000000058.xml
model: xml, reaction graph
plots: plot
comparison: comparison of simulators

Reaction graph

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/publ/BIOMD0000000058.gif

Plots

Note: downloaded from http://www.ebi.ac.uk/compneur-srv/biomodels/models-main/simu/MODEL9107330008.JPG

Comparison with other simulators

Legend:

Text color indicates difference between values:
  -  no significant difference ( < 0.1%)
  -  small relative error ( > 0.1% and <50%)
  -  simulation results significantly differ ( >50%)

Variables: Phi3_c1  c1  c2  Phi3_c2  Phi_minus1_c1  Phi_minus1_c2  Phi1_c2  Phi2_c1  h1  Phi2_c2  Phi1_c1  h2 
Simulators: BioUML  ByoDyn  MathSBML  Oscill8 Core  SBToolbox2  SBWOdeSolver  VCell  copasi  edu.kgi.roadRunner  jsim 
timesimulation Phi3_c1 c1 c2 Phi3_c2 Phi_minus1_c1 Phi_minus1_c2 Phi1_c2 Phi2_c1 h1 Phi2_c2 Phi1_c1 h2
var error var error var error var error var error var error var error var error var error var error var error var error
0.0 BioUML8,42105E-10,003,00000E-10,001,00000E-10,009,41176E-10,008,74751E-10,008,78244E-10,001,63934E00,006,46123E-10,008,00000E-10,005,68862E-10,004,76190E00,001,00000E-10,00
0.0 ByoDyn8,42105E-10,003,00000E-10,001,00000E-10,009,41176E-10,008,74751E-10,008,78244E-10,001,63934E00,006,46123E-10,008,00000E-10,005,68862E-10,004,76190E00,001,00000E-10,00
0.0 MathSBML - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 Oscill8 Core - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 SBToolbox28,42110E-10,003,00000E-10,001,00000E-10,009,41180E-10,008,74750E-10,008,78240E-10,001,63930E00,006,46120E-10,008,00000E-10,005,68860E-10,004,76190E00,001,00000E-10,00
0.0 SBWOdeSolver - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 VCell - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 copasi - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 edu.kgi.roadRunner - - 3,00000E-10,001,00000E-10,00 - - - - - - - - - - 8,00000E-10,00 - - - - 1,00000E-10,00
0.0 jsim8,42105E-10,003,00000E-10,001,00000E-10,009,41176E-10,008,74751E-10,008,78244E-10,001,63934E00,006,46123E-10,008,00000E-10,005,68862E-10,004,76190E00,001,00000E-10,00
0.2 BioUML7,40389E-10,005,61027E-10,008,93888E-20,009,47088E-10,008,70235E-10,008,78430E-10,001,46794E00,007,46040E-10,007,62359E-10,005,64746E-10,008,55090E00,002,48903E-10,00
0.2 ByoDyn7,40389E-10,005,61027E-10,008,93888E-20,009,47088E-10,008,70235E-10,008,78430E-10,001,46794E00,007,46040E-10,007,62359E-10,005,64746E-10,008,55090E00,002,48903E-10,00
0.2 MathSBML - - 5,61027E-10,008,93888E-20,00 - - - - - - - - - - 7,62359E-10,00 - - - - 2,48903E-10,00
0.2 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
0.2 SBToolbox27,39984E-10,005,62229E-10,218,93765E-20,009,47096E-10,008,70216E-10,008,78430E-10,001,46771E00,007,46493E-10,007,62248E-10,005,64742E-10,008,56756E00,192,48916E-10,00
0.2 SBWOdeSolver - - 5,61027E-10,008,93890E-20,00 - - - - - - - - - - 7,62358E-10,00 - - - - 2,48902E-10,00
0.2 VCell - - 5,61027E-10,008,93888E-20,00 - - - - - - - - - - 7,62359E-10,00 - - - - 2,48903E-10,00
0.2 copasi - - 5,61026E-10,008,93888E-20,00 - - - - - - - - - - 7,62359E-10,00 - - - - 2,48903E-10,00
0.2 edu.kgi.roadRunner - - 5,61027E-10,008,93888E-20,00 - - - - - - - - - - 7,62359E-10,00 - - - - 2,48903E-10,00
0.2 jsim7,40389E-10,005,61027E-10,008,93888E-20,009,47088E-10,008,70235E-10,008,78430E-10,001,46794E00,007,46040E-10,007,62359E-10,005,64746E-10,008,55090E00,002,48903E-10,00
0.4 BioUML6,20837E-10,009,77166E-10,008,56881E-20,009,49167E-10,008,63132E-10,008,78494E-10,001,40803E00,009,03215E-10,007,03881E-10,005,63310E-10,001,40052E10,003,68666E-10,00
0.4 ByoDyn6,20837E-10,009,77166E-10,008,56881E-20,009,49167E-10,008,63132E-10,008,78494E-10,001,40803E00,009,03215E-10,007,03881E-10,005,63310E-10,001,40052E10,003,68666E-10,00
0.4 MathSBML - - 9,77166E-10,008,56881E-20,00 - - - - - - - - - - 7,03881E-10,00 - - - - 3,68666E-10,00
0.4 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
0.4 SBToolbox26,20157E-10,119,79998E-10,298,56764E-20,009,49178E-10,008,63084E-10,008,78490E-10,001,40786E00,009,04280E-10,127,03604E-10,005,63302E-10,001,40405E10,253,68685E-10,00
0.4 SBWOdeSolver - - 9,77158E-10,008,56883E-20,00 - - - - - - - - - - 7,03880E-10,00 - - - - 3,68665E-10,00
0.4 VCell - - 9,77166E-10,008,56881E-20,00 - - - - - - - - - - 7,03881E-10,00 - - - - 3,68666E-10,00
0.4 copasi - - 9,77164E-10,008,56881E-20,00 - - - - - - - - - - 7,03881E-10,00 - - - - 3,68666E-10,00
0.4 edu.kgi.roadRunner - - 9,77166E-10,008,56881E-20,00 - - - - - - - - - - 7,03881E-10,00 - - - - 3,68666E-10,00
0.4 jsim6,20837E-10,009,77166E-10,008,56881E-20,009,49167E-10,008,63132E-10,008,78494E-10,001,40803E00,009,03215E-10,007,03881E-10,005,63310E-10,001,40052E10,003,68666E-10,00
0.6 BioUML5,44640E-10,001,33772E00,008,53800E-20,009,49341E-10,008,57070E-10,008,78500E-10,001,40303E00,001,03734E00,006,32756E-10,005,63190E-10,001,82307E10,004,64613E-10,00
0.6 ByoDyn5,44640E-10,001,33772E00,008,53800E-20,009,49341E-10,008,57070E-10,008,78500E-10,001,40303E00,001,03734E00,006,32756E-10,005,63190E-10,001,82307E10,004,64613E-10,00
0.6 MathSBML - - 1,33772E00,008,53800E-20,00 - - - - - - - - - - 6,32756E-10,00 - - - - 4,64613E-10,00
0.6 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
0.6 SBToolbox25,44318E-10,001,33945E00,138,53398E-20,009,49361E-10,008,57044E-10,008,78500E-10,001,40236E00,001,03799E00,006,32518E-10,005,63179E-10,001,82496E10,104,64702E-10,00
0.6 SBWOdeSolver - - 1,33770E00,008,53801E-20,00 - - - - - - - - - - 6,32758E-10,00 - - - - 4,64611E-10,00
0.6 VCell - - 1,33772E00,008,53800E-20,00 - - - - - - - - - - 6,32756E-10,00 - - - - 4,64613E-10,00
0.6 copasi - - 1,33772E00,008,53800E-20,00 - - - - - - - - - - 6,32756E-10,00 - - - - 4,64613E-10,00
0.6 edu.kgi.roadRunner - - 1,33772E00,008,53800E-20,00 - - - - - - - - - - 6,32756E-10,00 - - - - 4,64613E-10,00
0.6 jsim5,44640E-10,001,33772E00,008,53800E-20,009,49341E-10,008,57070E-10,008,78500E-10,001,40303E00,001,03734E00,006,32756E-10,005,63190E-10,001,82307E10,004,64613E-10,00
0.8 BioUML5,10032E-10,001,53706E00,008,68451E-20,009,48516E-10,008,53755E-10,008,78474E-10,001,42677E00,001,11068E00,005,63699E-10,005,63759E-10,002,03933E10,005,41135E-10,00
0.8 ByoDyn5,10032E-10,001,53706E00,008,68451E-20,009,48516E-10,008,53755E-10,008,78474E-10,001,42677E00,001,11068E00,005,63699E-10,005,63759E-10,002,03933E10,005,41135E-10,00
0.8 MathSBML - - 1,53706E00,008,68451E-20,00 - - - - - - - - - - 5,63699E-10,00 - - - - 5,41135E-10,00
0.8 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
0.8 SBToolbox25,10022E-10,001,53710E00,008,67868E-20,009,48545E-10,008,53749E-10,008,78480E-10,001,42577E00,001,11072E00,005,63548E-10,005,63737E-10,002,03946E10,005,41266E-10,00
0.8 SBWOdeSolver - - 1,53703E00,008,68451E-20,00 - - - - - - - - - - 5,63702E-10,00 - - - - 5,41134E-10,00
0.8 VCell - - 1,53706E00,008,68451E-20,00 - - - - - - - - - - 5,63699E-10,00 - - - - 5,41135E-10,00
0.8 copasi - - 1,53706E00,008,68451E-20,00 - - - - - - - - - - 5,63700E-10,00 - - - - 5,41135E-10,00
0.8 edu.kgi.roadRunner - - 1,53706E00,008,68451E-20,00 - - - - - - - - - - 5,63699E-10,00 - - - - 5,41135E-10,00
0.8 jsim5,10032E-10,001,53706E00,008,68451E-20,009,48516E-10,008,53755E-10,008,78474E-10,001,42677E00,001,11068E00,005,63699E-10,005,63759E-10,002,03933E10,005,41135E-10,00
1.0 BioUML4,99910E-10,001,60058E00,008,93839E-20,009,47091E-10,008,52704E-10,008,78430E-10,001,46787E00,001,13393E00,005,05960E-10,005,64744E-10,002,10586E10,006,01860E-10,00
1.0 ByoDyn4,99910E-10,001,60058E00,008,93839E-20,009,47091E-10,008,52704E-10,008,78430E-10,001,46787E00,001,13393E00,005,05960E-10,005,64744E-10,002,10586E10,006,01860E-10,00
1.0 MathSBML - - 1,60058E00,008,93839E-20,00 - - - - - - - - - - 5,05960E-10,00 - - - - 6,01860E-10,00
1.0 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
1.0 SBToolbox24,99932E-10,001,60042E00,008,93122E-20,009,47129E-10,008,52702E-10,008,78430E-10,001,46667E00,001,13387E00,005,05906E-10,005,64714E-10,002,10572E10,006,02058E-10,00
1.0 SBWOdeSolver - - 1,60056E00,008,93840E-20,00 - - - - - - - - - - 5,05963E-10,00 - - - - 6,01859E-10,00
1.0 VCell - - 1,60058E00,008,93839E-20,00 - - - - - - - - - - 5,05960E-10,00 - - - - 6,01860E-10,00
1.0 copasi - - 1,60058E00,008,93839E-20,00 - - - - - - - - - - 5,05960E-10,00 - - - - 6,01860E-10,00
1.0 edu.kgi.roadRunner - - 1,60058E00,008,93839E-20,00 - - - - - - - - - - 5,05960E-10,00 - - - - 6,01860E-10,00
1.0 jsim4,99910E-10,001,60058E00,008,93839E-20,009,47091E-10,008,52704E-10,008,78430E-10,001,46787E00,001,13393E00,005,05960E-10,005,64744E-10,002,10586E10,006,01860E-10,00
1.2 BioUML5,03479E-10,001,57789E00,009,27486E-20,009,45208E-10,008,53079E-10,008,78371E-10,001,52228E00,001,12563E00,004,62367E-10,005,66049E-10,002,08222E10,006,49747E-10,00
1.2 ByoDyn5,03479E-10,001,57789E00,009,27486E-20,009,45208E-10,008,53079E-10,008,78371E-10,001,52228E00,001,12563E00,004,62367E-10,005,66049E-10,002,08222E10,006,49747E-10,00
1.2 MathSBML - - 1,57789E00,009,27486E-20,00 - - - - - - - - - - 4,62367E-10,00 - - - - 6,49747E-10,00
1.2 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
1.2 SBToolbox25,03471E-10,001,57800E00,009,26686E-20,009,45252E-10,008,53075E-10,008,78370E-10,001,52103E00,001,12562E00,004,62321E-10,005,66020E-10,002,08231E10,006,49984E-10,00
1.2 SBWOdeSolver - - 1,57788E00,009,27486E-20,00 - - - - - - - - - - 4,62370E-10,00 - - - - 6,49745E-10,00
1.2 VCell - - 1,57789E00,009,27486E-20,00 - - - - - - - - - - 4,62367E-10,00 - - - - 6,49747E-10,00
1.2 copasi - - 1,57789E00,009,27486E-20,00 - - - - - - - - - - 4,62367E-10,00 - - - - 6,49747E-10,00
1.2 edu.kgi.roadRunner - - 1,57789E00,009,27486E-20,00 - - - - - - - - - - 4,62367E-10,00 - - - - 6,49747E-10,00
1.2 jsim5,03479E-10,001,57789E00,009,27486E-20,009,45208E-10,008,53079E-10,008,78371E-10,001,52228E00,001,12563E00,004,62367E-10,005,66049E-10,002,08222E10,006,49747E-10,00
1.4 BioUML5,15214E-10,001,50551E00,009,68888E-20,009,42902E-10,008,54278E-10,008,78298E-10,001,58915E00,001,09911E00,004,32293E-10,005,67656E-10,002,00587E10,006,87188E-10,00
1.4 ByoDyn5,15214E-10,001,50551E00,009,68888E-20,009,42902E-10,008,54278E-10,008,78298E-10,001,58915E00,001,09911E00,004,32293E-10,005,67656E-10,002,00587E10,006,87188E-10,00
1.4 MathSBML - - 1,50551E00,009,68888E-20,00 - - - - - - - - - - 4,32293E-10,00 - - - - 6,87188E-10,00
1.4 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
1.4 SBToolbox25,15195E-10,001,50563E00,009,68025E-20,009,42948E-10,008,54279E-10,008,78300E-10,001,58778E00,001,09914E00,004,32219E-10,005,67619E-10,002,00597E10,006,87439E-10,00
1.4 SBWOdeSolver - - 1,50550E00,009,68889E-20,00 - - - - - - - - - - 4,32296E-10,00 - - - - 6,87186E-10,00
1.4 VCell - - 1,50551E00,009,68888E-20,00 - - - - - - - - - - 4,32293E-10,00 - - - - 6,87188E-10,00
1.4 copasi - - 1,50551E00,009,68888E-20,00 - - - - - - - - - - 4,32293E-10,00 - - - - 6,87188E-10,00
1.4 edu.kgi.roadRunner - - 1,50551E00,009,68888E-20,00 - - - - - - - - - - 4,32293E-10,00 - - - - 6,87188E-10,00
1.4 jsim5,15214E-10,001,50551E00,009,68888E-20,009,42902E-10,008,54278E-10,008,78298E-10,001,58915E00,001,09911E00,004,32293E-10,005,67656E-10,002,00587E10,006,87188E-10,00
1.6 BioUML5,32331E-10,001,40565E00,001,01848E-10,009,40155E-10,008,55937E-10,008,78211E-10,001,66913E00,001,06239E00,004,13886E-10,005,69579E-10,001,89808E10,007,16104E-10,00
1.6 ByoDyn5,32331E-10,001,40565E00,001,01848E-10,009,40155E-10,008,55937E-10,008,78211E-10,001,66913E00,001,06239E00,004,13886E-10,005,69579E-10,001,89808E10,007,16104E-10,00
1.6 MathSBML - - 1,40565E00,001,01848E-10,00 - - - - - - - - - - 4,13886E-10,00 - - - - 7,16104E-10,00
1.6 Oscill8 Core - - 0,00000E01000,00000E0100 - - - - - - - - - - 0,00000E0100 - - - - 0,00000E0100
1.6 SBToolbox25,32286E-10,001,40586E00,001,01757E-10,009,40204E-10,008,55936E-10,008,78212E-10,001,66761E00,001,06252E00,004,13779E-10,005,69542E-10,001,89834E10,007,16357E-10,00
1.6 SBWOdeSolver - - 1,40564E00,001,01848E-10,00 - - - - - - - - - - 4,13888E-10,00 - - - - 7,16103E-10,00
1.6 VCell - - 1,40565E00,001,01848E-10,00 - - - - - - - - - - 4,13886E-10,00 - - - - 7,16104E-10,00
1.6 copasi - - 1,40565E00,001,01848E-10,00 - - - - - - - - - - 4,13886E-10,00 - - - - 7,16104E-10,00
1.6 edu.kgi.roadRunner - - 1,40565E00,001,01848E-10,00 - - - - - - - - - - 4,13886E-10,00 - - - - 7,16104E-10,00
1.6 jsim5,32331E-10,001,40565E00,001,01848E-10,009,40155E-10,008,55937E-10,008,78211E-10,001,66913E00,001,06239E00,004,13886E-10,005,69579E-10,001,89808E10,007,16104E-10,00