Running: ./testmodel.py --libraries=/home/hudson/saved_omc/libraries/.openmodelica/libraries --ompython_omhome=/usr BioChem_BioChem.Examples.CellDivison.cell.conf.json
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.1.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.1.0+maint.om/package.mo): time 0.0009533/0.0009533, allocations: 80.75 kB / 19.94 MB, free: 4.547 MB / 18.57 MB
"
[Timeout remaining time 180]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.1.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.1.0+maint.om/package.mo): time 0.001034/0.001034, allocations: 181 kB / 23.36 MB, free: 1.133 MB / 18.57 MB
"
[Timeout remaining time 180]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.1.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.1.0+maint.om/package.mo): time 1.076/1.076, allocations: 177.1 MB / 203.8 MB, free: 5.461 MB / 186.7 MB
"
[Timeout remaining time 179]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/package.mo): time 0.04379/0.04379, allocations: 9.549 MB / 269.8 MB, free: 3.816 MB / 250.7 MB
"
[Timeout remaining time 180]
Using package BioChem with version 1.1.3 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/package.mo)
Using package Modelica with version 4.1.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.1.0+maint.om/package.mo)
Using package Complex with version 4.1.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.1.0+maint.om/package.mo)
Using package ModelicaServices with version 4.1.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.1.0+maint.om/package.mo)
Running command: translateModel(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=2500,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell")
translateModel(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=2500,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell") [Timeout 660]
"Notification: Performance of FrontEnd - loaded program: time 1.874e-06/1.874e-06, allocations: 0 / 290.1 MB, free: 17.88 MB / 266.7 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.48e-05/1.667e-05, allocations: 2.312 kB / 290.1 MB, free: 17.88 MB / 266.7 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.006646/0.006663, allocations: 6.069 MB / 296.2 MB, free: 15.42 MB / 266.7 MB
Notification: Performance of NFInst.instExpressions: time 0.000773/0.007435, allocations: 498.2 kB / 296.7 MB, free: 15.06 MB / 266.7 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0001588/0.007594, allocations: 25.81 kB / 296.7 MB, free: 15.06 MB / 266.7 MB
Notification: Performance of NFTyping.typeComponents: time 0.0001406/0.007735, allocations: 80.59 kB / 296.8 MB, free: 15 MB / 266.7 MB
Notification: Performance of NFTyping.typeBindings: time 0.0002439/0.007979, allocations: 123.3 kB / 296.9 MB, free: 14.91 MB / 266.7 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0002245/0.008203, allocations: 95.53 kB / 297 MB, free: 14.86 MB / 266.7 MB
Notification: Performance of NFFlatten.flatten: time 0.0003608/0.008564, allocations: 478.8 kB / 297.5 MB, free: 14.62 MB / 266.7 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.0002336/0.008798, allocations: 178.4 kB / 297.6 MB, free: 14.52 MB / 266.7 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.000274/0.009072, allocations: 298.1 kB / 297.9 MB, free: 14.39 MB / 266.7 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.0002052/0.009277, allocations: 159.2 kB / 298.1 MB, free: 14.34 MB / 266.7 MB
Notification: Performance of NFPackage.collectConstants: time 6.379e-05/0.009341, allocations: 50.91 kB / 298.1 MB, free: 14.34 MB / 266.7 MB
Notification: Performance of NFFlatten.collectFunctions: time 5.958e-05/0.0094, allocations: 49.12 kB / 298.2 MB, free: 14.34 MB / 266.7 MB
Notification: Performance of NFScalarize.scalarize: time 6.881e-05/0.009469, allocations: 108.6 kB / 298.3 MB, free: 14.27 MB / 266.7 MB
Notification: Performance of NFVerifyModel.verify: time 0.0001266/0.009596, allocations: 178.1 kB / 298.5 MB, free: 14.18 MB / 266.7 MB
Notification: Performance of NFConvertDAE.convert: time 0.0003176/0.009913, allocations: 340.4 kB / 298.8 MB, free: 14.01 MB / 266.7 MB
Notification: Performance of FrontEnd - DAE generated: time 2.424e-06/0.009916, allocations: 5.531 kB / 298.8 MB, free: 14.01 MB / 266.7 MB
Notification: Performance of FrontEnd: time 8.12e-07/0.009917, allocations: 0 / 298.8 MB, free: 14.01 MB / 266.7 MB
Notification: Performance of Transformations before backend: time 8.626e-06/0.009925, allocations: 0 / 298.8 MB, free: 14.01 MB / 266.7 MB
Notification: Model statistics after passing the front-end and creating the data structures used by the back-end:
 * Number of equations: 148
 * Number of variables: 148
Notification: Performance of Generate backend data structure: time 0.0006086/0.01053, allocations: 0.6561 MB / 299.5 MB, free: 13.56 MB / 266.7 MB
Notification: Performance of prepare preOptimizeDAE: time 3.083e-05/0.01056, allocations: 9.891 kB / 299.5 MB, free: 13.56 MB / 266.7 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 9.112e-05/0.01066, allocations: 83.73 kB / 299.6 MB, free: 13.54 MB / 266.7 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 9.239e-05/0.01075, allocations: 155.1 kB / 299.7 MB, free: 13.38 MB / 266.7 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 3.007e-05/0.01078, allocations: 44.5 kB / 299.7 MB, free: 13.36 MB / 266.7 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 5.905e-05/0.01084, allocations: 55.16 kB / 299.8 MB, free: 13.34 MB / 266.7 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0003933/0.01123, allocations: 409.8 kB / 300.2 MB, free: 13.18 MB / 266.7 MB
Notification: Performance of preOpt findStateOrder (simulation): time 1.927e-05/0.01125, allocations: 9.828 kB / 300.2 MB, free: 13.18 MB / 266.7 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 2.569e-05/0.01128, allocations: 25.53 kB / 300.2 MB, free: 13.16 MB / 266.7 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.456e-05/0.01129, allocations: 15.44 kB / 300.3 MB, free: 13.16 MB / 266.7 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0001926/0.01148, allocations: 153.4 kB / 300.4 MB, free: 13.14 MB / 266.7 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.001352/0.01283, allocations: 1.208 MB / 301.6 MB, free: 12.47 MB / 266.7 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.000235/0.01307, allocations: 209.3 kB / 301.8 MB, free: 12.39 MB / 266.7 MB
Notification: Performance of preOpt resolveLoops (simulation): time 9.837e-05/0.01317, allocations: 97.8 kB / 301.9 MB, free: 12.38 MB / 266.7 MB
Notification: Performance of preOpt evalFunc (simulation): time 1.609e-05/0.01318, allocations: 14.31 kB / 301.9 MB, free: 12.37 MB / 266.7 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 1.83e-05/0.0132, allocations: 33.31 kB / 302 MB, free: 12.33 MB / 266.7 MB
Notification: Performance of pre-optimization done (n=35): time 1.412e-06/0.0132, allocations: 0 / 302 MB, free: 12.33 MB / 266.7 MB
Notification: Performance of matching and sorting (n=42): time 0.001307/0.01451, allocations: 0.9339 MB / 302.9 MB, free: 12.02 MB / 266.7 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.019e-05/0.01453, allocations: 59.5 kB / 302.9 MB, free: 11.95 MB / 266.7 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 8.772e-05/0.01462, allocations: 201.2 kB / 303.1 MB, free: 11.8 MB / 266.7 MB
Notification: Performance of collectPreVariables (initialization): time 1.439e-05/0.01463, allocations: 36.3 kB / 303.2 MB, free: 11.76 MB / 266.7 MB
Notification: Performance of collectInitialEqns (initialization): time 7.357e-05/0.01471, allocations: 284.9 kB / 303.5 MB, free: 11.52 MB / 266.7 MB
Notification: Performance of collectInitialBindings (initialization): time 5.695e-05/0.01476, allocations: 158.7 kB / 303.6 MB, free: 11.4 MB / 266.7 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 7.824e-05/0.01484, allocations: 101.4 kB / 303.7 MB, free: 11.34 MB / 266.7 MB
Notification: Performance of setup shared object (initialization): time 3.873e-05/0.01488, allocations: 344.3 kB / 304 MB, free: 11.01 MB / 266.7 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 5.802e-05/0.01494, allocations: 53.42 kB / 304.1 MB, free: 11 MB / 266.7 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0001073/0.01505, allocations: 242 kB / 304.3 MB, free: 10.77 MB / 266.7 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0003064/0.01535, allocations: 443 kB / 304.8 MB, free: 10.46 MB / 266.7 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 2.995e-06/0.01536, allocations: 2.438 kB / 304.8 MB, free: 10.46 MB / 266.7 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.000309/0.01566, allocations: 341.9 kB / 305.1 MB, free: 10.32 MB / 266.7 MB
Notification: Performance of prepare postOptimizeDAE: time 1.315e-05/0.01568, allocations: 6.5 kB / 305.1 MB, free: 10.32 MB / 266.7 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 8.496e-06/0.01569, allocations: 8.422 kB / 305.1 MB, free: 10.32 MB / 266.7 MB
Notification: Performance of postOpt tearingSystem (initialization): time 1.871e-05/0.0157, allocations: 11.5 kB / 305.1 MB, free: 10.32 MB / 266.7 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0003156/0.01602, allocations: 151.7 kB / 305.3 MB, free: 10.29 MB / 266.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 1.017e-05/0.01603, allocations: 16.64 kB / 305.3 MB, free: 10.28 MB / 266.7 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 0.0001037/0.01613, allocations: 17 kB / 305.3 MB, free: 10.27 MB / 266.7 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 2.095e-05/0.01615, allocations: 29.44 kB / 305.3 MB, free: 10.26 MB / 266.7 MB
Warning: Assuming fixed start value for the following 8 variables:
         V:VARIABLE(start = 1.0 fixed = true stateSelect=StateSelect.prefer )  \"Compartment volume\" type: Real
         EmptySet.c:VARIABLE(min = 0.0 start = 0.0 unit = \"mol/l\" fixed = true stateSelect=StateSelect.prefer )  \"Current concentration of substance (mM)\" type: Real
         YP.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         Y.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         pM.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         M.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         CP.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         C2.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
Notification: Model statistics after passing the back-end for initialization:
 * Number of independent subsystems: 25
 * Number of states: 0 ()
 * Number of discrete variables: 0 ()
 * Number of discrete states: 0 ()
 * Number of clocked states: 0 ()
 * Top-level inputs: 0
Notification: Strong component statistics for initialization (74):
 * Single equations (assignments): 74
 * Array equations: 0
 * Algorithm blocks: 0
 * Record equations: 0
 * When equations: 0
 * If-equations: 0
 * Equation systems (not torn): 0
 * Torn equation systems: 0
 * Mixed (continuous/discrete) equation systems: 0
Notification: Performance of prepare postOptimizeDAE: time 0.0001553/0.01631, allocations: 172 kB / 305.5 MB, free: 10.11 MB / 266.7 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 3.965e-05/0.01635, allocations: 28.27 kB / 305.5 MB, free: 10.1 MB / 266.7 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 3.944e-05/0.01639, allocations: 46.27 kB / 305.6 MB, free: 10.06 MB / 266.7 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 4.088e-06/0.01639, allocations: 4.219 kB / 305.6 MB, free: 10.06 MB / 266.7 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 5.26e-06/0.0164, allocations: 5.25 kB / 305.6 MB, free: 10.06 MB / 266.7 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 4.538e-06/0.0164, allocations: 3.984 kB / 305.6 MB, free: 10.05 MB / 266.7 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0004832/0.01689, allocations: 0.4975 MB / 306.1 MB, free: 9.75 MB / 266.7 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 2.425e-06/0.01689, allocations: 3.906 kB / 306.1 MB, free: 9.75 MB / 266.7 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.000246/0.01713, allocations: 102.8 kB / 306.2 MB, free: 9.723 MB / 266.7 MB
Notification: Performance of postOpt tearingSystem (simulation): time 4.228e-06/0.01714, allocations: 7.031 kB / 306.2 MB, free: 9.719 MB / 266.7 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.809e-05/0.01716, allocations: 14.33 kB / 306.2 MB, free: 9.707 MB / 266.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 2.224e-06/0.01716, allocations: 1.625 kB / 306.2 MB, free: 9.707 MB / 266.7 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 1.663e-06/0.01716, allocations: 6.531 kB / 306.2 MB, free: 9.703 MB / 266.7 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0002977/0.01746, allocations: 406.8 kB / 306.6 MB, free: 9.48 MB / 266.7 MB
Notification: Performance of postOpt removeConstants (simulation): time 1.588e-05/0.01747, allocations: 19.28 kB / 306.6 MB, free: 9.469 MB / 266.7 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.176e-05/0.0175, allocations: 8.188 kB / 306.7 MB, free: 9.465 MB / 266.7 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 7.454e-05/0.01757, allocations: 18.84 kB / 306.7 MB, free: 9.449 MB / 266.7 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 3.016e-05/0.0176, allocations: 26.56 kB / 306.7 MB, free: 9.43 MB / 266.7 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 9.227e-06/0.01761, allocations: 9.25 kB / 306.7 MB, free: 9.426 MB / 266.7 MB
Notification: Performance of sorting global known variables: time 2.837e-05/0.01764, allocations: 44.12 kB / 306.7 MB, free: 9.406 MB / 266.7 MB
Notification: Performance of sort global known variables: time 5e-08/0.01764, allocations: 0 / 306.7 MB, free: 9.406 MB / 266.7 MB
Notification: Performance of remove unused functions: time 0.0002461/0.01788, allocations: 104.6 kB / 306.8 MB, free: 9.387 MB / 266.7 MB
Notification: Model statistics after passing the back-end for simulation:
 * Number of independent subsystems: 2
 * Number of states: 8 (V,EmptySet.c,C2.n,CP.n,M.n,pM.n,Y.n,YP.n)
 * Number of discrete variables: 0 ()
 * Number of discrete states: 0 ()
 * Number of clocked states: 0 ()
 * Top-level inputs: 0
Notification: Strong component statistics for simulation (42):
 * Single equations (assignments): 42
 * Array equations: 0
 * Algorithm blocks: 0
 * Record equations: 0
 * When equations: 0
 * If-equations: 0
 * Equation systems (not torn): 0
 * Torn equation systems: 0
 * Mixed (continuous/discrete) equation systems: 0
Notification: Performance of Backend phase and start with SimCode phase: time 6.688e-05/0.01795, allocations: 84.55 kB / 306.9 MB, free: 9.312 MB / 266.7 MB
Notification: Performance of simCode: created initialization part: time 0.0002212/0.01817, allocations: 263.5 kB / 307.2 MB, free: 9.234 MB / 266.7 MB
Notification: Performance of simCode: created event and clocks part: time 6.122e-06/0.01818, allocations: 2 kB / 307.2 MB, free: 9.234 MB / 266.7 MB
Notification: Performance of simCode: created simulation system equations: time 7.511e-05/0.01825, allocations: 120 kB / 307.3 MB, free: 9.172 MB / 266.7 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0001906/0.01844, allocations: 54.28 kB / 307.4 MB, free: 9.121 MB / 266.7 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0007581/0.0192, allocations: 0.8317 MB / 308.2 MB, free: 8.262 MB / 266.7 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 4.123e-05/0.01924, allocations: 113 kB / 308.3 MB, free: 8.133 MB / 266.7 MB
Notification: Performance of simCode: alias equations: time 8.94e-05/0.01933, allocations: 38.95 kB / 308.3 MB, free: 8.09 MB / 266.7 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 0.0001247/0.01946, allocations: 107.3 kB / 308.4 MB, free: 7.984 MB / 266.7 MB
Notification: Performance of SimCode: time 6.62e-07/0.01946, allocations: 4 kB / 308.5 MB, free: 7.98 MB / 266.7 MB
Notification: Performance of Templates: time 0.004892/0.02435, allocations: 3.584 MB / 312 MB, free: 4.484 MB / 266.7 MB
"
[Timeout remaining time 660]
make -j1 -f BioChem_BioChem.Examples.CellDivison.cell.makefile [Timeout 660]
(rm -f BioChem_BioChem.Examples.CellDivison.cell.pipe ; mkfifo BioChem_BioChem.Examples.CellDivison.cell.pipe ; head -c 1048576 < BioChem_BioChem.Examples.CellDivison.cell.pipe >> ../files/BioChem_BioChem.Examples.CellDivison.cell.sim & ./BioChem_BioChem.Examples.CellDivison.cell -abortSlowSimulation -alarm=240 -s gbode -gbm=radauIIA3 -lv LOG_STATS > BioChem_BioChem.Examples.CellDivison.cell.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 2.8737818407826126]