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 0.001023/0.001023, allocations: 81.95 kB / 19.87 MB, free: 4.617 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 0.001146/0.001146, allocations: 173.7 kB / 23.28 MB, free: 1.219 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 0.9981/0.9981, allocations: 177.1 MB / 203.7 MB, free: 5.5 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 0.06425/0.06425, allocations: 9.553 MB / 269.8 MB, free: 3.785 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 1.893e-06/1.893e-06, allocations: 0 / 343.3 MB, free: 6.445 MB / 266.7 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.199e-05/1.389e-05, allocations: 2.312 kB / 343.3 MB, free: 6.441 MB / 266.7 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.004436/0.00445, allocations: 6.005 MB / 349.3 MB, free: 424 kB / 266.7 MB
Notification: Performance of NFInst.instExpressions: time 0.0003186/0.004768, allocations: 470.8 kB / 349.8 MB, free: 15.95 MB / 282.7 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0001165/0.004885, allocations: 28 kB / 349.8 MB, free: 15.93 MB / 282.7 MB
Notification: Performance of NFTyping.typeComponents: time 0.000104/0.004989, allocations: 83.33 kB / 349.9 MB, free: 15.84 MB / 282.7 MB
Notification: Performance of NFTyping.typeBindings: time 0.0001859/0.005175, allocations: 122.7 kB / 350 MB, free: 15.72 MB / 282.7 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0001751/0.00535, allocations: 99.83 kB / 350.1 MB, free: 15.62 MB / 282.7 MB
Notification: Performance of NFFlatten.flatten: time 0.0002998/0.005649, allocations: 470.4 kB / 350.6 MB, free: 15.16 MB / 282.7 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.0002362/0.005886, allocations: 174.4 kB / 350.8 MB, free: 14.99 MB / 282.7 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.0002115/0.006097, allocations: 291.5 kB / 351 MB, free: 14.7 MB / 282.7 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.0001701/0.006267, allocations: 159.5 kB / 351.2 MB, free: 14.55 MB / 282.7 MB
Notification: Performance of NFPackage.collectConstants: time 5.461e-05/0.006322, allocations: 55.94 kB / 351.3 MB, free: 14.49 MB / 282.7 MB
Notification: Performance of NFFlatten.collectFunctions: time 4.821e-05/0.00637, allocations: 52 kB / 351.3 MB, free: 14.44 MB / 282.7 MB
Notification: Performance of NFScalarize.scalarize: time 5.889e-05/0.006429, allocations: 111.6 kB / 351.4 MB, free: 14.33 MB / 282.7 MB
Notification: Performance of NFVerifyModel.verify: time 9.904e-05/0.006528, allocations: 163.6 kB / 351.6 MB, free: 14.17 MB / 282.7 MB
Notification: Performance of NFConvertDAE.convert: time 0.0002605/0.006789, allocations: 350.6 kB / 351.9 MB, free: 13.83 MB / 282.7 MB
Notification: Performance of FrontEnd - DAE generated: time 1.954e-06/0.006791, allocations: 0 / 351.9 MB, free: 13.83 MB / 282.7 MB
Notification: Performance of FrontEnd: time 6.31e-07/0.006791, allocations: 0 / 351.9 MB, free: 13.83 MB / 282.7 MB
Notification: Performance of Transformations before backend: time 4.188e-06/0.006795, allocations: 0 / 351.9 MB, free: 13.83 MB / 282.7 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 0.0006775/0.007473, allocations: 0.777 MB / 352.7 MB, free: 13.01 MB / 282.7 MB
Notification: Performance of prepare preOptimizeDAE: time 3.907e-05/0.007512, allocations: 8.031 kB / 352.7 MB, free: 13 MB / 282.7 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 9.005e-05/0.007602, allocations: 104.6 kB / 352.8 MB, free: 12.9 MB / 282.7 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001256/0.007728, allocations: 160 kB / 353 MB, free: 12.71 MB / 282.7 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 2.7e-05/0.007755, allocations: 41.69 kB / 353 MB, free: 12.68 MB / 282.7 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 5.517e-05/0.00781, allocations: 60.38 kB / 353.1 MB, free: 12.62 MB / 282.7 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0003932/0.008203, allocations: 400.6 kB / 353.5 MB, free: 12.21 MB / 282.7 MB
Notification: Performance of preOpt findStateOrder (simulation): time 1.879e-05/0.008222, allocations: 4.188 kB / 353.5 MB, free: 12.2 MB / 282.7 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 3.629e-05/0.008258, allocations: 28.31 kB / 353.5 MB, free: 12.18 MB / 282.7 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.504e-05/0.008273, allocations: 16.38 kB / 353.5 MB, free: 12.16 MB / 282.7 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0001847/0.008458, allocations: 169 kB / 353.7 MB, free: 11.99 MB / 282.7 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.001384/0.009842, allocations: 1.498 MB / 355.2 MB, free: 10.45 MB / 282.7 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.0002364/0.01008, allocations: 214.9 kB / 355.4 MB, free: 10.23 MB / 282.7 MB
Notification: Performance of preOpt resolveLoops (simulation): time 9.454e-05/0.01017, allocations: 124 kB / 355.5 MB, free: 10.1 MB / 282.7 MB
Notification: Performance of preOpt evalFunc (simulation): time 1.133e-05/0.01018, allocations: 8.594 kB / 355.5 MB, free: 10.09 MB / 282.7 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.166e-05/0.01021, allocations: 37.39 kB / 355.5 MB, free: 10.05 MB / 282.7 MB
Notification: Performance of pre-optimization done (n=35): time 1.503e-06/0.01021, allocations: 0 / 355.5 MB, free: 10.05 MB / 282.7 MB
Notification: Performance of matching and sorting (n=42): time 0.001292/0.0115, allocations: 0.9602 MB / 356.5 MB, free: 9.051 MB / 282.7 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.408e-05/0.01152, allocations: 55.41 kB / 356.6 MB, free: 8.984 MB / 282.7 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0001081/0.01163, allocations: 259.2 kB / 356.8 MB, free: 8.711 MB / 282.7 MB
Notification: Performance of collectPreVariables (initialization): time 1.732e-05/0.01165, allocations: 33.7 kB / 356.8 MB, free: 8.672 MB / 282.7 MB
Notification: Performance of collectInitialEqns (initialization): time 0.0001133/0.01176, allocations: 331.1 kB / 357.2 MB, free: 8.34 MB / 282.7 MB
Notification: Performance of collectInitialBindings (initialization): time 7.224e-05/0.01183, allocations: 166.6 kB / 357.3 MB, free: 8.176 MB / 282.7 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 7.808e-05/0.01191, allocations: 103.9 kB / 357.4 MB, free: 8.066 MB / 282.7 MB
Notification: Performance of setup shared object (initialization): time 0.000109/0.01202, allocations: 0.5195 MB / 357.9 MB, free: 7.535 MB / 282.7 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 6.17e-05/0.01208, allocations: 69.25 kB / 358 MB, free: 7.469 MB / 282.7 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0001567/0.01224, allocations: 310.6 kB / 358.3 MB, free: 7.059 MB / 282.7 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0003344/0.01257, allocations: 0.5132 MB / 358.8 MB, free: 6.434 MB / 282.7 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 3.086e-06/0.01258, allocations: 4 kB / 358.8 MB, free: 6.43 MB / 282.7 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.0005901/0.01317, allocations: 421 kB / 359.2 MB, free: 6.016 MB / 282.7 MB
Notification: Performance of prepare postOptimizeDAE: time 1.254e-05/0.01318, allocations: 8 kB / 359.3 MB, free: 6.008 MB / 282.7 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 6.873e-06/0.01319, allocations: 4 kB / 359.3 MB, free: 6.004 MB / 282.7 MB
Notification: Performance of postOpt tearingSystem (initialization): time 1.423e-05/0.0132, allocations: 8 kB / 359.3 MB, free: 5.996 MB / 282.7 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0002415/0.01344, allocations: 139.8 kB / 359.4 MB, free: 5.859 MB / 282.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 8.265e-06/0.01345, allocations: 16.52 kB / 359.4 MB, free: 5.844 MB / 282.7 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 9.22e-05/0.01354, allocations: 31.88 kB / 359.5 MB, free: 5.812 MB / 282.7 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 1.528e-05/0.01356, allocations: 16 kB / 359.5 MB, free: 5.797 MB / 282.7 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 0.0001549/0.01371, allocations: 230.1 kB / 359.7 MB, free: 5.566 MB / 282.7 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 3.978e-05/0.01375, allocations: 39.81 kB / 359.7 MB, free: 5.527 MB / 282.7 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 4.931e-05/0.0138, allocations: 46.98 kB / 359.8 MB, free: 5.484 MB / 282.7 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 2.856e-06/0.01381, allocations: 4 kB / 359.8 MB, free: 5.48 MB / 282.7 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 1.363e-06/0.01381, allocations: 0 / 359.8 MB, free: 5.48 MB / 282.7 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 3.597e-06/0.01381, allocations: 0 / 359.8 MB, free: 5.48 MB / 282.7 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0005437/0.01435, allocations: 0.6691 MB / 360.5 MB, free: 4.773 MB / 282.7 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.523e-06/0.01436, allocations: 0 / 360.5 MB, free: 4.773 MB / 282.7 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.000194/0.01455, allocations: 87.88 kB / 360.5 MB, free: 4.688 MB / 282.7 MB
Notification: Performance of postOpt tearingSystem (simulation): time 3.777e-06/0.01455, allocations: 4 kB / 360.5 MB, free: 4.684 MB / 282.7 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.354e-05/0.01457, allocations: 8 kB / 360.5 MB, free: 4.676 MB / 282.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 1.793e-06/0.01457, allocations: 0 / 360.5 MB, free: 4.676 MB / 282.7 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 1.683e-06/0.01457, allocations: 3.938 kB / 360.6 MB, free: 4.672 MB / 282.7 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0003446/0.01491, allocations: 0.5126 MB / 361.1 MB, free: 4.137 MB / 282.7 MB
Notification: Performance of postOpt removeConstants (simulation): time 1.674e-05/0.01493, allocations: 19.86 kB / 361.1 MB, free: 4.117 MB / 282.7 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.625e-05/0.01496, allocations: 16.02 kB / 361.1 MB, free: 4.102 MB / 282.7 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 7.269e-05/0.01503, allocations: 11.94 kB / 361.1 MB, free: 4.09 MB / 282.7 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 2.648e-05/0.01506, allocations: 23.95 kB / 361.1 MB, free: 4.066 MB / 282.7 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.15e-05/0.01507, allocations: 11.98 kB / 361.1 MB, free: 4.055 MB / 282.7 MB
Notification: Performance of sorting global known variables: time 4.781e-05/0.01512, allocations: 157.1 kB / 361.3 MB, free: 3.902 MB / 282.7 MB
Notification: Performance of sort global known variables: time 5e-08/0.01512, allocations: 0 / 361.3 MB, free: 3.902 MB / 282.7 MB
Notification: Performance of remove unused functions: time 0.0002356/0.01535, allocations: 104 kB / 361.4 MB, free: 3.801 MB / 282.7 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 7.464e-05/0.01543, allocations: 99.19 kB / 361.5 MB, free: 3.695 MB / 282.7 MB
Notification: Performance of simCode: created initialization part: time 0.0003224/0.01575, allocations: 283.3 kB / 361.8 MB, free: 3.41 MB / 282.7 MB
Notification: Performance of simCode: created event and clocks part: time 1.422e-06/0.01575, allocations: 0 / 361.8 MB, free: 3.41 MB / 282.7 MB
Notification: Performance of simCode: created simulation system equations: time 9.643e-05/0.01585, allocations: 127.6 kB / 361.9 MB, free: 3.281 MB / 282.7 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0002256/0.01607, allocations: 53.53 kB / 362 MB, free: 3.23 MB / 282.7 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0009123/0.01698, allocations: 0.9801 MB / 362.9 MB, free: 2.215 MB / 282.7 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 5.549e-05/0.01704, allocations: 109.1 kB / 363 MB, free: 2.086 MB / 282.7 MB
Notification: Performance of simCode: alias equations: time 8.485e-05/0.01713, allocations: 38.95 kB / 363.1 MB, free: 2.043 MB / 282.7 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 0.00014/0.01727, allocations: 138.2 kB / 363.2 MB, free: 1.906 MB / 282.7 MB
Notification: Performance of SimCode: time 7.12e-07/0.01727, allocations: 0 / 363.2 MB, free: 1.906 MB / 282.7 MB
Notification: Performance of Templates: time 0.005419/0.02269, allocations: 3.584 MB / 366.8 MB, free: 14.38 MB / 298.7 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  -lv LOG_STATS > BioChem_BioChem.Examples.CellDivison.cell.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 2.7946776119060814]