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 0.0009403/0.0009403, allocations: 80.81 kB / 19.94 MB, free: 4.539 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 0.001074/0.001074, allocations: 181 kB / 23.36 MB, free: 1.125 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 0.9635/0.9635, allocations: 177.1 MB / 203.8 MB, free: 5.484 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 0.03925/0.03925, allocations: 9.552 MB / 269.8 MB, free: 3.828 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 2.084e-06/2.084e-06, allocations: 0.6562 kB / 290.1 MB, free: 17.92 MB / 266.7 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.82e-05/2.029e-05, allocations: 2.312 kB / 290.1 MB, free: 17.91 MB / 266.7 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.008024/0.008045, allocations: 6.024 MB / 296.1 MB, free: 15.5 MB / 266.7 MB
Notification: Performance of NFInst.instExpressions: time 0.001205/0.009249, allocations: 496.6 kB / 296.6 MB, free: 15.14 MB / 266.7 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0003051/0.009555, allocations: 25.66 kB / 296.6 MB, free: 15.14 MB / 266.7 MB
Notification: Performance of NFTyping.typeComponents: time 0.0002056/0.00976, allocations: 80.77 kB / 296.7 MB, free: 15.07 MB / 266.7 MB
Notification: Performance of NFTyping.typeBindings: time 0.0003471/0.01011, allocations: 117.5 kB / 296.8 MB, free: 14.99 MB / 266.7 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0003106/0.01042, allocations: 104.2 kB / 296.9 MB, free: 14.93 MB / 266.7 MB
Notification: Performance of NFFlatten.flatten: time 0.0004963/0.01091, allocations: 473.6 kB / 297.4 MB, free: 14.69 MB / 266.7 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.0002943/0.01121, allocations: 180.4 kB / 297.6 MB, free: 14.59 MB / 266.7 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.0004104/0.01162, allocations: 293.4 kB / 297.8 MB, free: 14.47 MB / 266.7 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.000256/0.01187, allocations: 163 kB / 298 MB, free: 14.41 MB / 266.7 MB
Notification: Performance of NFPackage.collectConstants: time 8.879e-05/0.01196, allocations: 50.44 kB / 298.1 MB, free: 14.41 MB / 266.7 MB
Notification: Performance of NFFlatten.collectFunctions: time 8.016e-05/0.01204, allocations: 50.12 kB / 298.1 MB, free: 14.41 MB / 266.7 MB
Notification: Performance of NFScalarize.scalarize: time 7.846e-05/0.01212, allocations: 108.2 kB / 298.2 MB, free: 14.34 MB / 266.7 MB
Notification: Performance of NFVerifyModel.verify: time 0.0001914/0.01231, allocations: 173.1 kB / 298.4 MB, free: 14.26 MB / 266.7 MB
Notification: Performance of NFConvertDAE.convert: time 0.0004353/0.01275, allocations: 346.6 kB / 298.7 MB, free: 14.09 MB / 266.7 MB
Notification: Performance of FrontEnd - DAE generated: time 3.757e-06/0.01275, allocations: 0 / 298.7 MB, free: 14.09 MB / 266.7 MB
Notification: Performance of FrontEnd: time 1.252e-06/0.01275, allocations: 0 / 298.7 MB, free: 14.09 MB / 266.7 MB
Notification: Performance of Transformations before backend: time 1.313e-05/0.01277, allocations: 0 / 298.7 MB, free: 14.09 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 0.0007947/0.01356, allocations: 0.6532 MB / 299.4 MB, free: 13.64 MB / 266.7 MB
Notification: Performance of prepare preOptimizeDAE: time 3.56e-05/0.0136, allocations: 8.688 kB / 299.4 MB, free: 13.64 MB / 266.7 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 0.0001223/0.01372, allocations: 80.81 kB / 299.5 MB, free: 13.62 MB / 266.7 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.00012/0.01384, allocations: 164.6 kB / 299.6 MB, free: 13.45 MB / 266.7 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 3.663e-05/0.01388, allocations: 46.25 kB / 299.7 MB, free: 13.43 MB / 266.7 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 7.16e-05/0.01395, allocations: 58 kB / 299.7 MB, free: 13.41 MB / 266.7 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0004756/0.01442, allocations: 406.6 kB / 300.1 MB, free: 13.26 MB / 266.7 MB
Notification: Performance of preOpt findStateOrder (simulation): time 2.135e-05/0.01444, allocations: 7.047 kB / 300.1 MB, free: 13.25 MB / 266.7 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 2.979e-05/0.01447, allocations: 24.72 kB / 300.1 MB, free: 13.23 MB / 266.7 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.521e-05/0.01449, allocations: 17.56 kB / 300.2 MB, free: 13.23 MB / 266.7 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0002419/0.01473, allocations: 152.5 kB / 300.3 MB, free: 13.22 MB / 266.7 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.001697/0.01643, allocations: 1.214 MB / 301.5 MB, free: 12.54 MB / 266.7 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.0003101/0.01674, allocations: 203.5 kB / 301.7 MB, free: 12.47 MB / 266.7 MB
Notification: Performance of preOpt resolveLoops (simulation): time 0.000122/0.01686, allocations: 105.7 kB / 301.8 MB, free: 12.45 MB / 266.7 MB
Notification: Performance of preOpt evalFunc (simulation): time 1.928e-05/0.01688, allocations: 6.703 kB / 301.8 MB, free: 12.45 MB / 266.7 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.177e-05/0.0169, allocations: 39.09 kB / 301.9 MB, free: 12.41 MB / 266.7 MB
Notification: Performance of pre-optimization done (n=35): time 2.424e-06/0.0169, allocations: 0 / 301.9 MB, free: 12.41 MB / 266.7 MB
Notification: Performance of matching and sorting (n=42): time 0.001601/0.01851, allocations: 0.9329 MB / 302.8 MB, free: 12.09 MB / 266.7 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.66e-05/0.01853, allocations: 55.53 kB / 302.9 MB, free: 12.03 MB / 266.7 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0001086/0.01864, allocations: 202.3 kB / 303.1 MB, free: 11.88 MB / 266.7 MB
Notification: Performance of collectPreVariables (initialization): time 1.516e-05/0.01866, allocations: 31.08 kB / 303.1 MB, free: 11.84 MB / 266.7 MB
Notification: Performance of collectInitialEqns (initialization): time 8.591e-05/0.01874, allocations: 283.9 kB / 303.4 MB, free: 11.61 MB / 266.7 MB
Notification: Performance of collectInitialBindings (initialization): time 7.166e-05/0.01881, allocations: 163 kB / 303.5 MB, free: 11.48 MB / 266.7 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 0.0001011/0.01891, allocations: 102.9 kB / 303.6 MB, free: 11.42 MB / 266.7 MB
Notification: Performance of setup shared object (initialization): time 4.289e-05/0.01896, allocations: 341.7 kB / 304 MB, free: 11.09 MB / 266.7 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 8.248e-05/0.01904, allocations: 56.72 kB / 304 MB, free: 11.09 MB / 266.7 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0001528/0.01919, allocations: 243.7 kB / 304.3 MB, free: 10.86 MB / 266.7 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0004338/0.01963, allocations: 438.3 kB / 304.7 MB, free: 10.56 MB / 266.7 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 3.918e-06/0.01963, allocations: 1.406 kB / 304.7 MB, free: 10.56 MB / 266.7 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.0004063/0.02004, allocations: 336.7 kB / 305 MB, free: 10.43 MB / 266.7 MB
Notification: Performance of prepare postOptimizeDAE: time 1.908e-05/0.02006, allocations: 7.406 kB / 305 MB, free: 10.43 MB / 266.7 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 1.003e-05/0.02007, allocations: 6.25 kB / 305 MB, free: 10.43 MB / 266.7 MB
Notification: Performance of postOpt tearingSystem (initialization): time 2.296e-05/0.02009, allocations: 10.88 kB / 305 MB, free: 10.43 MB / 266.7 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0003532/0.02044, allocations: 145 kB / 305.2 MB, free: 10.39 MB / 266.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 1.225e-05/0.02045, allocations: 9.219 kB / 305.2 MB, free: 10.39 MB / 266.7 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 0.0001467/0.0206, allocations: 16.06 kB / 305.2 MB, free: 10.38 MB / 266.7 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 2.473e-05/0.02063, allocations: 30.5 kB / 305.2 MB, free: 10.38 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 0.0001935/0.02082, allocations: 184.5 kB / 305.4 MB, free: 10.21 MB / 266.7 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 5.62e-05/0.02088, allocations: 33.59 kB / 305.4 MB, free: 10.2 MB / 266.7 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 5.022e-05/0.02093, allocations: 38.94 kB / 305.5 MB, free: 10.17 MB / 266.7 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 4.879e-06/0.02093, allocations: 4.562 kB / 305.5 MB, free: 10.17 MB / 266.7 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 5.921e-06/0.02094, allocations: 0 / 305.5 MB, free: 10.17 MB / 266.7 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 5.139e-06/0.02094, allocations: 3.984 kB / 305.5 MB, free: 10.16 MB / 266.7 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0006281/0.02157, allocations: 0.5051 MB / 306 MB, free: 9.855 MB / 266.7 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 3.036e-06/0.02157, allocations: 5.438 kB / 306 MB, free: 9.852 MB / 266.7 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.0002729/0.02185, allocations: 89.22 kB / 306.1 MB, free: 9.828 MB / 266.7 MB
Notification: Performance of postOpt tearingSystem (simulation): time 4.98e-06/0.02185, allocations: 2.594 kB / 306.1 MB, free: 9.828 MB / 266.7 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 2.157e-05/0.02187, allocations: 10.52 kB / 306.1 MB, free: 9.82 MB / 266.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 3.566e-06/0.02188, allocations: 2.375 kB / 306.1 MB, free: 9.82 MB / 266.7 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 2.164e-06/0.02188, allocations: 3.938 kB / 306.1 MB, free: 9.816 MB / 266.7 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0003586/0.02224, allocations: 409.9 kB / 306.5 MB, free: 9.59 MB / 266.7 MB
Notification: Performance of postOpt removeConstants (simulation): time 2.41e-05/0.02226, allocations: 22.89 kB / 306.5 MB, free: 9.578 MB / 266.7 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.957e-05/0.02229, allocations: 11.06 kB / 306.5 MB, free: 9.57 MB / 266.7 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 0.0001047/0.02239, allocations: 9.344 kB / 306.6 MB, free: 9.562 MB / 266.7 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 3.58e-05/0.02243, allocations: 28.27 kB / 306.6 MB, free: 9.547 MB / 266.7 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.407e-05/0.02244, allocations: 8.453 kB / 306.6 MB, free: 9.543 MB / 266.7 MB
Notification: Performance of sorting global known variables: time 4.169e-05/0.02249, allocations: 45.84 kB / 306.6 MB, free: 9.52 MB / 266.7 MB
Notification: Performance of sort global known variables: time 6e-08/0.02249, allocations: 0 / 306.6 MB, free: 9.52 MB / 266.7 MB
Notification: Performance of remove unused functions: time 0.0003814/0.02287, allocations: 101.1 kB / 306.7 MB, free: 9.508 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 9.493e-05/0.02296, allocations: 87.17 kB / 306.8 MB, free: 9.43 MB / 266.7 MB
Notification: Performance of simCode: created initialization part: time 0.0002866/0.02325, allocations: 260.7 kB / 307.1 MB, free: 9.355 MB / 266.7 MB
Notification: Performance of simCode: created event and clocks part: time 7.534e-06/0.02326, allocations: 2.812 kB / 307.1 MB, free: 9.355 MB / 266.7 MB
Notification: Performance of simCode: created simulation system equations: time 9.871e-05/0.02336, allocations: 122.8 kB / 307.2 MB, free: 9.312 MB / 266.7 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.000256/0.02361, allocations: 46.5 kB / 307.2 MB, free: 9.285 MB / 266.7 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0009802/0.02459, allocations: 0.8307 MB / 308.1 MB, free: 8.445 MB / 266.7 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 5.466e-05/0.02465, allocations: 113 kB / 308.2 MB, free: 8.316 MB / 266.7 MB
Notification: Performance of simCode: alias equations: time 0.0001265/0.02477, allocations: 49.05 kB / 308.2 MB, free: 8.266 MB / 266.7 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 0.0001461/0.02492, allocations: 107.3 kB / 308.3 MB, free: 8.16 MB / 266.7 MB
Notification: Performance of SimCode: time 5.61e-07/0.02492, allocations: 0 / 308.3 MB, free: 8.16 MB / 266.7 MB
Notification: Performance of Templates: time 0.006022/0.03094, allocations: 3.591 MB / 311.9 MB, free: 4.648 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  -lv LOG_STATS > BioChem_BioChem.Examples.CellDivison.cell.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 2.8038397021591663]