Running: ./testmodel.py --libraries=/home/hudson/saved_omc/libraries/.openmodelica/libraries --ompython_omhome=/usr Bodylight_Bodylight.Chemical.Examples.TwoConcentrationCompartments.conf.json
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.1.0+maint.om/package.mo", uses=false) [Timeout 180]
"[<interactive>:1:22-1:33:writable] Warning: Modelica only supports 32-bit signed integers! Transforming: 13743895347 into a real
Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.1.0+maint.om/package.mo): time 0.0002844/0.0002844, allocations: 0 / 0, free: 0 / 0
"
[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 0.0003231/0.0003231, allocations: 0 / 0, free: 0 / 0
"
[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 0.1459/0.1459, allocations: 0 / 0, free: 0 / 0
"
[Timeout remaining time 180]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/package.mo): time 0.004166/0.004166, allocations: 0 / 0, free: 0 / 0
"
[Timeout remaining time 180]
Using package Bodylight with version 1.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/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: simulate(Bodylight.Chemical.Examples.TwoConcentrationCompartments,startTime=0,stopTime=20,tolerance=1e-06,numberOfIntervals=2500,outputFormat="empty",variableFilter="",fileNamePrefix="Bodylight_Bodylight.Chemical.Examples.TwoConcentrationCompartments",simflags="-abortSlowSimulation -alarm=240   -lv LOG_STATS")
simulate(Bodylight.Chemical.Examples.TwoConcentrationCompartments,startTime=0,stopTime=20,tolerance=1e-06,numberOfIntervals=2500,outputFormat="empty",variableFilter="",fileNamePrefix="Bodylight_Bodylight.Chemical.Examples.TwoConcentrationCompartments",simflags="-abortSlowSimulation -alarm=240   -lv LOG_STATS") [Timeout 900]
"Notification: Performance of FrontEnd - loaded program: time 1.442e-06/1.442e-06, allocations: 0 / 0, free: 0 / 0
Notification: Performance of FrontEnd - Absyn->SCode: time 2.539e-05/2.683e-05, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFInst.instantiate(Bodylight.Chemical.Examples.TwoConcentrationCompartments): time 0.004776/0.004803, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFInst.instExpressions: time 0.005426/0.01023, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFInst.updateImplicitVariability: time 0.0002172/0.01045, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFTyping.typeComponents: time 0.0002098/0.01066, allocations: 0 / 0, free: 0 / 0
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:6207:6-6223:18:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance.Utilities.UnitConversions.findUnit' contains a call to impure function 'Modelica.Utilities.Streams.print'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5637:15-5729:17:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance.Utilities.readReal' contains a call to impure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance.Utilities.UnitConversions.findUnit'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:6207:6-6223:18:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance1.Utilities.UnitConversions.findUnit' contains a call to impure function 'Modelica.Utilities.Streams.print'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5637:15-5729:17:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance1.Utilities.readReal' contains a call to impure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance1.Utilities.UnitConversions.findUnit'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Hydraulic.mo:1482:17-1484:29:writable] Warning: In relation resistor.Resistance == 0.0, == on Real operands is deprecated in non-function contexts.
Notification: Performance of NFTyping.typeBindings: time 0.001435/0.01209, allocations: 0 / 0, free: 0 / 0
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5783:15-5804:18:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance.Utilities.writeReal' contains a call to impure function 'Modelica.Utilities.Files.createDirectory'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5845:15-5881:24:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance.Utilities.writeComparison' contains a call to impure function 'Modelica.Utilities.Files.createDirectory'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5783:15-5804:18:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance1.Utilities.writeReal' contains a call to impure function 'Modelica.Utilities.Files.createDirectory'.
[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Bodylight 1.1.0/Types.mo:5845:15-5881:24:writable] Warning: Pure function 'Bodylight.Chemical.Examples.TwoConcentrationCompartments.substance1.Utilities.writeComparison' contains a call to impure function 'Modelica.Utilities.Files.createDirectory'.
Notification: Performance of NFTyping.typeClassSections: time 0.001031/0.01312, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFFlatten.flatten: time 0.005047/0.01817, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFFlatten.resolveConnections: time 0.0001427/0.01831, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFEvalConstants.evaluate: time 0.005908/0.02422, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFSimplifyModel.simplify: time 0.005567/0.02979, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFPackage.collectConstants: time 0.0004738/0.03026, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFFlatten.collectFunctions: time 0.0003466/0.03061, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFScalarize.scalarize: time 0.001082/0.03169, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFVerifyModel.verify: time 0.001022/0.03271, allocations: 0 / 0, free: 0 / 0
Notification: Performance of NFConvertDAE.convert: time 0.002637/0.03535, allocations: 0 / 0, free: 0 / 0
Notification: Performance of FrontEnd - DAE generated: time 0.0003827/0.03573, allocations: 0 / 0, free: 0 / 0
Notification: Performance of FrontEnd: time 2.946e-06/0.03573, allocations: 0 / 0, free: 0 / 0
Notification: Performance of Transformations before backend: time 1.261e-05/0.03575, allocations: 0 / 0, free: 0 / 0
Notification: Model statistics after passing the front-end and creating the data structures used by the back-end:
 * Number of equations: 164
 * Number of variables: 164
Notification: Performance of Generate backend data structure: time 0.009409/0.04516, allocations: 0 / 0, free: 0 / 0
Notification: Performance of prepare preOptimizeDAE: time 0.0001096/0.04527, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt normalInlineFunction (simulation): time 0.0005383/0.0458, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt evaluateParameters (simulation): time 0.001393/0.0472, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt simplifyIfEquations (simulation): time 0.0005549/0.04775, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt expandDerOperator (simulation): time 0.0004772/0.04823, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt clockPartitioning (simulation): time 0.002497/0.05073, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt findStateOrder (simulation): time 2.171e-05/0.05075, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt replaceEdgeChange (simulation): time 0.0002401/0.05099, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.612e-05/0.051, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0009709/0.05197, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.01211/0.06408, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt comSubExp (simulation): time 0.001158/0.06524, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt resolveLoops (simulation): time 0.001008/0.06625, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt evalFunc (simulation): time 0.000108/0.06636, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 0.002015/0.06837, allocations: 0 / 0, free: 0 / 0
Notification: Performance of pre-optimization done (n=123): time 9.758e-06/0.06838, allocations: 0 / 0, free: 0 / 0
Notification: Performance of matching and sorting (n=123): time 0.003729/0.07211, allocations: 0 / 0, free: 0 / 0
Notification: Performance of inlineWhenForInitialization (initialization): time 4.405e-05/0.07216, allocations: 0 / 0, free: 0 / 0
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0003742/0.07253, allocations: 0 / 0, free: 0 / 0
Notification: Performance of collectPreVariables (initialization): time 0.000474/0.073, allocations: 0 / 0, free: 0 / 0
Notification: Performance of collectInitialEqns (initialization): time 0.0001675/0.07317, allocations: 0 / 0, free: 0 / 0
Notification: Performance of collectInitialBindings (initialization): time 0.0006029/0.07378, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simplifyInitialFunctions (initialization): time 0.001118/0.07489, allocations: 0 / 0, free: 0 / 0
Notification: Performance of setup shared object (initialization): time 4.059e-05/0.07493, allocations: 0 / 0, free: 0 / 0
Notification: Performance of preBalanceInitialSystem (initialization): time 0.001131/0.07606, allocations: 0 / 0, free: 0 / 0
Notification: Performance of partitionIndependentBlocks (initialization): time 0.001167/0.07723, allocations: 0 / 0, free: 0 / 0
Notification: Performance of analyzeInitialSystem (initialization): time 0.004096/0.08133, allocations: 0 / 0, free: 0 / 0
Notification: Performance of solveInitialSystemEqSystem (initialization): time 1.406e-05/0.08134, allocations: 0 / 0, free: 0 / 0
Notification: Performance of matching and sorting (n=237) (initialization): time 0.006219/0.08756, allocations: 0 / 0, free: 0 / 0
Notification: Performance of prepare postOptimizeDAE: time 4.484e-05/0.0876, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 1.443e-05/0.08762, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt tearingSystem (initialization): time 3.002e-05/0.08765, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.08494/0.1726, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 4.253e-05/0.1726, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 0.003471/0.1761, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 0.0009979/0.1771, allocations: 0 / 0, free: 0 / 0
Warning: Assuming fixed start value for the following 1 variables:
         inertia.q_in.q:VARIABLE(flow=true start = advectionStream.SolutionFlow unit = \"m3/s\" fixed = true nominal = 1.6666666666666667e-8 )  \"Volume flow\" type: Real
Notification: Model statistics after passing the back-end for initialization:
 * Number of independent subsystems: 6
 * Number of states: 0 ()
 * Number of discrete variables: 5 (pulse.count,$PRE.pulse.count,pulse.T_start,$PRE.pulse.T_start,$whenCondition1)
 * Number of discrete states: 0 ()
 * Number of clocked states: 0 ()
 * Top-level inputs: 0
Notification: Strong component statistics for initialization (236):
 * Single equations (assignments): 235
 * Array equations: 0
 * Algorithm blocks: 1
 * 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 0.00186/0.179, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt lateInlineFunction (simulation): time 0.0005408/0.1795, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 0.003843/0.1833, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt inlineArrayEqn (simulation): time 1.783e-05/0.1834, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt constantLinearSystem (simulation): time 9.548e-06/0.1834, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifysemiLinear (simulation): time 1.471e-05/0.1834, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.003525/0.1869, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 9.948e-06/0.1869, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.05674/0.2437, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt tearingSystem (simulation): time 1.585e-05/0.2437, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 0.001197/0.2449, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 1.689e-05/0.2449, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 3.577e-06/0.2449, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.004512/0.2494, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt removeConstants (simulation): time 0.00101/0.2504, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 0.000706/0.2511, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 0.001734/0.2528, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt findZeroCrossings (simulation): time 0.001109/0.254, allocations: 0 / 0, free: 0 / 0
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 0.0002847/0.2542, allocations: 0 / 0, free: 0 / 0
Notification: Performance of sorting global known variables: time 0.0002837/0.2545, allocations: 0 / 0, free: 0 / 0
Notification: Performance of sort global known variables: time 1.738e-05/0.2545, allocations: 0 / 0, free: 0 / 0
Notification: Performance of remove unused functions: time 0.001509/0.2561, allocations: 0 / 0, free: 0 / 0
Notification: Model statistics after passing the back-end for simulation:
 * Number of independent subsystems: 2
 * Number of states: 103 (substance.state,substance1.state,advectionStream.c[2],advectionStream.c[3],advectionStream.c[4],advectionStream.c[5],advectionStream.c[6],advectionStream.c[7],advectionStream.c[8],advectionStream.c[9],advectionStream.c[10],advectionStream.c[11],advectionStream.c[12],advectionStream.c[13],advectionStream.c[14],advectionStream.c[15],advectionStream.c[16],advectionStream.c[17],advectionStream.c[18],advectionStream.c[19],advectionStream.c[20],advectionStream.c[21],advectionStream.c[22],advectionStream.c[23],advectionStream.c[24],advectionStream.c[25],advectionStream.c[26],advectionStream.c[27],advectionStream.c[28],advectionStream.c[29],advectionStream.c[30],advectionStream.c[31],advectionStream.c[32],advectionStream.c[33],advectionStream.c[34],advectionStream.c[35],advectionStream.c[36],advectionStream.c[37],advectionStream.c[38],advectionStream.c[39],advectionStream.c[40],advectionStream.c[41],advectionStream.c[42],advectionStream.c[43],advectionStream.c[44],advectionStream.c[45],advectionStream.c[46],advectionStream.c[47],advectionStream.c[48],advectionStream.c[49],advectionStream.c[50],advectionStream.c[51],advectionStream.c[52],advectionStream.c[53],advectionStream.c[54],advectionStream.c[55],advectionStream.c[56],advectionStream.c[57],advectionStream.c[58],advectionStream.c[59],advectionStream.c[60],advectionStream.c[61],advectionStream.c[62],advectionStream.c[63],advectionStream.c[64],advectionStream.c[65],advectionStream.c[66],advectionStream.c[67],advectionStream.c[68],advectionStream.c[69],advectionStream.c[70],advectionStream.c[71],advectionStream.c[72],advectionStream.c[73],advectionStream.c[74],advectionStream.c[75],advectionStream.c[76],advectionStream.c[77],advectionStream.c[78],advectionStream.c[79],advectionStream.c[80],advectionStream.c[81],advectionStream.c[82],advectionStream.c[83],advectionStream.c[84],advectionStream.c[85],advectionStream.c[86],advectionStream.c[87],advectionStream.c[88],advectionStream.c[89],advectionStream.c[90],advectionStream.c[91],advectionStream.c[92],advectionStream.c[93],advectionStream.c[94],advectionStream.c[95],advectionStream.c[96],advectionStream.c[97],advectionStream.c[98],advectionStream.c[99],elasticVessel.volume,elasticVessel1.volume,inertia.q_in.q)
 * Number of discrete variables: 3 ($whenCondition1,pulse.T_start,pulse.count)
 * Number of discrete states: 1 (pulse.count)
 * Number of clocked states: 0 ()
 * Top-level inputs: 0
Notification: Strong component statistics for simulation (123):
 * Single equations (assignments): 121
 * Array equations: 0
 * Algorithm blocks: 0
 * Record equations: 0
 * When equations: 2
 * 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 0.0007285/0.2568, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: created initialization part: time 0.002961/0.2597, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: created event and clocks part: time 3.635e-05/0.2598, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: created simulation system equations: time 0.00134/0.2611, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.001815/0.2629, allocations: 0 / 0, free: 0 / 0
Error: Error parsing unit kcal: Unit not found
Error: Error parsing unit kcal/mol: Unit not found
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.00606/0.269, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: some other stuff during SimCode phase: time 0.0003216/0.2693, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: alias equations: time 0.002812/0.2721, allocations: 0 / 0, free: 0 / 0
Notification: Performance of simCode: all other stuff during SimCode phase: time 0.003542/0.2757, allocations: 0 / 0, free: 0 / 0
Notification: Performance of SimCode: time 0.0001681/0.2758, allocations: 0 / 0, free: 0 / 0
Error: Error parsing unit kcal: Unit not found
Error: Error parsing unit kcal/mol: Unit not found
Notification: Performance of Templates: time 0.01039/0.2862, allocations: 0 / 0, free: 0 / 0
"
[Timeout remaining time 900]
[Calling sys.exit(0), Time elapsed: 1.1837674919515848]