Running: ./testmodel.py --libraries=/home/hudson/saved_omc/libraries/.openmodelica/libraries --ompython_omhome=/usr Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.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 0.001366/0.001366, allocations: 92.2 kB / 20.19 MB, free: 4.359 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 0.001518/0.001518, allocations: 169 kB / 23.49 MB, free: 1.062 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 0.964/0.964, allocations: 177.1 MB / 203.8 MB, free: 5.621 MB / 186.7 MB
"
[Timeout remaining time 179]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Pharmacolibrary 25.9.0/package.mo", uses=false) [Timeout 180]
"[/home/hudson/saved_omc/libraries/.openmodelica/libraries/Pharmacolibrary 25.9.0/Examples/package.order:0:0-0:0:readonly] Warning: The package.order file does not list all .mo files and directories (containing package.mo) present in its directory.
Missing names are:
	Paracetamol_Experiment
Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Pharmacolibrary 25.9.0/package.mo): time 1.598/1.598, allocations: 273.5 MB / 0.5213 GB, free: 14.8 MB / 458.7 MB
"
[Timeout remaining time 178]
Using package Pharmacolibrary with version 25.09 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Pharmacolibrary 25.9.0/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: translateModel(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1,tolerance=1e-06,outputFormat="empty",numberOfIntervals=500,variableFilter="",fileNamePrefix="Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1")
translateModel(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1,tolerance=1e-06,outputFormat="empty",numberOfIntervals=500,variableFilter="",fileNamePrefix="Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1") [Timeout 660]
"Notification: Performance of FrontEnd - loaded program: time 1.913e-06/1.913e-06, allocations: 3.328 kB / 0.6462 GB, free: 38.95 MB / 0.5262 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.139e-05/1.331e-05, allocations: 3.562 kB / 0.6462 GB, free: 38.95 MB / 0.5262 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.0008637/0.000877, allocations: 0.526 MB / 0.6467 GB, free: 38.66 MB / 0.5262 GB
Notification: Performance of NFInst.instExpressions: time 0.0001134/0.0009904, allocations: 23.73 kB / 0.6467 GB, free: 38.65 MB / 0.5262 GB
Notification: Performance of NFInst.updateImplicitVariability: time 2.202e-05/0.001012, allocations: 0 / 0.6467 GB, free: 38.65 MB / 0.5262 GB
Notification: Performance of NFTyping.typeComponents: time 1.273e-05/0.001025, allocations: 0 / 0.6467 GB, free: 38.65 MB / 0.5262 GB
Notification: Performance of NFTyping.typeBindings: time 3.376e-05/0.001059, allocations: 8.047 kB / 0.6467 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFTyping.typeClassSections: time 8.417e-05/0.001143, allocations: 5.062 kB / 0.6467 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFFlatten.flatten: time 4.789e-05/0.001191, allocations: 22.27 kB / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFFlatten.resolveConnections: time 3.185e-05/0.001223, allocations: 2.312 kB / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFEvalConstants.evaluate: time 3.089e-05/0.001254, allocations: 9.781 kB / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFSimplifyModel.simplify: time 5.314e-05/0.001307, allocations: 9.234 kB / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFPackage.collectConstants: time 1.578e-05/0.001323, allocations: 1.844 kB / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFFlatten.collectFunctions: time 7.534e-06/0.00133, allocations: 0 / 0.6468 GB, free: 38.64 MB / 0.5262 GB
Notification: Performance of NFScalarize.scalarize: time 1.283e-05/0.001343, allocations: 7.766 kB / 0.6468 GB, free: 38.63 MB / 0.5262 GB
Notification: Performance of NFVerifyModel.verify: time 2.005e-05/0.001363, allocations: 2.438 kB / 0.6468 GB, free: 38.63 MB / 0.5262 GB
Notification: Performance of NFConvertDAE.convert: time 5.203e-05/0.001415, allocations: 20.38 kB / 0.6468 GB, free: 38.62 MB / 0.5262 GB
Notification: Performance of FrontEnd - DAE generated: time 1.413e-06/0.001416, allocations: 1.562 kB / 0.6468 GB, free: 38.62 MB / 0.5262 GB
Notification: Performance of FrontEnd: time 4.21e-07/0.001417, allocations: 0 / 0.6468 GB, free: 38.62 MB / 0.5262 GB
Notification: Performance of Transformations before backend: time 3.406e-06/0.00142, allocations: 1.25 kB / 0.6468 GB, free: 38.62 MB / 0.5262 GB
Notification: Model statistics after passing the front-end and creating the data structures used by the back-end:
 * Number of equations: 3
 * Number of variables: 3
Notification: Performance of Generate backend data structure: time 0.0002561/0.001676, allocations: 362.4 kB / 0.6472 GB, free: 38.25 MB / 0.5262 GB
Notification: Performance of prepare preOptimizeDAE: time 3.651e-05/0.001713, allocations: 9.844 kB / 0.6472 GB, free: 38.25 MB / 0.5262 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 4.482e-05/0.001758, allocations: 5.156 kB / 0.6472 GB, free: 38.25 MB / 0.5262 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 5.803e-05/0.001816, allocations: 113.4 kB / 0.6473 GB, free: 38.12 MB / 0.5262 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 8.306e-06/0.001824, allocations: 1.578 kB / 0.6473 GB, free: 38.12 MB / 0.5262 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 1.839e-05/0.001842, allocations: 8.266 kB / 0.6473 GB, free: 38.11 MB / 0.5262 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 6.524e-05/0.001908, allocations: 36.58 kB / 0.6473 GB, free: 38.08 MB / 0.5262 GB
Notification: Performance of preOpt findStateOrder (simulation): time 5.471e-06/0.001913, allocations: 1.469 kB / 0.6473 GB, free: 38.08 MB / 0.5262 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 7.865e-06/0.001921, allocations: 4.375 kB / 0.6473 GB, free: 38.08 MB / 0.5262 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 5.411e-06/0.001926, allocations: 384 / 0.6473 GB, free: 38.08 MB / 0.5262 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 1.534e-05/0.001942, allocations: 15.36 kB / 0.6474 GB, free: 38.07 MB / 0.5262 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 8.557e-05/0.002027, allocations: 116.3 kB / 0.6475 GB, free: 37.93 MB / 0.5262 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0002137/0.002241, allocations: 69.08 kB / 0.6475 GB, free: 37.89 MB / 0.5262 GB
Notification: Performance of preOpt resolveLoops (simulation): time 1.552e-05/0.002257, allocations: 14.42 kB / 0.6475 GB, free: 37.88 MB / 0.5262 GB
Notification: Performance of preOpt evalFunc (simulation): time 7.444e-06/0.002264, allocations: 3.438 kB / 0.6475 GB, free: 37.88 MB / 0.5262 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 1.329e-05/0.002277, allocations: 36.2 kB / 0.6476 GB, free: 37.83 MB / 0.5262 GB
Notification: Performance of pre-optimization done (n=3): time 1.222e-06/0.002279, allocations: 3.188 kB / 0.6476 GB, free: 37.83 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=3): time 0.0001063/0.002385, allocations: 50.92 kB / 0.6476 GB, free: 37.8 MB / 0.5262 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 1.862e-05/0.002403, allocations: 54.19 kB / 0.6477 GB, free: 37.73 MB / 0.5262 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 4.057e-05/0.002444, allocations: 165.2 kB / 0.6478 GB, free: 37.56 MB / 0.5262 GB
Notification: Performance of collectPreVariables (initialization): time 6.182e-06/0.00245, allocations: 29.52 kB / 0.6479 GB, free: 37.53 MB / 0.5262 GB
Notification: Performance of collectInitialEqns (initialization): time 1.669e-05/0.002467, allocations: 130.9 kB / 0.648 GB, free: 37.4 MB / 0.5262 GB
Notification: Performance of collectInitialBindings (initialization): time 2.153e-05/0.002488, allocations: 24.5 kB / 0.648 GB, free: 37.38 MB / 0.5262 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 1.979e-05/0.002508, allocations: 22.16 kB / 0.648 GB, free: 37.36 MB / 0.5262 GB
Notification: Performance of setup shared object (initialization): time 4.75e-05/0.002556, allocations: 492.1 kB / 0.6485 GB, free: 36.86 MB / 0.5262 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 1.121e-05/0.002567, allocations: 8.266 kB / 0.6485 GB, free: 36.86 MB / 0.5262 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 9.137e-06/0.002576, allocations: 6.906 kB / 0.6485 GB, free: 36.86 MB / 0.5262 GB
Notification: Performance of analyzeInitialSystem (initialization): time 4.718e-05/0.002623, allocations: 36.59 kB / 0.6486 GB, free: 36.84 MB / 0.5262 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 1.283e-06/0.002625, allocations: 1.719 kB / 0.6486 GB, free: 36.84 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 5.751e-05/0.002682, allocations: 57.12 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of prepare postOptimizeDAE: time 1.074e-05/0.002693, allocations: 9.062 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 3.607e-06/0.002696, allocations: 5.25 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.187e-05/0.002708, allocations: 3.281 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 3.273e-05/0.002741, allocations: 8.281 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 4.479e-06/0.002745, allocations: 3.938 kB / 0.6486 GB, free: 36.8 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 1.233e-05/0.002758, allocations: 7.938 kB / 0.6487 GB, free: 36.79 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 4.92e-06/0.002763, allocations: 0 / 0.6487 GB, free: 36.79 MB / 0.5262 GB
Warning: Assuming fixed start value for the following 3 variables:
         V:VARIABLE(start = 10.0 fixed = true )  \"count of viral particles\" type: Real
         I:VARIABLE(start = 0.0 fixed = true )  \"count of infectious cells\" type: Real
         T:VARIABLE(start = 1e6 fixed = true )  \"count of target(susceptible) cells\" type: Real
Notification: Model statistics after passing the back-end for initialization:
 * Number of independent subsystems: 1
 * 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 (6):
 * Single equations (assignments): 6
 * 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 7.407e-05/0.002837, allocations: 157.2 kB / 0.6488 GB, free: 36.63 MB / 0.5262 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 6.562e-06/0.002843, allocations: 8.109 kB / 0.6488 GB, free: 36.63 MB / 0.5262 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 1.823e-05/0.002862, allocations: 7.688 kB / 0.6488 GB, free: 36.62 MB / 0.5262 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 1.593e-06/0.002863, allocations: 1.469 kB / 0.6488 GB, free: 36.62 MB / 0.5262 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 2.524e-06/0.002866, allocations: 3.906 kB / 0.6488 GB, free: 36.62 MB / 0.5262 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 2.575e-06/0.002868, allocations: 3.938 kB / 0.6488 GB, free: 36.61 MB / 0.5262 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 3.992e-05/0.002908, allocations: 116.7 kB / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 9.92e-07/0.002909, allocations: 1.281 kB / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 3.267e-05/0.002942, allocations: 6.5 kB / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (simulation): time 8.52e-07/0.002943, allocations: 0 / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.229e-05/0.002955, allocations: 3.562 kB / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 6.92e-07/0.002956, allocations: 1.312 kB / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 5.21e-07/0.002956, allocations: 0 / 0.6489 GB, free: 36.47 MB / 0.5262 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 8.859e-05/0.003045, allocations: 105.6 kB / 0.649 GB, free: 36.38 MB / 0.5262 GB
Notification: Performance of postOpt removeConstants (simulation): time 6.392e-06/0.003051, allocations: 10.78 kB / 0.6491 GB, free: 36.37 MB / 0.5262 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 9.147e-06/0.00306, allocations: 0 / 0.6491 GB, free: 36.37 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 1.096e-05/0.003071, allocations: 1.031 kB / 0.6491 GB, free: 36.37 MB / 0.5262 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 1.44e-05/0.003086, allocations: 4.781 kB / 0.6491 GB, free: 36.37 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.924e-06/0.003088, allocations: 2.875 kB / 0.6491 GB, free: 36.37 MB / 0.5262 GB
Notification: Performance of sorting global known variables: time 1.766e-05/0.003105, allocations: 128.9 kB / 0.6492 GB, free: 36.25 MB / 0.5262 GB
Notification: Performance of sort global known variables: time 5e-08/0.003105, allocations: 0 / 0.6492 GB, free: 36.25 MB / 0.5262 GB
Notification: Performance of remove unused functions: time 0.000112/0.003217, allocations: 7.469 kB / 0.6492 GB, free: 36.25 MB / 0.5262 GB
Notification: Model statistics after passing the back-end for simulation:
 * Number of independent subsystems: 1
 * Number of states: 3 (V,I,T)
 * 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 (3):
 * Single equations (assignments): 3
 * 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 5.219e-05/0.00327, allocations: 99.22 kB / 0.6493 GB, free: 36.16 MB / 0.5262 GB
Notification: Performance of simCode: created initialization part: time 7.96e-05/0.003349, allocations: 34.38 kB / 0.6493 GB, free: 36.14 MB / 0.5262 GB
Notification: Performance of simCode: created event and clocks part: time 1.433e-06/0.003351, allocations: 1.5 kB / 0.6493 GB, free: 36.14 MB / 0.5262 GB
Notification: Performance of simCode: created simulation system equations: time 1.446e-05/0.003365, allocations: 15.66 kB / 0.6493 GB, free: 36.13 MB / 0.5262 GB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0001023/0.003467, allocations: 0 / 0.6493 GB, free: 36.13 MB / 0.5262 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0001914/0.003659, allocations: 172.5 kB / 0.6495 GB, free: 35.96 MB / 0.5262 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 2.684e-05/0.003686, allocations: 70.38 kB / 0.6496 GB, free: 35.88 MB / 0.5262 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 2.124e-05/0.003707, allocations: 13.31 kB / 0.6496 GB, free: 35.87 MB / 0.5262 GB
Notification: Performance of SimCode: time 6.21e-07/0.003707, allocations: 0 / 0.6496 GB, free: 35.87 MB / 0.5262 GB
Notification: Performance of Templates: time 0.00135/0.005057, allocations: 0.6229 MB / 0.6502 GB, free: 35.86 MB / 0.5262 GB
"
[Timeout remaining time 660]
make -j1 -f Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.makefile [Timeout 660]
(rm -f Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe ; mkfifo Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe ; head -c 1048576 < Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe >> ../files/Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.sim & ./Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1 > Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 6.377016822807491]