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 0.001054/0.001054, allocations: 80.94 kB / 19.94 MB, free: 4.543 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 0.001145/0.001145, allocations: 177 kB / 23.36 MB, free: 1.129 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 0.9285/0.9285, allocations: 177.1 MB / 203.8 MB, free: 5.473 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 1.744/1.744, allocations: 273.5 MB / 0.5212 GB, free: 14.62 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 1.383e-06/1.383e-06, allocations: 0 / 0.5954 GB, free: 2.711 MB / 0.5105 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.469e-05/1.607e-05, allocations: 2.312 kB / 0.5954 GB, free: 2.707 MB / 0.5105 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.000963/0.0009791, allocations: 0.5181 MB / 0.5959 GB, free: 2.203 MB / 0.5105 GB
Notification: Performance of NFInst.instExpressions: time 0.0001421/0.001121, allocations: 36.02 kB / 0.5959 GB, free: 2.168 MB / 0.5105 GB
Notification: Performance of NFInst.updateImplicitVariability: time 2.359e-05/0.001145, allocations: 0 / 0.5959 GB, free: 2.168 MB / 0.5105 GB
Notification: Performance of NFTyping.typeComponents: time 1.211e-05/0.001157, allocations: 1.422 kB / 0.5959 GB, free: 2.168 MB / 0.5105 GB
Notification: Performance of NFTyping.typeBindings: time 4.309e-05/0.0012, allocations: 1.422 kB / 0.5959 GB, free: 2.168 MB / 0.5105 GB
Notification: Performance of NFTyping.typeClassSections: time 9.08e-05/0.001291, allocations: 3.984 kB / 0.5959 GB, free: 2.164 MB / 0.5105 GB
Notification: Performance of NFFlatten.flatten: time 4.933e-05/0.00134, allocations: 19.92 kB / 0.596 GB, free: 2.148 MB / 0.5105 GB
Notification: Performance of NFFlatten.resolveConnections: time 3.981e-05/0.00138, allocations: 15.92 kB / 0.596 GB, free: 2.133 MB / 0.5105 GB
Notification: Performance of NFEvalConstants.evaluate: time 3.983e-05/0.00142, allocations: 11.98 kB / 0.596 GB, free: 2.121 MB / 0.5105 GB
Notification: Performance of NFSimplifyModel.simplify: time 6.824e-05/0.001488, allocations: 9.516 kB / 0.596 GB, free: 2.113 MB / 0.5105 GB
Notification: Performance of NFPackage.collectConstants: time 1.691e-05/0.001505, allocations: 0 / 0.596 GB, free: 2.113 MB / 0.5105 GB
Notification: Performance of NFFlatten.collectFunctions: time 7.264e-06/0.001512, allocations: 0 / 0.596 GB, free: 2.113 MB / 0.5105 GB
Notification: Performance of NFScalarize.scalarize: time 1.577e-05/0.001528, allocations: 9.312 kB / 0.596 GB, free: 2.105 MB / 0.5105 GB
Notification: Performance of NFVerifyModel.verify: time 1.746e-05/0.001545, allocations: 5.297 kB / 0.596 GB, free: 2.102 MB / 0.5105 GB
Notification: Performance of NFConvertDAE.convert: time 5.751e-05/0.001603, allocations: 15.97 kB / 0.596 GB, free: 2.086 MB / 0.5105 GB
Notification: Performance of FrontEnd - DAE generated: time 1.883e-06/0.001605, allocations: 0 / 0.596 GB, free: 2.086 MB / 0.5105 GB
Notification: Performance of FrontEnd: time 4.21e-07/0.001605, allocations: 0 / 0.596 GB, free: 2.086 MB / 0.5105 GB
Notification: Performance of Transformations before backend: time 3.316e-06/0.001609, allocations: 1.312 kB / 0.596 GB, free: 2.086 MB / 0.5105 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 0.0002591/0.001868, allocations: 233 kB / 0.5963 GB, free: 1.832 MB / 0.5105 GB
Notification: Performance of prepare preOptimizeDAE: time 3.15e-05/0.001899, allocations: 8.031 kB / 0.5963 GB, free: 1.824 MB / 0.5105 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 2.215e-05/0.001921, allocations: 4.938 kB / 0.5963 GB, free: 1.82 MB / 0.5105 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 6.852e-05/0.00199, allocations: 117.1 kB / 0.5964 GB, free: 1.684 MB / 0.5105 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 8.687e-06/0.001998, allocations: 384 / 0.5964 GB, free: 1.684 MB / 0.5105 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 1.793e-05/0.002016, allocations: 4.375 kB / 0.5964 GB, free: 1.68 MB / 0.5105 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 5.54e-05/0.002072, allocations: 34.25 kB / 0.5964 GB, free: 1.641 MB / 0.5105 GB
Notification: Performance of preOpt findStateOrder (simulation): time 5.841e-06/0.002078, allocations: 192 / 0.5964 GB, free: 1.641 MB / 0.5105 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 6.582e-06/0.002084, allocations: 8.312 kB / 0.5964 GB, free: 1.633 MB / 0.5105 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 4.088e-06/0.002088, allocations: 384 / 0.5964 GB, free: 1.633 MB / 0.5105 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 1.337e-05/0.002102, allocations: 11.92 kB / 0.5964 GB, free: 1.621 MB / 0.5105 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 7.928e-05/0.002181, allocations: 62.34 kB / 0.5965 GB, free: 1.547 MB / 0.5105 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0001977/0.002379, allocations: 50.61 kB / 0.5965 GB, free: 1.488 MB / 0.5105 GB
Notification: Performance of preOpt resolveLoops (simulation): time 1.333e-05/0.002392, allocations: 16.94 kB / 0.5966 GB, free: 1.469 MB / 0.5105 GB
Notification: Performance of preOpt evalFunc (simulation): time 5.691e-06/0.002398, allocations: 0 / 0.5966 GB, free: 1.469 MB / 0.5105 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 1.865e-05/0.002416, allocations: 34.56 kB / 0.5966 GB, free: 1.426 MB / 0.5105 GB
Notification: Performance of pre-optimization done (n=3): time 5.61e-07/0.002417, allocations: 0 / 0.5966 GB, free: 1.426 MB / 0.5105 GB
Notification: Performance of matching and sorting (n=3): time 8.547e-05/0.002502, allocations: 45.62 kB / 0.5966 GB, free: 1.375 MB / 0.5105 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.843e-05/0.002531, allocations: 51.41 kB / 0.5967 GB, free: 1.312 MB / 0.5105 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 4.845e-05/0.002579, allocations: 110.2 kB / 0.5968 GB, free: 1.195 MB / 0.5105 GB
Notification: Performance of collectPreVariables (initialization): time 1.056e-05/0.00259, allocations: 29.7 kB / 0.5968 GB, free: 1.16 MB / 0.5105 GB
Notification: Performance of collectInitialEqns (initialization): time 2.113e-05/0.002611, allocations: 84.12 kB / 0.5969 GB, free: 1.074 MB / 0.5105 GB
Notification: Performance of collectInitialBindings (initialization): time 2.459e-05/0.002636, allocations: 15.84 kB / 0.5969 GB, free: 1.059 MB / 0.5105 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 2.145e-05/0.002657, allocations: 23.45 kB / 0.5969 GB, free: 1.031 MB / 0.5105 GB
Notification: Performance of setup shared object (initialization): time 7.875e-05/0.002736, allocations: 318.8 kB / 0.5972 GB, free: 0.7109 MB / 0.5105 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 7.995e-06/0.002744, allocations: 4 kB / 0.5972 GB, free: 0.707 MB / 0.5105 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 7.444e-06/0.002751, allocations: 4 kB / 0.5972 GB, free: 0.7031 MB / 0.5105 GB
Notification: Performance of analyzeInitialSystem (initialization): time 4.39e-05/0.002795, allocations: 32.77 kB / 0.5973 GB, free: 0.668 MB / 0.5105 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 1.644e-06/0.002797, allocations: 0 / 0.5973 GB, free: 0.668 MB / 0.5105 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 4.822e-05/0.002845, allocations: 45.69 kB / 0.5973 GB, free: 0.6172 MB / 0.5105 GB
Notification: Performance of prepare postOptimizeDAE: time 1.059e-05/0.002856, allocations: 8 kB / 0.5973 GB, free: 0.6094 MB / 0.5105 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 3.426e-06/0.002859, allocations: 0 / 0.5973 GB, free: 0.6094 MB / 0.5105 GB
Notification: Performance of postOpt tearingSystem (initialization): time 9.928e-06/0.002869, allocations: 3.469 kB / 0.5973 GB, free: 0.6094 MB / 0.5105 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 3.324e-05/0.002902, allocations: 8 kB / 0.5973 GB, free: 0.6016 MB / 0.5105 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 3.476e-06/0.002906, allocations: 7.984 kB / 0.5973 GB, free: 0.5938 MB / 0.5105 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 1.01e-05/0.002916, allocations: 0 / 0.5973 GB, free: 0.5938 MB / 0.5105 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 5.27e-06/0.002921, allocations: 4 kB / 0.5973 GB, free: 0.5898 MB / 0.5105 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 8.554e-05/0.003007, allocations: 121.7 kB / 0.5975 GB, free: 472 kB / 0.5105 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 6.142e-06/0.003013, allocations: 4 kB / 0.5975 GB, free: 468 kB / 0.5105 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 1.707e-05/0.00303, allocations: 9 kB / 0.5975 GB, free: 456 kB / 0.5105 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 2.174e-06/0.003032, allocations: 3.75 kB / 0.5975 GB, free: 456 kB / 0.5105 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 1.173e-06/0.003033, allocations: 4 kB / 0.5975 GB, free: 452 kB / 0.5105 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 5.22e-06/0.003038, allocations: 3.984 kB / 0.5975 GB, free: 448 kB / 0.5105 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 5.267e-05/0.003091, allocations: 69.84 kB / 0.5976 GB, free: 360 kB / 0.5105 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 6.61e-07/0.003092, allocations: 0 / 0.5976 GB, free: 360 kB / 0.5105 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 3.155e-05/0.003123, allocations: 4 kB / 0.5976 GB, free: 356 kB / 0.5105 GB
Notification: Performance of postOpt tearingSystem (simulation): time 1.292e-06/0.003124, allocations: 0 / 0.5976 GB, free: 356 kB / 0.5105 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.005e-05/0.003135, allocations: 4 kB / 0.5976 GB, free: 352 kB / 0.5105 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 4.71e-07/0.003135, allocations: 0 / 0.5976 GB, free: 352 kB / 0.5105 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 4.01e-07/0.003135, allocations: 0 / 0.5976 GB, free: 352 kB / 0.5105 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 8.72e-05/0.003223, allocations: 88.97 kB / 0.5976 GB, free: 244 kB / 0.5105 GB
Notification: Performance of postOpt removeConstants (simulation): time 4.779e-06/0.003227, allocations: 5.312 kB / 0.5977 GB, free: 240 kB / 0.5105 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 8.306e-06/0.003236, allocations: 4 kB / 0.5977 GB, free: 236 kB / 0.5105 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 8.746e-06/0.003244, allocations: 0 / 0.5977 GB, free: 236 kB / 0.5105 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 1.193e-05/0.003256, allocations: 3.984 kB / 0.5977 GB, free: 232 kB / 0.5105 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.503e-06/0.003258, allocations: 0 / 0.5977 GB, free: 232 kB / 0.5105 GB
Notification: Performance of sorting global known variables: time 9.238e-06/0.003267, allocations: 8.859 kB / 0.5977 GB, free: 220 kB / 0.5105 GB
Notification: Performance of sort global known variables: time 5e-08/0.003267, allocations: 0 / 0.5977 GB, free: 220 kB / 0.5105 GB
Notification: Performance of remove unused functions: time 8.674e-05/0.003354, allocations: 8 kB / 0.5977 GB, free: 212 kB / 0.5105 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 6.015e-05/0.003414, allocations: 76.42 kB / 0.5978 GB, free: 128 kB / 0.5105 GB
Notification: Performance of simCode: created initialization part: time 5.259e-05/0.003467, allocations: 24.84 kB / 0.5978 GB, free: 100 kB / 0.5105 GB
Notification: Performance of simCode: created event and clocks part: time 1.633e-06/0.003468, allocations: 4 kB / 0.5978 GB, free: 96 kB / 0.5105 GB
Notification: Performance of simCode: created simulation system equations: time 1.093e-05/0.003479, allocations: 12.8 kB / 0.5978 GB, free: 80 kB / 0.5105 GB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 5.568e-05/0.003535, allocations: 11.48 kB / 0.5978 GB, free: 72 kB / 0.5105 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0001835/0.003718, allocations: 144.4 kB / 0.5979 GB, free: 15.9 MB / 0.5261 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 2.719e-05/0.003746, allocations: 55.34 kB / 0.598 GB, free: 15.83 MB / 0.5261 GB
Notification: Performance of simCode: alias equations: time 1.075e-05/0.003756, allocations: 4 kB / 0.598 GB, free: 15.82 MB / 0.5261 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 3.142e-05/0.003788, allocations: 51.38 kB / 0.598 GB, free: 15.77 MB / 0.5261 GB
Notification: Performance of SimCode: time 3.8e-07/0.003788, allocations: 0 / 0.598 GB, free: 15.77 MB / 0.5261 GB
Notification: Performance of Templates: time 0.00162/0.005409, allocations: 390.9 kB / 0.5984 GB, free: 15.4 MB / 0.5261 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 -abortSlowSimulation -alarm=240  -lv LOG_STATS > Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 4.218576061073691]