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 0.001031/0.001031, allocations: 92.2 kB / 20.19 MB, free: 4.355 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 0.0009739/0.0009739, allocations: 173 kB / 23.49 MB, free: 1.055 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 0.9807/0.9807, allocations: 177.1 MB / 203.8 MB, free: 5.633 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 1.68/1.68, allocations: 273.5 MB / 0.5213 GB, free: 14.88 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 2.144e-06/2.144e-06, allocations: 0 / 0.647 GB, free: 38.66 MB / 0.5262 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 2.348e-05/2.563e-05, allocations: 5.719 kB / 0.647 GB, free: 38.66 MB / 0.5262 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.001285/0.00131, allocations: 0.5271 MB / 0.6475 GB, free: 38.37 MB / 0.5262 GB
Notification: Performance of NFInst.instExpressions: time 0.0001451/0.001455, allocations: 25.92 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFInst.updateImplicitVariability: time 2.644e-05/0.001482, allocations: 1.469 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFTyping.typeComponents: time 1.623e-05/0.001498, allocations: 0 / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFTyping.typeBindings: time 4.302e-05/0.001541, allocations: 6.125 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFTyping.typeClassSections: time 0.0001071/0.001648, allocations: 10.7 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFFlatten.flatten: time 6.079e-05/0.001709, allocations: 19.58 kB / 0.6475 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFFlatten.resolveConnections: time 4.12e-05/0.00175, allocations: 1.938 kB / 0.6475 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFEvalConstants.evaluate: time 4.077e-05/0.001791, allocations: 9.391 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFSimplifyModel.simplify: time 6.256e-05/0.001853, allocations: 8.656 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFPackage.collectConstants: time 1.961e-05/0.001873, allocations: 1.312 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFFlatten.collectFunctions: time 0.003011/0.004884, allocations: 0.5312 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFScalarize.scalarize: time 2.024e-05/0.004905, allocations: 15.16 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFVerifyModel.verify: time 2.346e-05/0.004928, allocations: 3.781 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFConvertDAE.convert: time 6.877e-05/0.004997, allocations: 11.11 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of FrontEnd - DAE generated: time 2.434e-06/0.004999, allocations: 1.312 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of FrontEnd: time 6.72e-07/0.005, allocations: 1.531 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of Transformations before backend: time 4.809e-06/0.005005, allocations: 0.5 kB / 0.6476 GB, free: 38.34 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 0.0003173/0.005322, allocations: 358.8 kB / 0.6479 GB, free: 37.96 MB / 0.5262 GB
Notification: Performance of prepare preOptimizeDAE: time 4.313e-05/0.005365, allocations: 10.47 kB / 0.6479 GB, free: 37.96 MB / 0.5262 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 3.901e-05/0.005404, allocations: 4.062 kB / 0.648 GB, free: 37.96 MB / 0.5262 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 7.263e-05/0.005477, allocations: 126.4 kB / 0.6481 GB, free: 37.82 MB / 0.5262 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 1.012e-05/0.005487, allocations: 1.75 kB / 0.6481 GB, free: 37.82 MB / 0.5262 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 2.074e-05/0.005508, allocations: 5.891 kB / 0.6481 GB, free: 37.82 MB / 0.5262 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 8.207e-05/0.00559, allocations: 36.56 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt findStateOrder (simulation): time 6.171e-06/0.005596, allocations: 192 / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 9.137e-06/0.005605, allocations: 384 / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 8.917e-06/0.005614, allocations: 3.75 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 2.067e-05/0.005635, allocations: 12.91 kB / 0.6481 GB, free: 37.78 MB / 0.5262 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.0001131/0.005748, allocations: 117.7 kB / 0.6482 GB, free: 37.64 MB / 0.5262 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.003276/0.009023, allocations: 68.58 kB / 0.6483 GB, free: 37.59 MB / 0.5262 GB
Notification: Performance of preOpt resolveLoops (simulation): time 2.035e-05/0.009044, allocations: 12.38 kB / 0.6483 GB, free: 37.58 MB / 0.5262 GB
Notification: Performance of preOpt evalFunc (simulation): time 7.043e-06/0.009051, allocations: 2.031 kB / 0.6483 GB, free: 37.58 MB / 0.5262 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 1.361e-05/0.009064, allocations: 36.58 kB / 0.6484 GB, free: 37.54 MB / 0.5262 GB
Notification: Performance of pre-optimization done (n=3): time 1.312e-06/0.009066, allocations: 0 / 0.6484 GB, free: 37.54 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=3): time 0.0001335/0.009199, allocations: 56.09 kB / 0.6484 GB, free: 37.5 MB / 0.5262 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.181e-05/0.009221, allocations: 54.53 kB / 0.6485 GB, free: 37.44 MB / 0.5262 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 4.738e-05/0.009268, allocations: 167.3 kB / 0.6486 GB, free: 37.27 MB / 0.5262 GB
Notification: Performance of collectPreVariables (initialization): time 6.151e-06/0.009275, allocations: 25.7 kB / 0.6486 GB, free: 37.23 MB / 0.5262 GB
Notification: Performance of collectInitialEqns (initialization): time 1.815e-05/0.009293, allocations: 134.6 kB / 0.6488 GB, free: 37.1 MB / 0.5262 GB
Notification: Performance of collectInitialBindings (initialization): time 2.423e-05/0.009317, allocations: 11.34 kB / 0.6488 GB, free: 37.09 MB / 0.5262 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 2.891e-05/0.009346, allocations: 26.34 kB / 0.6488 GB, free: 37.07 MB / 0.5262 GB
Notification: Performance of setup shared object (initialization): time 4.144e-05/0.009387, allocations: 494.2 kB / 0.6493 GB, free: 36.57 MB / 0.5262 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 1.631e-05/0.009404, allocations: 3.562 kB / 0.6493 GB, free: 36.57 MB / 0.5262 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 1.387e-05/0.009417, allocations: 11.56 kB / 0.6493 GB, free: 36.57 MB / 0.5262 GB
Notification: Performance of analyzeInitialSystem (initialization): time 6.138e-05/0.009479, allocations: 35.78 kB / 0.6493 GB, free: 36.55 MB / 0.5262 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 1.833e-06/0.009481, allocations: 1.312 kB / 0.6493 GB, free: 36.55 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 7.183e-05/0.009552, allocations: 61.88 kB / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of prepare postOptimizeDAE: time 1.245e-05/0.009565, allocations: 4.156 kB / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 4.028e-06/0.009569, allocations: 2.969 kB / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.186e-05/0.009581, allocations: 0 / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 4.771e-05/0.009629, allocations: 10.02 kB / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 4.428e-06/0.009633, allocations: 1.25 kB / 0.6494 GB, free: 36.51 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 1.843e-05/0.009651, allocations: 15.62 kB / 0.6494 GB, free: 36.5 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 4.909e-06/0.009656, allocations: 3.938 kB / 0.6494 GB, free: 36.5 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 9.093e-05/0.009747, allocations: 161 kB / 0.6496 GB, free: 36.34 MB / 0.5262 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 8.396e-06/0.009756, allocations: 1.625 kB / 0.6496 GB, free: 36.34 MB / 0.5262 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 2.407e-05/0.00978, allocations: 9.469 kB / 0.6496 GB, free: 36.32 MB / 0.5262 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 1.763e-06/0.009781, allocations: 0 / 0.6496 GB, free: 36.32 MB / 0.5262 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 3.416e-06/0.009785, allocations: 1.406 kB / 0.6496 GB, free: 36.32 MB / 0.5262 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 3.727e-06/0.009789, allocations: 3.938 kB / 0.6496 GB, free: 36.32 MB / 0.5262 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 5.149e-05/0.00984, allocations: 121.9 kB / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 7.62e-07/0.009841, allocations: 0 / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 4.595e-05/0.009887, allocations: 11.31 kB / 0.6497 GB, free: 36.17 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (simulation): time 2.114e-06/0.009889, allocations: 1.422 kB / 0.6497 GB, free: 36.17 MB / 0.5262 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.216e-05/0.009901, allocations: 0 / 0.6497 GB, free: 36.17 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 2.725e-06/0.009904, allocations: 9.656 kB / 0.6497 GB, free: 36.17 MB / 0.5262 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 7.92e-07/0.009905, allocations: 0 / 0.6497 GB, free: 36.17 MB / 0.5262 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0001022/0.01001, allocations: 98.64 kB / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of postOpt removeConstants (simulation): time 7.173e-06/0.01001, allocations: 4.891 kB / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 1.099e-05/0.01002, allocations: 3.656 kB / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 1.424e-05/0.01004, allocations: 0 / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 1.377e-05/0.01005, allocations: 0 / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 2.064e-06/0.01006, allocations: 2.219 kB / 0.6498 GB, free: 36.08 MB / 0.5262 GB
Notification: Performance of sorting global known variables: time 1.925e-05/0.01007, allocations: 131.8 kB / 0.65 GB, free: 35.96 MB / 0.5262 GB
Notification: Performance of sort global known variables: time 8e-08/0.01007, allocations: 0 / 0.65 GB, free: 35.96 MB / 0.5262 GB
Notification: Performance of remove unused functions: time 0.0001726/0.01025, allocations: 8.594 kB / 0.65 GB, free: 35.95 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 5.862e-05/0.01031, allocations: 101.1 kB / 0.6501 GB, free: 35.86 MB / 0.5262 GB
Notification: Performance of simCode: created initialization part: time 7.912e-05/0.01038, allocations: 30.48 kB / 0.6501 GB, free: 35.85 MB / 0.5262 GB
Notification: Performance of simCode: created event and clocks part: time 1.293e-06/0.01039, allocations: 1.312 kB / 0.6501 GB, free: 35.85 MB / 0.5262 GB
Notification: Performance of simCode: created simulation system equations: time 1.473e-05/0.0104, allocations: 14.19 kB / 0.6501 GB, free: 35.84 MB / 0.5262 GB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0001318/0.01053, allocations: 2.344 kB / 0.6501 GB, free: 35.84 MB / 0.5262 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.000208/0.01074, allocations: 152.2 kB / 0.6503 GB, free: 35.69 MB / 0.5262 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 2.053e-05/0.01076, allocations: 59 kB / 0.6503 GB, free: 35.62 MB / 0.5262 GB
Notification: Performance of simCode: alias equations: time 1.535e-05/0.01078, allocations: 5.953 kB / 0.6503 GB, free: 35.61 MB / 0.5262 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 1.921e-05/0.0108, allocations: 9.5 kB / 0.6503 GB, free: 35.61 MB / 0.5262 GB
Notification: Performance of SimCode: time 5.41e-07/0.0108, allocations: 0 / 0.6503 GB, free: 35.61 MB / 0.5262 GB
Notification: Performance of Templates: time 0.001903/0.0127, allocations: 370.1 kB / 0.6507 GB, free: 35.55 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 -abortSlowSimulation -alarm=240  -lv LOG_STATS > Pharmacolibrary_Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 4.784572260919958]