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 0.001251/0.001251, allocations: 92.22 kB / 19.65 MB, free: 276 kB / 13.93 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 0.001289/0.001289, allocations: 173 kB / 23.02 MB, free: 1.547 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 1.067/1.067, allocations: 177.1 MB / 203.4 MB, free: 5.625 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 1.658/1.658, allocations: 273.5 MB / 0.5209 GB, free: 14.82 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 3.396e-06/3.396e-06, allocations: 0 / 0.6469 GB, free: 38.66 MB / 0.5262 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 2.879e-05/3.219e-05, allocations: 2.312 kB / 0.6469 GB, free: 38.66 MB / 0.5262 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.001212/0.001245, allocations: 0.5288 MB / 0.6475 GB, free: 38.38 MB / 0.5262 GB
Notification: Performance of NFInst.instExpressions: time 0.0001644/0.001409, allocations: 25.38 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFInst.updateImplicitVariability: time 2.846e-05/0.001438, allocations: 0 / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFTyping.typeComponents: time 2.301e-05/0.001461, allocations: 1.312 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFTyping.typeBindings: time 5.236e-05/0.001513, allocations: 8.562 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFTyping.typeClassSections: time 0.0001262/0.001639, allocations: 7.422 kB / 0.6475 GB, free: 38.36 MB / 0.5262 GB
Notification: Performance of NFFlatten.flatten: time 6.486e-05/0.001704, allocations: 19.3 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFFlatten.resolveConnections: time 4.296e-05/0.001747, allocations: 2.781 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFEvalConstants.evaluate: time 4.442e-05/0.001791, allocations: 9.484 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFSimplifyModel.simplify: time 7.226e-05/0.001864, allocations: 6.906 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFPackage.collectConstants: time 2.371e-05/0.001887, allocations: 3.188 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFFlatten.collectFunctions: time 8.937e-06/0.001896, allocations: 1.625 kB / 0.6475 GB, free: 38.35 MB / 0.5262 GB
Notification: Performance of NFScalarize.scalarize: time 2.06e-05/0.001917, allocations: 13.19 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFVerifyModel.verify: time 2.158e-05/0.001938, allocations: 4.625 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of NFConvertDAE.convert: time 7.527e-05/0.002014, allocations: 8.797 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of FrontEnd - DAE generated: time 2.365e-06/0.002016, allocations: 0 / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of FrontEnd: time 8.01e-07/0.002017, allocations: 1.25 kB / 0.6476 GB, free: 38.34 MB / 0.5262 GB
Notification: Performance of Transformations before backend: time 5.54e-06/0.002022, allocations: 0 / 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 0.0003429/0.002365, allocations: 365.3 kB / 0.6479 GB, free: 37.97 MB / 0.5262 GB
Notification: Performance of prepare preOptimizeDAE: time 4.407e-05/0.002409, allocations: 8.938 kB / 0.6479 GB, free: 37.97 MB / 0.5262 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 3.965e-05/0.002449, allocations: 2.469 kB / 0.6479 GB, free: 37.97 MB / 0.5262 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 7.298e-05/0.002522, allocations: 119.2 kB / 0.648 GB, free: 37.83 MB / 0.5262 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 1.322e-05/0.002535, allocations: 10.38 kB / 0.6481 GB, free: 37.83 MB / 0.5262 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 2.771e-05/0.002563, allocations: 5.453 kB / 0.6481 GB, free: 37.82 MB / 0.5262 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 8.506e-05/0.002648, allocations: 35.91 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt findStateOrder (simulation): time 8.025e-06/0.002656, allocations: 1.5 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 9.348e-06/0.002665, allocations: 1.938 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 7.795e-06/0.002673, allocations: 1.656 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 1.906e-05/0.002692, allocations: 11.88 kB / 0.6481 GB, free: 37.79 MB / 0.5262 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.0001181/0.00281, allocations: 117.4 kB / 0.6482 GB, free: 37.64 MB / 0.5262 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0002698/0.00308, allocations: 68.8 kB / 0.6483 GB, free: 37.6 MB / 0.5262 GB
Notification: Performance of preOpt resolveLoops (simulation): time 2.012e-05/0.0031, allocations: 12.56 kB / 0.6483 GB, free: 37.59 MB / 0.5262 GB
Notification: Performance of preOpt evalFunc (simulation): time 9.227e-06/0.003109, allocations: 2.375 kB / 0.6483 GB, free: 37.59 MB / 0.5262 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 1.777e-05/0.003127, allocations: 35.61 kB / 0.6483 GB, free: 37.55 MB / 0.5262 GB
Notification: Performance of pre-optimization done (n=3): time 2.255e-06/0.00313, allocations: 0 / 0.6483 GB, free: 37.55 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=3): time 0.000138/0.003268, allocations: 53.95 kB / 0.6484 GB, free: 37.51 MB / 0.5262 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.406e-05/0.003292, allocations: 52.75 kB / 0.6484 GB, free: 37.45 MB / 0.5262 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 5.023e-05/0.003342, allocations: 172.7 kB / 0.6486 GB, free: 37.27 MB / 0.5262 GB
Notification: Performance of collectPreVariables (initialization): time 7.554e-06/0.003349, allocations: 28.64 kB / 0.6486 GB, free: 37.24 MB / 0.5262 GB
Notification: Performance of collectInitialEqns (initialization): time 1.982e-05/0.003369, allocations: 132.8 kB / 0.6488 GB, free: 37.11 MB / 0.5262 GB
Notification: Performance of collectInitialBindings (initialization): time 2.642e-05/0.003396, allocations: 10.97 kB / 0.6488 GB, free: 37.1 MB / 0.5262 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 2.737e-05/0.003423, allocations: 22.31 kB / 0.6488 GB, free: 37.07 MB / 0.5262 GB
Notification: Performance of setup shared object (initialization): time 5.598e-05/0.003479, allocations: 495.6 kB / 0.6493 GB, free: 36.58 MB / 0.5262 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 2.071e-05/0.0035, allocations: 4.25 kB / 0.6493 GB, free: 36.58 MB / 0.5262 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 1.532e-05/0.003515, allocations: 11.34 kB / 0.6493 GB, free: 36.58 MB / 0.5262 GB
Notification: Performance of analyzeInitialSystem (initialization): time 6.972e-05/0.003585, allocations: 39.94 kB / 0.6493 GB, free: 36.56 MB / 0.5262 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 2.414e-06/0.003587, allocations: 0 / 0.6493 GB, free: 36.56 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 6.888e-05/0.003656, allocations: 61.33 kB / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of prepare postOptimizeDAE: time 1.489e-05/0.003671, allocations: 7.312 kB / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 4.769e-06/0.003676, allocations: 0 / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.501e-05/0.003691, allocations: 0 / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 5.231e-05/0.003743, allocations: 11.19 kB / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 5.621e-06/0.003749, allocations: 1.312 kB / 0.6494 GB, free: 36.52 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 1.712e-05/0.003766, allocations: 11.88 kB / 0.6494 GB, free: 36.5 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 7.163e-06/0.003773, allocations: 2.438 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 0.0001147/0.003888, allocations: 164.2 kB / 0.6496 GB, free: 36.34 MB / 0.5262 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 8.846e-06/0.003896, allocations: 3.406 kB / 0.6496 GB, free: 36.34 MB / 0.5262 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 2.591e-05/0.003922, allocations: 7.688 kB / 0.6496 GB, free: 36.33 MB / 0.5262 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 2.695e-06/0.003925, allocations: 1.125 kB / 0.6496 GB, free: 36.33 MB / 0.5262 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 3.556e-06/0.003929, allocations: 2.344 kB / 0.6496 GB, free: 36.33 MB / 0.5262 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 4.038e-06/0.003933, allocations: 3.938 kB / 0.6496 GB, free: 36.33 MB / 0.5262 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 6.2e-05/0.003995, allocations: 122.9 kB / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.663e-06/0.003996, allocations: 0 / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 4.976e-05/0.004046, allocations: 4.953 kB / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (simulation): time 2.455e-06/0.004048, allocations: 0 / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 1.705e-05/0.004066, allocations: 6.922 kB / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 1.473e-06/0.004067, allocations: 0 / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 2.113e-06/0.004069, allocations: 3.938 kB / 0.6497 GB, free: 36.18 MB / 0.5262 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0001562/0.004225, allocations: 100.1 kB / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of postOpt removeConstants (simulation): time 1.163e-05/0.004237, allocations: 5.578 kB / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 1.384e-05/0.004251, allocations: 2.312 kB / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 1.165e-05/0.004262, allocations: 0 / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 2.151e-05/0.004284, allocations: 2.281 kB / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 3.095e-06/0.004287, allocations: 1.875 kB / 0.6498 GB, free: 36.09 MB / 0.5262 GB
Notification: Performance of sorting global known variables: time 3.272e-05/0.00432, allocations: 129.9 kB / 0.6499 GB, free: 35.96 MB / 0.5262 GB
Notification: Performance of sort global known variables: time 5e-08/0.00432, allocations: 0 / 0.6499 GB, free: 35.96 MB / 0.5262 GB
Notification: Performance of remove unused functions: time 0.0001219/0.004442, allocations: 11.73 kB / 0.65 GB, free: 35.96 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 8.426e-05/0.004526, allocations: 96.38 kB / 0.65 GB, free: 35.88 MB / 0.5262 GB
Notification: Performance of simCode: created initialization part: time 0.0001111/0.004637, allocations: 37.53 kB / 0.6501 GB, free: 35.86 MB / 0.5262 GB
Notification: Performance of simCode: created event and clocks part: time 2.044e-06/0.004639, allocations: 0.625 kB / 0.6501 GB, free: 35.86 MB / 0.5262 GB
Notification: Performance of simCode: created simulation system equations: time 1.521e-05/0.004654, allocations: 15.84 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 0.0001235/0.004778, allocations: 3.75 kB / 0.6501 GB, free: 35.84 MB / 0.5262 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0002557/0.005034, allocations: 142.1 kB / 0.6502 GB, free: 35.71 MB / 0.5262 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 2.972e-05/0.005063, allocations: 62.17 kB / 0.6503 GB, free: 35.63 MB / 0.5262 GB
Notification: Performance of simCode: alias equations: time 1.489e-05/0.005078, allocations: 5.578 kB / 0.6503 GB, free: 35.63 MB / 0.5262 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 2.547e-05/0.005104, allocations: 12.41 kB / 0.6503 GB, free: 35.62 MB / 0.5262 GB
Notification: Performance of SimCode: time 7.82e-07/0.005104, allocations: 0 / 0.6503 GB, free: 35.62 MB / 0.5262 GB
Notification: Performance of Templates: time 0.0021/0.007204, allocations: 370.5 kB / 0.6507 GB, free: 35.57 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: 4.8332629930227995]