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 0.001943/0.001943, allocations: 105.5 kB / 18.95 MB, free: 1.18 MB / 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 0.002058/0.002058, allocations: 223.9 kB / 22.25 MB, free: 3.57 MB / 13.93 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 1.804/1.804, allocations: 230.6 MB / 256 MB, free: 9.625 MB / 202.7 MB
"
[Timeout remaining time 178]
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 3.821/3.821, allocations: 335.2 MB / 0.6325 GB, free: 7.312 MB / 442.7 MB
"
[Timeout remaining time 176]
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: Pharmacolibrary requested package Modelica of version 4.0.0. Modelica 4.1.0 is used instead which states that it is fully compatible without conversion script needed.
Notification: Performance of FrontEnd - loaded program: time 0.003879/0.003879, allocations: 75.88 kB / 0.868 GB, free: 6.012 MB / 0.573 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 0.2306/0.2345, allocations: 112.8 MB / 0.9782 GB, free: 4.934 MB / 0.6824 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.001753/0.2362, allocations: 0.5094 MB / 0.9787 GB, free: 4.43 MB / 0.6824 GB
Notification: Performance of NFInst.instExpressions: time 0.0001613/0.2364, allocations: 27.91 kB / 0.9787 GB, free: 4.402 MB / 0.6824 GB
Notification: Performance of NFInst.updateImplicitVariability: time 3.146e-05/0.2364, allocations: 0 / 0.9787 GB, free: 4.402 MB / 0.6824 GB
Notification: Performance of NFTyping.typeComponents: time 1.382e-05/0.2365, allocations: 0 / 0.9787 GB, free: 4.402 MB / 0.6824 GB
Notification: Performance of NFTyping.typeBindings: time 4.645e-05/0.2365, allocations: 3.938 kB / 0.9787 GB, free: 4.398 MB / 0.6824 GB
Notification: Performance of NFTyping.typeClassSections: time 0.0001142/0.2366, allocations: 7.984 kB / 0.9787 GB, free: 4.391 MB / 0.6824 GB
Notification: Performance of NFFlatten.flatten: time 6.42e-05/0.2367, allocations: 15.92 kB / 0.9787 GB, free: 4.375 MB / 0.6824 GB
Notification: Performance of NFFlatten.resolveConnections: time 4.244e-05/0.2367, allocations: 4 kB / 0.9787 GB, free: 4.371 MB / 0.6824 GB
Notification: Performance of NFEvalConstants.evaluate: time 2.755e-05/0.2367, allocations: 15.97 kB / 0.9788 GB, free: 4.355 MB / 0.6824 GB
Notification: Performance of NFSimplifyModel.simplify: time 7.112e-05/0.2368, allocations: 11.92 kB / 0.9788 GB, free: 4.344 MB / 0.6824 GB
Notification: Performance of NFPackage.collectConstants: time 2.23e-05/0.2368, allocations: 0 / 0.9788 GB, free: 4.344 MB / 0.6824 GB
Notification: Performance of NFFlatten.collectFunctions: time 9.829e-06/0.2369, allocations: 4 kB / 0.9788 GB, free: 4.34 MB / 0.6824 GB
Notification: Performance of NFScalarize.scalarize: time 1.443e-05/0.2369, allocations: 0 / 0.9788 GB, free: 4.34 MB / 0.6824 GB
Notification: Performance of NFVerifyModel.verify: time 2.623e-05/0.2369, allocations: 11.94 kB / 0.9788 GB, free: 4.328 MB / 0.6824 GB
Notification: Performance of NFConvertDAE.convert: time 6.86e-05/0.237, allocations: 15.91 kB / 0.9788 GB, free: 4.312 MB / 0.6824 GB
Notification: Performance of FrontEnd - DAE generated: time 3.015e-06/0.237, allocations: 0 / 0.9788 GB, free: 4.312 MB / 0.6824 GB
Notification: Performance of FrontEnd: time 1.363e-06/0.237, allocations: 0 / 0.9788 GB, free: 4.312 MB / 0.6824 GB
Notification: Performance of Transformations before backend: time 4.689e-06/0.237, allocations: 0 / 0.9788 GB, free: 4.312 MB / 0.6824 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 0.0004558/0.2374, allocations: 266.3 kB / 0.9791 GB, free: 4.02 MB / 0.6824 GB
Notification: Performance of prepare preOptimizeDAE: time 4.371e-05/0.2375, allocations: 10.11 kB / 0.9791 GB, free: 4.012 MB / 0.6824 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 2.841e-05/0.2375, allocations: 4.938 kB / 0.9791 GB, free: 4.008 MB / 0.6824 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001292/0.2376, allocations: 110.5 kB / 0.9792 GB, free: 3.875 MB / 0.6824 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 7.855e-06/0.2376, allocations: 384 / 0.9792 GB, free: 3.875 MB / 0.6824 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 2.742e-05/0.2377, allocations: 4.375 kB / 0.9792 GB, free: 3.871 MB / 0.6824 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0001231/0.2378, allocations: 42.23 kB / 0.9792 GB, free: 3.824 MB / 0.6824 GB
Notification: Performance of preOpt findStateOrder (simulation): time 1.01e-05/0.2378, allocations: 192 / 0.9792 GB, free: 3.824 MB / 0.6824 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 1.252e-05/0.2378, allocations: 3.938 kB / 0.9792 GB, free: 3.82 MB / 0.6824 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 3.988e-06/0.2378, allocations: 3.938 kB / 0.9792 GB, free: 3.816 MB / 0.6824 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 3.542e-05/0.2378, allocations: 11.98 kB / 0.9792 GB, free: 3.805 MB / 0.6824 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.0001724/0.238, allocations: 109.3 kB / 0.9793 GB, free: 3.668 MB / 0.6824 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0003584/0.2384, allocations: 62.66 kB / 0.9794 GB, free: 3.598 MB / 0.6824 GB
Notification: Performance of preOpt resolveLoops (simulation): time 3.242e-05/0.2384, allocations: 12.86 kB / 0.9794 GB, free: 3.582 MB / 0.6824 GB
Notification: Performance of preOpt evalFunc (simulation): time 7.855e-06/0.2384, allocations: 0 / 0.9794 GB, free: 3.582 MB / 0.6824 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.947e-05/0.2384, allocations: 34.56 kB / 0.9794 GB, free: 3.539 MB / 0.6824 GB
Notification: Performance of pre-optimization done (n=3): time 7.72e-07/0.2384, allocations: 7.875 kB / 0.9795 GB, free: 3.531 MB / 0.6824 GB
Notification: Performance of matching and sorting (n=3): time 0.0001771/0.2386, allocations: 61.7 kB / 0.9795 GB, free: 3.465 MB / 0.6824 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 4.916e-05/0.2387, allocations: 55.41 kB / 0.9796 GB, free: 3.398 MB / 0.6824 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0001098/0.2388, allocations: 101.8 kB / 0.9797 GB, free: 3.289 MB / 0.6824 GB
Notification: Performance of collectPreVariables (initialization): time 2.031e-05/0.2388, allocations: 25.7 kB / 0.9797 GB, free: 3.258 MB / 0.6824 GB
Notification: Performance of collectInitialEqns (initialization): time 5.35e-05/0.2389, allocations: 88.12 kB / 0.9798 GB, free: 3.168 MB / 0.6824 GB
Notification: Performance of collectInitialBindings (initialization): time 3.485e-05/0.2389, allocations: 19.84 kB / 0.9798 GB, free: 3.148 MB / 0.6824 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 3.606e-05/0.2389, allocations: 17.72 kB / 0.9798 GB, free: 3.125 MB / 0.6824 GB
Notification: Performance of setup shared object (initialization): time 0.0001705/0.2391, allocations: 322.8 kB / 0.9801 GB, free: 2.801 MB / 0.6824 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 1.993e-05/0.2391, allocations: 4 kB / 0.9801 GB, free: 2.797 MB / 0.6824 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 1.913e-05/0.2391, allocations: 8 kB / 0.9801 GB, free: 2.789 MB / 0.6824 GB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0002953/0.2394, allocations: 68.75 kB / 0.9802 GB, free: 2.719 MB / 0.6824 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 2.094e-06/0.2394, allocations: 0 / 0.9802 GB, free: 2.719 MB / 0.6824 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 0.0001091/0.2395, allocations: 69.64 kB / 0.9803 GB, free: 2.645 MB / 0.6824 GB
Notification: Performance of prepare postOptimizeDAE: time 1.54e-05/0.2396, allocations: 4 kB / 0.9803 GB, free: 2.641 MB / 0.6824 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 4.859e-06/0.2396, allocations: 4 kB / 0.9803 GB, free: 2.637 MB / 0.6824 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.612e-05/0.2396, allocations: 3.938 kB / 0.9803 GB, free: 2.633 MB / 0.6824 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 6.832e-05/0.2397, allocations: 8 kB / 0.9803 GB, free: 2.625 MB / 0.6824 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 5.299e-06/0.2397, allocations: 0 / 0.9803 GB, free: 2.625 MB / 0.6824 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 2.535e-05/0.2397, allocations: 4 kB / 0.9803 GB, free: 2.621 MB / 0.6824 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 5.581e-06/0.2397, allocations: 0 / 0.9803 GB, free: 2.621 MB / 0.6824 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 0.0001444/0.2398, allocations: 120.5 kB / 0.9804 GB, free: 2.496 MB / 0.6824 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 1.481e-05/0.2398, allocations: 11.95 kB / 0.9804 GB, free: 2.484 MB / 0.6824 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 2.676e-05/0.2399, allocations: 3.688 kB / 0.9804 GB, free: 2.477 MB / 0.6824 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 6.172e-06/0.2399, allocations: 11.94 kB / 0.9804 GB, free: 2.465 MB / 0.6824 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 3.346e-06/0.2399, allocations: 0 / 0.9804 GB, free: 2.465 MB / 0.6824 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 2.124e-06/0.2399, allocations: 0 / 0.9804 GB, free: 2.465 MB / 0.6824 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0001059/0.24, allocations: 105.3 kB / 0.9805 GB, free: 2.332 MB / 0.6824 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.272e-06/0.24, allocations: 0 / 0.9805 GB, free: 2.332 MB / 0.6824 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 6.61e-05/0.2401, allocations: 8 kB / 0.9805 GB, free: 2.324 MB / 0.6824 GB
Notification: Performance of postOpt tearingSystem (simulation): time 1.893e-06/0.2401, allocations: 240 / 0.9805 GB, free: 2.324 MB / 0.6824 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 7.544e-06/0.2401, allocations: 0 / 0.9805 GB, free: 2.324 MB / 0.6824 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 1.152e-06/0.2401, allocations: 0 / 0.9805 GB, free: 2.324 MB / 0.6824 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 3.126e-06/0.2401, allocations: 7.938 kB / 0.9805 GB, free: 2.316 MB / 0.6824 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.000163/0.2402, allocations: 97.03 kB / 0.9806 GB, free: 2.203 MB / 0.6824 GB
Notification: Performance of postOpt removeConstants (simulation): time 1.06e-05/0.2402, allocations: 7.891 kB / 0.9806 GB, free: 2.195 MB / 0.6824 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 1.425e-05/0.2403, allocations: 4 kB / 0.9806 GB, free: 2.191 MB / 0.6824 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 2.568e-05/0.2403, allocations: 0 / 0.9806 GB, free: 2.191 MB / 0.6824 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 2.367e-05/0.2403, allocations: 7.938 kB / 0.9806 GB, free: 2.184 MB / 0.6824 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 2.995e-06/0.2403, allocations: 3.938 kB / 0.9807 GB, free: 2.18 MB / 0.6824 GB
Notification: Performance of sorting global known variables: time 5.256e-05/0.2404, allocations: 83.31 kB / 0.9807 GB, free: 2.098 MB / 0.6824 GB
Notification: Performance of sort global known variables: time 8e-08/0.2404, allocations: 0 / 0.9807 GB, free: 2.098 MB / 0.6824 GB
Notification: Performance of remove unused functions: time 0.0001828/0.2405, allocations: 8 kB / 0.9807 GB, free: 2.09 MB / 0.6824 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 0.000108/0.2407, allocations: 99.25 kB / 0.9808 GB, free: 1.98 MB / 0.6824 GB
Notification: Performance of simCode: created initialization part: time 0.0001063/0.2408, allocations: 23.98 kB / 0.9809 GB, free: 1.957 MB / 0.6824 GB
Notification: Performance of simCode: created event and clocks part: time 1.673e-06/0.2408, allocations: 0 / 0.9809 GB, free: 1.957 MB / 0.6824 GB
Notification: Performance of simCode: created simulation system equations: time 2.438e-05/0.2408, allocations: 15.94 kB / 0.9809 GB, free: 1.941 MB / 0.6824 GB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0001336/0.2409, allocations: 0 / 0.9809 GB, free: 1.941 MB / 0.6824 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0003049/0.2412, allocations: 150.8 kB / 0.981 GB, free: 1.77 MB / 0.6824 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 6.46e-05/0.2413, allocations: 63.34 kB / 0.9811 GB, free: 1.688 MB / 0.6824 GB
Notification: Performance of simCode: alias equations: time 1.547e-05/0.2413, allocations: 4 kB / 0.9811 GB, free: 1.684 MB / 0.6824 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 2.234e-05/0.2413, allocations: 11.44 kB / 0.9811 GB, free: 1.672 MB / 0.6824 GB
Notification: Performance of SimCode: time 2.8e-07/0.2413, allocations: 0 / 0.9811 GB, free: 1.672 MB / 0.6824 GB
Notification: Performance of Templates: time 0.002745/0.2441, allocations: 348.5 kB / 0.9814 GB, free: 1.34 MB / 0.6824 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: 9.877299434971064]