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 0.0009852/0.0009852, allocations: 84.44 kB / 19.93 MB, free: 4.617 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 0.0009243/0.0009243, allocations: 173.9 kB / 23.21 MB, free: 1.332 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 / 203.5 MB, free: 5.738 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 1.671/1.671, allocations: 273.5 MB / 0.5209 GB, free: 15.02 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 2.755e-06/2.755e-06, allocations: 0 / 0.7558 GB, free: 10.77 MB / 0.5887 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 3.255e-05/3.531e-05, allocations: 3.969 kB / 0.7558 GB, free: 10.77 MB / 0.5887 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.DevModels.Palivizumab.ViralInfectionDynamics1): time 0.002044/0.00208, allocations: 0.5198 MB / 0.7563 GB, free: 10.27 MB / 0.5887 GB
Notification: Performance of NFInst.instExpressions: time 0.0001948/0.002274, allocations: 19.91 kB / 0.7563 GB, free: 10.25 MB / 0.5887 GB
Notification: Performance of NFInst.updateImplicitVariability: time 3.693e-05/0.002311, allocations: 0 / 0.7563 GB, free: 10.25 MB / 0.5887 GB
Notification: Performance of NFTyping.typeComponents: time 2.028e-05/0.002332, allocations: 1.203 kB / 0.7563 GB, free: 10.25 MB / 0.5887 GB
Notification: Performance of NFTyping.typeBindings: time 4.836e-05/0.00238, allocations: 5.25 kB / 0.7563 GB, free: 10.24 MB / 0.5887 GB
Notification: Performance of NFTyping.typeClassSections: time 0.0001398/0.00252, allocations: 11.97 kB / 0.7563 GB, free: 10.23 MB / 0.5887 GB
Notification: Performance of NFFlatten.flatten: time 7.788e-05/0.002598, allocations: 20.25 kB / 0.7563 GB, free: 10.21 MB / 0.5887 GB
Notification: Performance of NFFlatten.resolveConnections: time 6.419e-05/0.002662, allocations: 0 / 0.7563 GB, free: 10.21 MB / 0.5887 GB
Notification: Performance of NFEvalConstants.evaluate: time 5.638e-05/0.002718, allocations: 11.98 kB / 0.7563 GB, free: 10.2 MB / 0.5887 GB
Notification: Performance of NFSimplifyModel.simplify: time 8.175e-05/0.0028, allocations: 9.297 kB / 0.7564 GB, free: 10.2 MB / 0.5887 GB
Notification: Performance of NFPackage.collectConstants: time 2.691e-05/0.002827, allocations: 4 kB / 0.7564 GB, free: 10.19 MB / 0.5887 GB
Notification: Performance of NFFlatten.collectFunctions: time 1.063e-05/0.002838, allocations: 4 kB / 0.7564 GB, free: 10.19 MB / 0.5887 GB
Notification: Performance of NFScalarize.scalarize: time 1.954e-05/0.002857, allocations: 1.312 kB / 0.7564 GB, free: 10.19 MB / 0.5887 GB
Notification: Performance of NFVerifyModel.verify: time 2.642e-05/0.002884, allocations: 9.297 kB / 0.7564 GB, free: 10.18 MB / 0.5887 GB
Notification: Performance of NFConvertDAE.convert: time 8.153e-05/0.002965, allocations: 11.97 kB / 0.7564 GB, free: 10.17 MB / 0.5887 GB
Notification: Performance of FrontEnd - DAE generated: time 2.615e-06/0.002968, allocations: 5.312 kB / 0.7564 GB, free: 10.16 MB / 0.5887 GB
Notification: Performance of FrontEnd: time 6.51e-07/0.002968, allocations: 0 / 0.7564 GB, free: 10.16 MB / 0.5887 GB
Notification: Performance of Transformations before backend: time 6.092e-06/0.002974, allocations: 0 / 0.7564 GB, free: 10.16 MB / 0.5887 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 0.0004342/0.003409, allocations: 258.3 kB / 0.7566 GB, free: 9.879 MB / 0.5887 GB
Notification: Performance of prepare preOptimizeDAE: time 4.922e-05/0.003458, allocations: 16.03 kB / 0.7566 GB, free: 9.863 MB / 0.5887 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 4.049e-05/0.003498, allocations: 4.922 kB / 0.7567 GB, free: 9.859 MB / 0.5887 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001105/0.003609, allocations: 117.7 kB / 0.7568 GB, free: 9.719 MB / 0.5887 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 1.43e-05/0.003623, allocations: 384 / 0.7568 GB, free: 9.719 MB / 0.5887 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 2.352e-05/0.003647, allocations: 384 / 0.7568 GB, free: 9.719 MB / 0.5887 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0001181/0.003765, allocations: 42.25 kB / 0.7568 GB, free: 9.672 MB / 0.5887 GB
Notification: Performance of preOpt findStateOrder (simulation): time 1.034e-05/0.003775, allocations: 192 / 0.7568 GB, free: 9.672 MB / 0.5887 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 1.057e-05/0.003786, allocations: 384 / 0.7568 GB, free: 9.672 MB / 0.5887 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 5.571e-06/0.003791, allocations: 1.688 kB / 0.7568 GB, free: 9.672 MB / 0.5887 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 4.091e-05/0.003832, allocations: 11.94 kB / 0.7568 GB, free: 9.66 MB / 0.5887 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.000163/0.003995, allocations: 109.4 kB / 0.7569 GB, free: 9.523 MB / 0.5887 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0003575/0.004353, allocations: 66.66 kB / 0.757 GB, free: 9.449 MB / 0.5887 GB
Notification: Performance of preOpt resolveLoops (simulation): time 2.979e-05/0.004382, allocations: 12.84 kB / 0.757 GB, free: 9.434 MB / 0.5887 GB
Notification: Performance of preOpt evalFunc (simulation): time 1.329e-05/0.004396, allocations: 0 / 0.757 GB, free: 9.434 MB / 0.5887 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.459e-05/0.00442, allocations: 34.56 kB / 0.757 GB, free: 9.391 MB / 0.5887 GB
Notification: Performance of pre-optimization done (n=3): time 1.523e-06/0.004422, allocations: 0 / 0.757 GB, free: 9.391 MB / 0.5887 GB
Notification: Performance of matching and sorting (n=3): time 0.0001956/0.004617, allocations: 61.11 kB / 0.7571 GB, free: 9.328 MB / 0.5887 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 4.344e-05/0.004661, allocations: 51.41 kB / 0.7571 GB, free: 9.266 MB / 0.5887 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 8.019e-05/0.004741, allocations: 109.7 kB / 0.7572 GB, free: 9.148 MB / 0.5887 GB
Notification: Performance of collectPreVariables (initialization): time 1.333e-05/0.004754, allocations: 31.12 kB / 0.7573 GB, free: 9.113 MB / 0.5887 GB
Notification: Performance of collectInitialEqns (initialization): time 3.538e-05/0.00479, allocations: 84.14 kB / 0.7574 GB, free: 9.027 MB / 0.5887 GB
Notification: Performance of collectInitialBindings (initialization): time 3.503e-05/0.004825, allocations: 23.78 kB / 0.7574 GB, free: 9.004 MB / 0.5887 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 3.628e-05/0.004861, allocations: 17.7 kB / 0.7574 GB, free: 8.98 MB / 0.5887 GB
Notification: Performance of setup shared object (initialization): time 0.0001008/0.004962, allocations: 314.8 kB / 0.7577 GB, free: 8.664 MB / 0.5887 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 2.525e-05/0.004987, allocations: 4 kB / 0.7577 GB, free: 8.66 MB / 0.5887 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 1.957e-05/0.005007, allocations: 11.98 kB / 0.7577 GB, free: 8.648 MB / 0.5887 GB
Notification: Performance of analyzeInitialSystem (initialization): time 0.000294/0.005301, allocations: 64.83 kB / 0.7578 GB, free: 8.582 MB / 0.5887 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 2.254e-06/0.005303, allocations: 0 / 0.7578 GB, free: 8.582 MB / 0.5887 GB
Notification: Performance of matching and sorting (n=6) (initialization): time 0.0001208/0.005424, allocations: 65.58 kB / 0.7578 GB, free: 8.512 MB / 0.5887 GB
Notification: Performance of prepare postOptimizeDAE: time 1.618e-05/0.00544, allocations: 8 kB / 0.7578 GB, free: 8.504 MB / 0.5887 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 5.721e-06/0.005446, allocations: 4 kB / 0.7578 GB, free: 8.5 MB / 0.5887 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.575e-05/0.005461, allocations: 0 / 0.7578 GB, free: 8.5 MB / 0.5887 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 6.872e-05/0.00553, allocations: 17.3 kB / 0.7579 GB, free: 8.484 MB / 0.5887 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 6.131e-06/0.005536, allocations: 0 / 0.7579 GB, free: 8.484 MB / 0.5887 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 2.212e-05/0.005558, allocations: 4.312 kB / 0.7579 GB, free: 8.48 MB / 0.5887 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 6.763e-06/0.005565, allocations: 0 / 0.7579 GB, free: 8.48 MB / 0.5887 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 0.0001371/0.005702, allocations: 117.8 kB / 0.758 GB, free: 8.355 MB / 0.5887 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 1.277e-05/0.005715, allocations: 4 kB / 0.758 GB, free: 8.352 MB / 0.5887 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 2.697e-05/0.005742, allocations: 7.688 kB / 0.758 GB, free: 8.34 MB / 0.5887 GB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 2.365e-06/0.005744, allocations: 0 / 0.758 GB, free: 8.34 MB / 0.5887 GB
Notification: Performance of postOpt constantLinearSystem (simulation): time 5.5e-06/0.00575, allocations: 0 / 0.758 GB, free: 8.34 MB / 0.5887 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 4.879e-06/0.005755, allocations: 3.938 kB / 0.758 GB, free: 8.336 MB / 0.5887 GB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 9.233e-05/0.005847, allocations: 113.3 kB / 0.7581 GB, free: 8.195 MB / 0.5887 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.763e-06/0.005849, allocations: 0 / 0.7581 GB, free: 8.195 MB / 0.5887 GB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 6.874e-05/0.005917, allocations: 5.422 kB / 0.7581 GB, free: 8.191 MB / 0.5887 GB
Notification: Performance of postOpt tearingSystem (simulation): time 3.186e-06/0.005921, allocations: 0 / 0.7581 GB, free: 8.191 MB / 0.5887 GB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 8.997e-06/0.00593, allocations: 4 kB / 0.7581 GB, free: 8.188 MB / 0.5887 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 3.496e-06/0.005933, allocations: 3.984 kB / 0.7581 GB, free: 8.184 MB / 0.5887 GB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 2.645e-06/0.005936, allocations: 7.938 kB / 0.7581 GB, free: 8.176 MB / 0.5887 GB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0001645/0.0061, allocations: 85.06 kB / 0.7582 GB, free: 8.074 MB / 0.5887 GB
Notification: Performance of postOpt removeConstants (simulation): time 9.879e-06/0.00611, allocations: 7.953 kB / 0.7582 GB, free: 8.066 MB / 0.5887 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 1.282e-05/0.006123, allocations: 0 / 0.7582 GB, free: 8.066 MB / 0.5887 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 2.458e-05/0.006148, allocations: 0 / 0.7582 GB, free: 8.066 MB / 0.5887 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 2.015e-05/0.006168, allocations: 8.031 kB / 0.7582 GB, free: 8.059 MB / 0.5887 GB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 4.038e-06/0.006172, allocations: 0 / 0.7582 GB, free: 8.059 MB / 0.5887 GB
Notification: Performance of sorting global known variables: time 3.648e-05/0.006208, allocations: 83.28 kB / 0.7583 GB, free: 7.977 MB / 0.5887 GB
Notification: Performance of sort global known variables: time 9e-08/0.006208, allocations: 3.938 kB / 0.7583 GB, free: 7.973 MB / 0.5887 GB
Notification: Performance of remove unused functions: time 0.0002044/0.006413, allocations: 13.25 kB / 0.7583 GB, free: 7.961 MB / 0.5887 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 0.0001018/0.006515, allocations: 98.67 kB / 0.7584 GB, free: 7.859 MB / 0.5887 GB
Notification: Performance of simCode: created initialization part: time 0.0001092/0.006624, allocations: 31.92 kB / 0.7584 GB, free: 7.828 MB / 0.5887 GB
Notification: Performance of simCode: created event and clocks part: time 2.184e-06/0.006626, allocations: 0 / 0.7584 GB, free: 7.828 MB / 0.5887 GB
Notification: Performance of simCode: created simulation system equations: time 2.199e-05/0.006648, allocations: 11.98 kB / 0.7584 GB, free: 7.816 MB / 0.5887 GB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0001631/0.006811, allocations: 6.578 kB / 0.7585 GB, free: 7.812 MB / 0.5887 GB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0003232/0.007134, allocations: 162.4 kB / 0.7586 GB, free: 7.621 MB / 0.5887 GB
Notification: Performance of simCode: some other stuff during SimCode phase: time 5.34e-05/0.007188, allocations: 67.33 kB / 0.7587 GB, free: 7.535 MB / 0.5887 GB
Notification: Performance of simCode: all other stuff during SimCode phase: time 2.96e-05/0.007217, allocations: 12.5 kB / 0.7587 GB, free: 7.523 MB / 0.5887 GB
Notification: Performance of SimCode: time 8.71e-07/0.007218, allocations: 0 / 0.7587 GB, free: 7.523 MB / 0.5887 GB
Notification: Performance of Templates: time 0.001846/0.009064, allocations: 0.6082 MB / 0.7593 GB, free: 6.922 MB / 0.5887 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: 6.517136361915618]