Running: ./testmodel.py --libraries=/home/hudson/saved_omc/libraries/.openmodelica/libraries --ompython_omhome=/usr Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.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 0.00135/0.00135, allocations: 91.55 kB / 20.19 MB, free: 4.348 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 0.001584/0.001584, allocations: 169 kB / 23.5 MB, free: 1.047 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 1.013/1.013, allocations: 177.1 MB / 203.8 MB, free: 5.629 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 1.608/1.608, allocations: 273.5 MB / 0.5213 GB, free: 14.83 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.Examples.PBPK_SingleDoseVenousArteryTissue,tolerance=1e-06,outputFormat="empty",numberOfIntervals=7200,variableFilter="",fileNamePrefix="Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue")
translateModel(Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue,tolerance=1e-06,outputFormat="empty",numberOfIntervals=7200,variableFilter="",fileNamePrefix="Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue") [Timeout 660]
"Notification: Performance of FrontEnd - loaded program: time 1.803e-06/1.803e-06, allocations: 0 / 0.647 GB, free: 38.78 MB / 0.5262 GB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.897e-05/2.077e-05, allocations: 2.312 kB / 0.647 GB, free: 38.78 MB / 0.5262 GB
Notification: Performance of NFInst.instantiate(Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue): time 0.002476/0.002497, allocations: 2.976 MB / 0.6499 GB, free: 36.85 MB / 0.5262 GB
Notification: Performance of NFInst.instExpressions: time 0.0007836/0.00328, allocations: 0.7493 MB / 0.6506 GB, free: 36.35 MB / 0.5262 GB
Notification: Performance of NFInst.updateImplicitVariability: time 9.676e-05/0.003377, allocations: 5 kB / 0.6506 GB, free: 36.35 MB / 0.5262 GB
Notification: Performance of NFTyping.typeComponents: time 0.0001199/0.003497, allocations: 41.86 kB / 0.6507 GB, free: 36.33 MB / 0.5262 GB
Notification: Performance of NFTyping.typeBindings: time 0.0001941/0.003691, allocations: 123.7 kB / 0.6508 GB, free: 36.28 MB / 0.5262 GB
Notification: Performance of NFTyping.typeClassSections: time 0.0001976/0.003888, allocations: 95.03 kB / 0.6509 GB, free: 36.23 MB / 0.5262 GB
Notification: Performance of NFFlatten.flatten: time 0.0002883/0.004177, allocations: 444.2 kB / 0.6513 GB, free: 36 MB / 0.5262 GB
Notification: Performance of NFFlatten.resolveConnections: time 0.0003051/0.004482, allocations: 228.9 kB / 0.6515 GB, free: 35.86 MB / 0.5262 GB
Notification: Performance of NFEvalConstants.evaluate: time 0.0002037/0.004686, allocations: 252.8 kB / 0.6518 GB, free: 35.76 MB / 0.5262 GB
Notification: Performance of NFSimplifyModel.simplify: time 0.0001792/0.004865, allocations: 158.5 kB / 0.6519 GB, free: 35.71 MB / 0.5262 GB
Notification: Performance of NFPackage.collectConstants: time 4.314e-05/0.004908, allocations: 42.12 kB / 0.6519 GB, free: 35.71 MB / 0.5262 GB
Notification: Performance of NFFlatten.collectFunctions: time 3.963e-05/0.004948, allocations: 39.62 kB / 0.652 GB, free: 35.71 MB / 0.5262 GB
Notification: Performance of NFScalarize.scalarize: time 4.377e-05/0.004991, allocations: 88.02 kB / 0.6521 GB, free: 35.65 MB / 0.5262 GB
Notification: Performance of NFVerifyModel.verify: time 9.983e-05/0.005091, allocations: 141 kB / 0.6522 GB, free: 35.59 MB / 0.5262 GB
Notification: Performance of NFConvertDAE.convert: time 0.0002196/0.005311, allocations: 273.8 kB / 0.6525 GB, free: 35.46 MB / 0.5262 GB
Notification: Performance of FrontEnd - DAE generated: time 2.084e-06/0.005313, allocations: 0 / 0.6525 GB, free: 35.46 MB / 0.5262 GB
Notification: Performance of FrontEnd: time 7.51e-07/0.005314, allocations: 0 / 0.6525 GB, free: 35.46 MB / 0.5262 GB
Notification: Performance of Transformations before backend: time 4.639e-06/0.005318, allocations: 0 / 0.6525 GB, free: 35.46 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: 68
 * Number of variables: 68
Notification: Performance of Generate backend data structure: time 0.0006465/0.005965, allocations: 0.6555 MB / 0.6531 GB, free: 34.92 MB / 0.5262 GB
Notification: Performance of prepare preOptimizeDAE: time 3.756e-05/0.006002, allocations: 9.281 kB / 0.6531 GB, free: 34.92 MB / 0.5262 GB
Notification: Performance of preOpt normalInlineFunction (simulation): time 7.801e-05/0.00608, allocations: 52.97 kB / 0.6532 GB, free: 34.9 MB / 0.5262 GB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0002432/0.006324, allocations: 235.7 kB / 0.6534 GB, free: 34.7 MB / 0.5262 GB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 1.758e-05/0.006341, allocations: 19.38 kB / 0.6534 GB, free: 34.7 MB / 0.5262 GB
Notification: Performance of preOpt expandDerOperator (simulation): time 4.177e-05/0.006383, allocations: 36.83 kB / 0.6534 GB, free: 34.68 MB / 0.5262 GB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0003303/0.006713, allocations: 332.3 kB / 0.6538 GB, free: 34.5 MB / 0.5262 GB
Notification: Performance of preOpt findStateOrder (simulation): time 1.516e-05/0.006728, allocations: 5.312 kB / 0.6538 GB, free: 34.49 MB / 0.5262 GB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 2.14e-05/0.00675, allocations: 11.53 kB / 0.6538 GB, free: 34.48 MB / 0.5262 GB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.063e-05/0.00676, allocations: 7.969 kB / 0.6538 GB, free: 34.48 MB / 0.5262 GB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.000193/0.006953, allocations: 135.1 kB / 0.6539 GB, free: 34.46 MB / 0.5262 GB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.000917/0.00787, allocations: 0.8548 MB / 0.6547 GB, free: 33.86 MB / 0.5262 GB
Notification: Performance of preOpt comSubExp (simulation): time 0.0002581/0.008129, allocations: 144.2 kB / 0.6549 GB, free: 33.8 MB / 0.5262 GB
Notification: Performance of preOpt resolveLoops (simulation): time 7.359e-05/0.008202, allocations: 49.58 kB / 0.6549 GB, free: 33.78 MB / 0.5262 GB
Notification: Performance of preOpt evalFunc (simulation): time 2e-05/0.008222, allocations: 5.031 kB / 0.6549 GB, free: 33.78 MB / 0.5262 GB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 0.0001617/0.008384, allocations: 126.8 kB / 0.6551 GB, free: 33.71 MB / 0.5262 GB
Notification: Performance of preOpt simplifyInStream (simulation): time 0.0001098/0.008494, allocations: 39.94 kB / 0.6551 GB, free: 33.7 MB / 0.5262 GB
Notification: Performance of pre-optimization done (n=25): time 1.502e-06/0.008495, allocations: 0 / 0.6551 GB, free: 33.7 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=25): time 0.0003521/0.008847, allocations: 227 kB / 0.6553 GB, free: 33.62 MB / 0.5262 GB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.013e-05/0.008867, allocations: 58.16 kB / 0.6554 GB, free: 33.55 MB / 0.5262 GB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0001391/0.009006, allocations: 244 kB / 0.6556 GB, free: 33.36 MB / 0.5262 GB
Notification: Performance of collectPreVariables (initialization): time 1.896e-05/0.009025, allocations: 35.45 kB / 0.6556 GB, free: 33.32 MB / 0.5262 GB
Notification: Performance of collectInitialEqns (initialization): time 6.583e-05/0.009091, allocations: 216.2 kB / 0.6558 GB, free: 33.13 MB / 0.5262 GB
Notification: Performance of collectInitialBindings (initialization): time 4.958e-05/0.009141, allocations: 101.3 kB / 0.6559 GB, free: 33.05 MB / 0.5262 GB
Notification: Performance of simplifyInitialFunctions (initialization): time 9.184e-05/0.009233, allocations: 71.94 kB / 0.656 GB, free: 33 MB / 0.5262 GB
Notification: Performance of setup shared object (initialization): time 5.212e-05/0.009285, allocations: 0.5006 MB / 0.6565 GB, free: 32.5 MB / 0.5262 GB
Notification: Performance of preBalanceInitialSystem (initialization): time 0.0001273/0.009412, allocations: 90.94 kB / 0.6566 GB, free: 32.45 MB / 0.5262 GB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0001509/0.009563, allocations: 227.4 kB / 0.6568 GB, free: 32.22 MB / 0.5262 GB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0002422/0.009805, allocations: 256 kB / 0.657 GB, free: 32.02 MB / 0.5262 GB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 3.857e-06/0.009809, allocations: 5.062 kB / 0.657 GB, free: 32.01 MB / 0.5262 GB
Notification: Performance of matching and sorting (n=41) (initialization): time 0.0003636/0.01017, allocations: 328.7 kB / 0.6574 GB, free: 31.84 MB / 0.5262 GB
Notification: Performance of prepare postOptimizeDAE: time 2.48e-05/0.0102, allocations: 36.16 kB / 0.6574 GB, free: 31.81 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 5.42e-06/0.0102, allocations: 2.906 kB / 0.6574 GB, free: 31.81 MB / 0.5262 GB
Notification: Performance of postOpt tearingSystem (initialization): time 1.531e-05/0.01022, allocations: 4.125 kB / 0.6574 GB, free: 31.81 MB / 0.5262 GB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0001927/0.01041, allocations: 85.14 kB / 0.6575 GB, free: 31.8 MB / 0.5262 GB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 9.928e-06/0.01042, allocations: 4.25 kB / 0.6575 GB, free: 31.8 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 9.565e-05/0.01052, allocations: 19.73 kB / 0.6575 GB, free: 31.8 MB / 0.5262 GB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 1.788e-05/0.01053, allocations: 13.78 kB / 0.6575 GB, free: 31.79 MB / 0.5262 GB
Warning: Assuming fixed start value for the following 5 variables:
         tissue.AUC:VARIABLE(unit = \"kg.s/m3\" fixed = true )  \"area under curve\" type: Real
         arteries.AUC:VARIABLE(unit = \"kg.s/m3\" fixed = true )  \"area under curve\" type: Real
         veins.AUC:VARIABLE(unit = \"kg.s/m3\" fixed = true )  \"area under curve\" type: Real
         singleDose.TotalCumulativeMass:VARIABLE(min = -1e-12 unit = \"kg\" fixed = true )  \"Total dose adminitrated by this source\" type: Real
         singleDose.variableDose.TotalCumulativeMass:VARIABLE(min = -1e-12 unit = \"kg\" fixed = true )  \"Total dose adminitrated by this source\" type: Real
Notification: Model statistics after passing the back-end for initialization:
 * Number of independent subsystems: 11
 * Number of states: 0 ()
 * Number of discrete variables: 5 (singleDose.pulse.count,$PRE.singleDose.pulse.count,singleDose.pulse.T_start,$PRE.singleDose.pulse.T_start,$whenCondition1)
 * Number of discrete states: 0 ()
 * Number of clocked states: 0 ()
 * Top-level inputs: 0
Notification: Strong component statistics for initialization (40):
 * Single equations (assignments): 39
 * Array equations: 0
 * Algorithm blocks: 1
 * 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 0.0001199/0.01065, allocations: 198.8 kB / 0.6577 GB, free: 31.61 MB / 0.5262 GB
Notification: Performance of postOpt lateInlineFunction (simulation): time 3.08e-05/0.01068, allocations: 25.97 kB / 0.6577 GB, free: 31.6 MB / 0.5262 GB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 0.0002473/0.01093, allocations: 196.3 kB / 0.6579 GB, free: 31.51 MB / 0.5262 GB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 3.968e-06/0.01094, allocations: 0 / 0.6579 GB, free: 31.51 MB / 0.5262 GB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.272e-06/0.01094, allocations: 0 / 0.6579 GB, free: 31.51 MB / 0.5262 GB
Notification: Performance of postOpt removeConstants (simulation): time 2.015e-05/0.01096, allocations: 13.53 kB / 0.6579 GB, free: 31.5 MB / 0.5262 GB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.624e-05/0.01098, allocations: 13.22 kB / 0.6579 GB, free: 31.5 MB / 0.5262 GB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 7.377e-05/0.01106, allocations: 9.688 kB / 0.658 GB, free: 31.49 MB / 0.5262 GB
Notification: Performance of postOpt findZeroCrossings (simulation): time 5.036e-05/0.01111, allocations: 27.31 kB / 0.658 GB, free: 31.48 MB / 0.5262 GB
Notification: Performance of postOpt createDAEmodeBDAE (simulation): time 0.0004165/0.01152, allocations: 342.5 kB / 0.6583 GB, free: 31.29 MB / 0.5262 GB
Notification: Performance of postOpt symbolicJacobianDAE (simulation): time 0.0003374/0.01186, allocations: 0.509 MB / 0.6588 GB, free: 30.93 MB / 0.5262 GB
Notification: Performance of postOpt setEvaluationStage (simulation): time 8.72e-05/0.01195, allocations: 81.08 kB / 0.6589 GB, free: 30.89 MB / 0.5262 GB
Notification: Performance of sorting global known variables: time 6.209e-05/0.01201, allocations: 171.7 kB / 0.659 GB, free: 30.77 MB / 0.5262 GB
Notification: Performance of Backend: time 3.5e-07/0.01201, allocations: 2.938 kB / 0.659 GB, free: 30.77 MB / 0.5262 GB
Notification: Performance of simCode: created initialization part: time 0.0003901/0.0124, allocations: 294.4 kB / 0.6593 GB, free: 30.57 MB / 0.5262 GB
Notification: Performance of SimCode: time 0.00145/0.01385, allocations: 1.508 MB / 0.6608 GB, free: 29.34 MB / 0.5262 GB
Notification: Performance of Templates: time 0.00507/0.01892, allocations: 3.528 MB / 0.6642 GB, free: 29.06 MB / 0.5262 GB
"
[Timeout remaining time 660]
make -j1 -f Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.makefile [Timeout 660]
(rm -f Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.pipe ; mkfifo Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.pipe ; head -c 1048576 < Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.pipe >> ../files/Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.sim & ./Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue -abortSlowSimulation -alarm=240  -lv LOG_STATS > Pharmacolibrary_Pharmacolibrary.Examples.PBPK_SingleDoseVenousArteryTissue.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 4.741496222792193]