Running: ./testmodel.py --libraries=/home/hudson/saved_omc/libraries/.openmodelica/libraries --ompython_omhome=/usr BioChem_BioChem.Examples.CellDivison.cell.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 0.0008977/0.0008977, 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 0.0009192/0.0009192, allocations: 173 kB / 23.03 MB, free: 1.539 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 0.9599/0.9599, allocations: 177.1 MB / 203.4 MB, free: 5.562 MB / 186.7 MB
"
[Timeout remaining time 179]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/package.mo): time 0.1061/0.1061, allocations: 9.545 MB / 269.5 MB, free: 3.934 MB / 250.7 MB
"
[Timeout remaining time 180]
Using package BioChem with version 1.1.3 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.3/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(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=2500,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell")
translateModel(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=2500,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell") [Timeout 660]
"Notification: Performance of FrontEnd - loaded program: time 1.242e-06/1.242e-06, allocations: 0 / 342.9 MB, free: 6.734 MB / 266.7 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 1.407e-05/1.531e-05, allocations: 4.844 kB / 342.9 MB, free: 6.73 MB / 266.7 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.005988/0.006003, allocations: 6.073 MB / 349 MB, free: 0.6289 MB / 266.7 MB
Notification: Performance of NFInst.instExpressions: time 0.0003529/0.006356, allocations: 478.8 kB / 349.4 MB, free: 164 kB / 266.7 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0001022/0.006458, allocations: 24 kB / 349.5 MB, free: 140 kB / 266.7 MB
Notification: Performance of NFTyping.typeComponents: time 8.826e-05/0.006546, allocations: 79.41 kB / 349.5 MB, free: 60 kB / 266.7 MB
Notification: Performance of NFTyping.typeBindings: time 0.0001771/0.006723, allocations: 130.8 kB / 349.7 MB, free: 15.93 MB / 282.7 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0001636/0.006887, allocations: 99.83 kB / 349.8 MB, free: 15.83 MB / 282.7 MB
Notification: Performance of NFFlatten.flatten: time 0.0002772/0.007164, allocations: 470.4 kB / 350.2 MB, free: 15.37 MB / 282.7 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.0002003/0.007364, allocations: 166.4 kB / 350.4 MB, free: 15.2 MB / 282.7 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.0001824/0.007547, allocations: 299.5 kB / 350.7 MB, free: 14.91 MB / 282.7 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.0001381/0.007685, allocations: 155.5 kB / 350.8 MB, free: 14.75 MB / 282.7 MB
Notification: Performance of NFPackage.collectConstants: time 4.548e-05/0.00773, allocations: 52 kB / 350.9 MB, free: 14.7 MB / 282.7 MB
Notification: Performance of NFFlatten.collectFunctions: time 4.485e-05/0.007775, allocations: 52 kB / 350.9 MB, free: 14.65 MB / 282.7 MB
Notification: Performance of NFScalarize.scalarize: time 5.346e-05/0.007829, allocations: 107.6 kB / 351 MB, free: 14.55 MB / 282.7 MB
Notification: Performance of NFVerifyModel.verify: time 9.954e-05/0.007928, allocations: 171.6 kB / 351.2 MB, free: 14.38 MB / 282.7 MB
Notification: Performance of NFConvertDAE.convert: time 0.0002897/0.008218, allocations: 354.6 kB / 351.6 MB, free: 14.03 MB / 282.7 MB
Notification: Performance of FrontEnd - DAE generated: time 2.464e-06/0.00822, allocations: 0 / 351.6 MB, free: 14.03 MB / 282.7 MB
Notification: Performance of FrontEnd: time 8.92e-07/0.008221, allocations: 0 / 351.6 MB, free: 14.03 MB / 282.7 MB
Notification: Performance of Transformations before backend: time 5.921e-06/0.008227, allocations: 3.938 kB / 351.6 MB, free: 14.03 MB / 282.7 MB
Notification: Model statistics after passing the front-end and creating the data structures used by the back-end:
 * Number of equations: 148
 * Number of variables: 148
Notification: Performance of Generate backend data structure: time 0.0006493/0.008876, allocations: 0.7615 MB / 352.3 MB, free: 13.22 MB / 282.7 MB
Notification: Performance of prepare preOptimizeDAE: time 3.357e-05/0.00891, allocations: 12.03 kB / 352.3 MB, free: 13.21 MB / 282.7 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 9.481e-05/0.009005, allocations: 100.6 kB / 352.4 MB, free: 13.11 MB / 282.7 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001176/0.009122, allocations: 160 kB / 352.6 MB, free: 12.93 MB / 282.7 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 2.952e-05/0.009152, allocations: 45.69 kB / 352.6 MB, free: 12.89 MB / 282.7 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 5.483e-05/0.009207, allocations: 64.36 kB / 352.7 MB, free: 12.82 MB / 282.7 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0004208/0.009627, allocations: 436.6 kB / 353.1 MB, free: 12.38 MB / 282.7 MB
Notification: Performance of preOpt findStateOrder (simulation): time 1.846e-05/0.009646, allocations: 4.188 kB / 353.1 MB, free: 12.38 MB / 282.7 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 2.47e-05/0.009671, allocations: 20.38 kB / 353.1 MB, free: 12.36 MB / 282.7 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.465e-05/0.009685, allocations: 16.38 kB / 353.2 MB, free: 12.34 MB / 282.7 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0002772/0.009963, allocations: 231.6 kB / 353.4 MB, free: 12.11 MB / 282.7 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.001456/0.01142, allocations: 1.479 MB / 354.9 MB, free: 10.59 MB / 282.7 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.0002757/0.01169, allocations: 242.8 kB / 355.1 MB, free: 10.34 MB / 282.7 MB
Notification: Performance of preOpt resolveLoops (simulation): time 0.0001536/0.01185, allocations: 131.3 kB / 355.2 MB, free: 10.21 MB / 282.7 MB
Notification: Performance of preOpt evalFunc (simulation): time 1.415e-05/0.01186, allocations: 8.594 kB / 355.2 MB, free: 10.2 MB / 282.7 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.001e-05/0.01188, allocations: 41.38 kB / 355.3 MB, free: 10.15 MB / 282.7 MB
Notification: Performance of pre-optimization done (n=35): time 1.693e-06/0.01188, allocations: 4 kB / 355.3 MB, free: 10.15 MB / 282.7 MB
Notification: Performance of matching and sorting (n=42): time 0.001409/0.01329, allocations: 1.069 MB / 356.4 MB, free: 9.047 MB / 282.7 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 2.376e-05/0.01332, allocations: 59.34 kB / 356.4 MB, free: 8.977 MB / 282.7 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0001164/0.01343, allocations: 259.3 kB / 356.7 MB, free: 8.703 MB / 282.7 MB
Notification: Performance of collectPreVariables (initialization): time 1.691e-05/0.01345, allocations: 29.7 kB / 356.7 MB, free: 8.668 MB / 282.7 MB
Notification: Performance of collectInitialEqns (initialization): time 0.0001122/0.01356, allocations: 331.1 kB / 357 MB, free: 8.336 MB / 282.7 MB
Notification: Performance of collectInitialBindings (initialization): time 7.044e-05/0.01363, allocations: 162.6 kB / 357.2 MB, free: 8.176 MB / 282.7 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 7.908e-05/0.01371, allocations: 107.9 kB / 357.3 MB, free: 8.062 MB / 282.7 MB
Notification: Performance of setup shared object (initialization): time 0.0002485/0.01396, allocations: 0.5078 MB / 357.8 MB, free: 7.543 MB / 282.7 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 0.0001056/0.01407, allocations: 89.27 kB / 357.9 MB, free: 7.457 MB / 282.7 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0002012/0.01427, allocations: 334.7 kB / 358.2 MB, free: 7.023 MB / 282.7 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0004456/0.01471, allocations: 0.5679 MB / 358.8 MB, free: 6.344 MB / 282.7 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 4.248e-06/0.01472, allocations: 8 kB / 358.8 MB, free: 6.336 MB / 282.7 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.0004168/0.01513, allocations: 472.9 kB / 359.2 MB, free: 5.871 MB / 282.7 MB
Notification: Performance of prepare postOptimizeDAE: time 1.158e-05/0.01515, allocations: 8 kB / 359.2 MB, free: 5.863 MB / 282.7 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 5.61e-06/0.01515, allocations: 4 kB / 359.3 MB, free: 5.859 MB / 282.7 MB
Notification: Performance of postOpt tearingSystem (initialization): time 1.324e-05/0.01516, allocations: 8 kB / 359.3 MB, free: 5.852 MB / 282.7 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0002561/0.01542, allocations: 140.5 kB / 359.4 MB, free: 5.715 MB / 282.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 8.275e-06/0.01543, allocations: 15.94 kB / 359.4 MB, free: 5.699 MB / 282.7 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 9.115e-05/0.01552, allocations: 23.94 kB / 359.4 MB, free: 5.676 MB / 282.7 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 1.955e-05/0.01554, allocations: 27.98 kB / 359.5 MB, free: 5.648 MB / 282.7 MB
Warning: Assuming fixed start value for the following 8 variables:
         V:VARIABLE(start = 1.0 fixed = true stateSelect=StateSelect.prefer )  \"Compartment volume\" type: Real
         EmptySet.c:VARIABLE(min = 0.0 start = 0.0 unit = \"mol/l\" fixed = true stateSelect=StateSelect.prefer )  \"Current concentration of substance (mM)\" type: Real
         YP.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         Y.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         pM.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         M.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         CP.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
         C2.n:VARIABLE(min = 0.0 unit = \"mol\" fixed = true stateSelect=StateSelect.prefer )  \"Number of moles of substance in pool (mol)\" type: Real
Notification: Model statistics after passing the back-end for initialization:
 * Number of independent subsystems: 25
 * 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 (74):
 * Single equations (assignments): 74
 * 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 0.0001535/0.01569, allocations: 221.3 kB / 359.7 MB, free: 5.426 MB / 282.7 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 4.098e-05/0.01573, allocations: 43.81 kB / 359.7 MB, free: 5.383 MB / 282.7 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 4.718e-05/0.01578, allocations: 39 kB / 359.8 MB, free: 5.348 MB / 282.7 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 3.406e-06/0.01578, allocations: 4 kB / 359.8 MB, free: 5.344 MB / 282.7 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 3.356e-06/0.01579, allocations: 3.938 kB / 359.8 MB, free: 5.34 MB / 282.7 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 5.37e-06/0.01579, allocations: 7.984 kB / 359.8 MB, free: 5.332 MB / 282.7 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0006661/0.01646, allocations: 0.7428 MB / 360.5 MB, free: 4.543 MB / 282.7 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 1.323e-06/0.01646, allocations: 0 / 360.5 MB, free: 4.543 MB / 282.7 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.0002066/0.01667, allocations: 87.89 kB / 360.6 MB, free: 4.457 MB / 282.7 MB
Notification: Performance of postOpt tearingSystem (simulation): time 3.176e-06/0.01667, allocations: 0 / 360.6 MB, free: 4.457 MB / 282.7 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 2e-05/0.01669, allocations: 15.98 kB / 360.6 MB, free: 4.441 MB / 282.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 3.717e-06/0.01669, allocations: 11.88 kB / 360.6 MB, free: 4.43 MB / 282.7 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 1.162e-06/0.0167, allocations: 0 / 360.6 MB, free: 4.43 MB / 282.7 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0007107/0.01741, allocations: 0.5518 MB / 361.2 MB, free: 3.855 MB / 282.7 MB
Notification: Performance of postOpt removeConstants (simulation): time 2.04e-05/0.01743, allocations: 23.86 kB / 361.2 MB, free: 3.832 MB / 282.7 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.737e-05/0.01745, allocations: 15.94 kB / 361.2 MB, free: 3.816 MB / 282.7 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 7.41e-05/0.01753, allocations: 8 kB / 361.2 MB, free: 3.809 MB / 282.7 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 3.206e-05/0.01756, allocations: 27.94 kB / 361.3 MB, free: 3.781 MB / 282.7 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.073e-05/0.01757, allocations: 8 kB / 361.3 MB, free: 3.773 MB / 282.7 MB
Notification: Performance of sorting global known variables: time 5.818e-05/0.01763, allocations: 165.1 kB / 361.4 MB, free: 3.613 MB / 282.7 MB
Notification: Performance of sort global known variables: time 5.1e-08/0.01763, allocations: 0 / 361.4 MB, free: 3.613 MB / 282.7 MB
Notification: Performance of remove unused functions: time 0.000229/0.01786, allocations: 100 kB / 361.5 MB, free: 3.516 MB / 282.7 MB
Notification: Model statistics after passing the back-end for simulation:
 * Number of independent subsystems: 2
 * Number of states: 8 (V,EmptySet.c,C2.n,CP.n,M.n,pM.n,Y.n,YP.n)
 * 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 (42):
 * Single equations (assignments): 42
 * 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 6.984e-05/0.01793, allocations: 115.1 kB / 361.6 MB, free: 3.395 MB / 282.7 MB
Notification: Performance of simCode: created initialization part: time 0.0003207/0.01825, allocations: 315.3 kB / 361.9 MB, free: 3.078 MB / 282.7 MB
Notification: Performance of simCode: created event and clocks part: time 1.312e-06/0.01825, allocations: 1.5 kB / 361.9 MB, free: 3.078 MB / 282.7 MB
Notification: Performance of simCode: created simulation system equations: time 0.0001171/0.01837, allocations: 143.6 kB / 362.1 MB, free: 2.934 MB / 282.7 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0002086/0.01858, allocations: 44.05 kB / 362.1 MB, free: 2.891 MB / 282.7 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.0009512/0.01953, allocations: 0.9841 MB / 363.1 MB, free: 1.871 MB / 282.7 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 6.088e-05/0.01959, allocations: 113.1 kB / 363.2 MB, free: 1.742 MB / 282.7 MB
Notification: Performance of simCode: alias equations: time 8.877e-05/0.01968, allocations: 34.95 kB / 363.3 MB, free: 1.703 MB / 282.7 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 6.505e-05/0.01974, allocations: 36.5 kB / 363.3 MB, free: 1.668 MB / 282.7 MB
Notification: Performance of SimCode: time 3.1e-07/0.01974, allocations: 0 / 363.3 MB, free: 1.668 MB / 282.7 MB
Notification: Performance of Templates: time 0.004803/0.02454, allocations: 3.393 MB / 366.7 MB, free: 14.34 MB / 298.7 MB
"
[Timeout remaining time 660]
make -j1 -f BioChem_BioChem.Examples.CellDivison.cell.makefile [Timeout 660]
(rm -f BioChem_BioChem.Examples.CellDivison.cell.pipe ; mkfifo BioChem_BioChem.Examples.CellDivison.cell.pipe ; head -c 1048576 < BioChem_BioChem.Examples.CellDivison.cell.pipe >> ../files/BioChem_BioChem.Examples.CellDivison.cell.sim & ./BioChem_BioChem.Examples.CellDivison.cell -abortSlowSimulation -alarm=240  -lv LOG_STATS > BioChem_BioChem.Examples.CellDivison.cell.pipe 2>&1) [Timeout 240]
[Calling sys.exit(0), Time elapsed: 2.9364939383231103]