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 0.001016/0.001016, allocations: 92.2 kB / 20.19 MB, free: 4.359 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 0.00108/0.00108, allocations: 173 kB / 23.49 MB, free: 1.059 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 1.053/1.053, allocations: 177.1 MB / 203.8 MB, free: 5.637 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 0.04177/0.04177, allocations: 9.55 MB / 269.8 MB, free: 4.008 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 1.293e-06/1.293e-06, allocations: 0 / 342.9 MB, free: 8.133 MB / 314.7 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 2.156e-05/2.285e-05, allocations: 2.312 kB / 342.9 MB, free: 8.129 MB / 314.7 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.005759/0.005782, allocations: 6.052 MB / 349 MB, free: 2.055 MB / 314.7 MB
Notification: Performance of NFInst.instExpressions: time 0.0005269/0.006309, allocations: 482.7 kB / 349.4 MB, free: 1.582 MB / 314.7 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0001307/0.006439, allocations: 24 kB / 349.5 MB, free: 1.559 MB / 314.7 MB
Notification: Performance of NFTyping.typeComponents: time 0.0001172/0.006557, allocations: 83.34 kB / 349.5 MB, free: 1.477 MB / 314.7 MB
Notification: Performance of NFTyping.typeBindings: time 0.0002053/0.006762, allocations: 122.8 kB / 349.7 MB, free: 1.355 MB / 314.7 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0002044/0.006966, allocations: 103.8 kB / 349.8 MB, free: 1.254 MB / 314.7 MB
Notification: Performance of NFFlatten.flatten: time 0.0003064/0.007273, allocations: 470.4 kB / 350.2 MB, free: 0.793 MB / 314.7 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.000226/0.007499, allocations: 166.4 kB / 350.4 MB, free: 0.625 MB / 314.7 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.0002051/0.007704, allocations: 303.4 kB / 350.7 MB, free: 336 kB / 314.7 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.0001594/0.007863, allocations: 155.5 kB / 350.8 MB, free: 180 kB / 314.7 MB
Notification: Performance of NFPackage.collectConstants: time 5.094e-05/0.007914, allocations: 48 kB / 350.9 MB, free: 132 kB / 314.7 MB
Notification: Performance of NFFlatten.collectFunctions: time 4.18e-05/0.007956, allocations: 48 kB / 350.9 MB, free: 84 kB / 314.7 MB
Notification: Performance of NFScalarize.scalarize: time 7.124e-05/0.008027, allocations: 115.6 kB / 351 MB, free: 15.97 MB / 330.7 MB
Notification: Performance of NFVerifyModel.verify: time 0.0001127/0.00814, allocations: 171.6 kB / 351.2 MB, free: 15.8 MB / 330.7 MB
Notification: Performance of NFConvertDAE.convert: time 0.0002875/0.008427, allocations: 342.7 kB / 351.5 MB, free: 15.46 MB / 330.7 MB
Notification: Performance of FrontEnd - DAE generated: time 6.442e-06/0.008434, allocations: 8 kB / 351.5 MB, free: 15.46 MB / 330.7 MB
Notification: Performance of FrontEnd: time 8.92e-07/0.008435, allocations: 0 / 351.5 MB, free: 15.46 MB / 330.7 MB
Notification: Performance of Transformations before backend: time 6.823e-06/0.008442, allocations: 3.984 kB / 351.5 MB, free: 15.45 MB / 330.7 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 0.0007154/0.009157, allocations: 0.7576 MB / 352.3 MB, free: 14.66 MB / 330.7 MB
Notification: Performance of prepare preOptimizeDAE: time 3.669e-05/0.009194, allocations: 8.031 kB / 352.3 MB, free: 14.65 MB / 330.7 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 0.0001056/0.009299, allocations: 108.5 kB / 352.4 MB, free: 14.54 MB / 330.7 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001197/0.009419, allocations: 163.9 kB / 352.6 MB, free: 14.36 MB / 330.7 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 3.257e-05/0.009452, allocations: 45.69 kB / 352.6 MB, free: 14.31 MB / 330.7 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 5.792e-05/0.009509, allocations: 60.38 kB / 352.7 MB, free: 14.25 MB / 330.7 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.0004637/0.009973, allocations: 440.7 kB / 353.1 MB, free: 13.8 MB / 330.7 MB
Notification: Performance of preOpt findStateOrder (simulation): time 1.944e-05/0.009993, allocations: 8.078 kB / 353.1 MB, free: 13.79 MB / 330.7 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 3.193e-05/0.01002, allocations: 24.38 kB / 353.1 MB, free: 13.77 MB / 330.7 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.335e-05/0.01004, allocations: 12.38 kB / 353.2 MB, free: 13.76 MB / 330.7 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0003015/0.01034, allocations: 227.6 kB / 353.4 MB, free: 13.54 MB / 330.7 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.001577/0.01192, allocations: 1.475 MB / 354.9 MB, free: 12.02 MB / 330.7 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.0003147/0.01223, allocations: 246.8 kB / 355.1 MB, free: 11.76 MB / 330.7 MB
Notification: Performance of preOpt resolveLoops (simulation): time 0.0001412/0.01237, allocations: 124.2 kB / 355.2 MB, free: 11.64 MB / 330.7 MB
Notification: Performance of preOpt evalFunc (simulation): time 1.451e-05/0.01239, allocations: 4 kB / 355.2 MB, free: 11.63 MB / 330.7 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 2.447e-05/0.01241, allocations: 41.39 kB / 355.3 MB, free: 11.58 MB / 330.7 MB
Notification: Performance of pre-optimization done (n=35): time 1.904e-06/0.01241, allocations: 0 / 355.3 MB, free: 11.58 MB / 330.7 MB
Notification: Performance of matching and sorting (n=42): time 0.001612/0.01403, allocations: 1.078 MB / 356.3 MB, free: 10.47 MB / 330.7 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 3.37e-05/0.01406, allocations: 55.41 kB / 356.4 MB, free: 10.4 MB / 330.7 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.000137/0.0142, allocations: 251.3 kB / 356.6 MB, free: 10.14 MB / 330.7 MB
Notification: Performance of collectPreVariables (initialization): time 1.94e-05/0.01422, allocations: 37.7 kB / 356.7 MB, free: 10.09 MB / 330.7 MB
Notification: Performance of collectInitialEqns (initialization): time 0.0001231/0.01434, allocations: 323.1 kB / 357 MB, free: 9.773 MB / 330.7 MB
Notification: Performance of collectInitialBindings (initialization): time 8.386e-05/0.01442, allocations: 166.6 kB / 357.2 MB, free: 9.609 MB / 330.7 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 8.619e-05/0.01451, allocations: 99.95 kB / 357.2 MB, free: 9.504 MB / 330.7 MB
Notification: Performance of setup shared object (initialization): time 0.0001237/0.01463, allocations: 0.5117 MB / 357.8 MB, free: 8.98 MB / 330.7 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 0.0001167/0.01475, allocations: 89.25 kB / 357.8 MB, free: 8.895 MB / 330.7 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0002222/0.01497, allocations: 347.2 kB / 358.2 MB, free: 8.449 MB / 330.7 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.0004991/0.01547, allocations: 0.5639 MB / 358.8 MB, free: 7.773 MB / 330.7 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 3.126e-06/0.01547, allocations: 11.94 kB / 358.8 MB, free: 7.762 MB / 330.7 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.0004762/0.01595, allocations: 473.4 kB / 359.2 MB, free: 7.297 MB / 330.7 MB
Notification: Performance of prepare postOptimizeDAE: time 1.636e-05/0.01597, allocations: 8 kB / 359.2 MB, free: 7.289 MB / 330.7 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 8.667e-06/0.01597, allocations: 8 kB / 359.2 MB, free: 7.281 MB / 330.7 MB
Notification: Performance of postOpt tearingSystem (initialization): time 1.866e-05/0.01599, allocations: 11.98 kB / 359.3 MB, free: 7.27 MB / 330.7 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0002883/0.01628, allocations: 135.8 kB / 359.4 MB, free: 7.137 MB / 330.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 1.351e-05/0.0163, allocations: 11.94 kB / 359.4 MB, free: 7.125 MB / 330.7 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 0.0001088/0.0164, allocations: 23.94 kB / 359.4 MB, free: 7.102 MB / 330.7 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 2.124e-05/0.01643, allocations: 24 kB / 359.4 MB, free: 7.078 MB / 330.7 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 0.0002233/0.01665, allocations: 219 kB / 359.7 MB, free: 6.855 MB / 330.7 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 5.193e-05/0.0167, allocations: 43.81 kB / 359.7 MB, free: 6.812 MB / 330.7 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 6.024e-05/0.01676, allocations: 39 kB / 359.7 MB, free: 6.777 MB / 330.7 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 4.228e-06/0.01676, allocations: 4 kB / 359.7 MB, free: 6.773 MB / 330.7 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 6.001e-06/0.01677, allocations: 4 kB / 359.7 MB, free: 6.77 MB / 330.7 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 5.671e-06/0.01678, allocations: 3.984 kB / 359.8 MB, free: 6.766 MB / 330.7 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.0007569/0.01753, allocations: 0.7428 MB / 360.5 MB, free: 5.977 MB / 330.7 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 2.194e-06/0.01754, allocations: 4 kB / 360.5 MB, free: 5.973 MB / 330.7 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.0002288/0.01776, allocations: 87.92 kB / 360.6 MB, free: 5.887 MB / 330.7 MB
Notification: Performance of postOpt tearingSystem (simulation): time 4.027e-06/0.01777, allocations: 4 kB / 360.6 MB, free: 5.883 MB / 330.7 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 2.233e-05/0.01779, allocations: 15.98 kB / 360.6 MB, free: 5.867 MB / 330.7 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 3.467e-06/0.01779, allocations: 3.938 kB / 360.6 MB, free: 5.863 MB / 330.7 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 2.775e-06/0.0178, allocations: 4 kB / 360.6 MB, free: 5.859 MB / 330.7 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0004986/0.0183, allocations: 0.5556 MB / 361.2 MB, free: 5.273 MB / 330.7 MB
Notification: Performance of postOpt removeConstants (simulation): time 1.932e-05/0.01831, allocations: 23.8 kB / 361.2 MB, free: 5.25 MB / 330.7 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 2.881e-05/0.01834, allocations: 11.94 kB / 361.2 MB, free: 5.238 MB / 330.7 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 8.226e-05/0.01843, allocations: 8 kB / 361.2 MB, free: 5.23 MB / 330.7 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 4.456e-05/0.01847, allocations: 31.94 kB / 361.2 MB, free: 5.199 MB / 330.7 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 1.068e-05/0.01848, allocations: 8 kB / 361.2 MB, free: 5.191 MB / 330.7 MB
Notification: Performance of sorting global known variables: time 6.399e-05/0.01855, allocations: 165.1 kB / 361.4 MB, free: 5.031 MB / 330.7 MB
Notification: Performance of sort global known variables: time 6e-08/0.01855, allocations: 0 / 361.4 MB, free: 5.031 MB / 330.7 MB
Notification: Performance of remove unused functions: time 0.0002787/0.01882, allocations: 104 kB / 361.5 MB, free: 4.93 MB / 330.7 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 0.000102/0.01893, allocations: 99.19 kB / 361.6 MB, free: 4.824 MB / 330.7 MB
Notification: Performance of simCode: created initialization part: time 0.0003593/0.01929, allocations: 324.1 kB / 361.9 MB, free: 4.508 MB / 330.7 MB
Notification: Performance of simCode: created event and clocks part: time 1.683e-06/0.01929, allocations: 4 kB / 361.9 MB, free: 4.504 MB / 330.7 MB
Notification: Performance of simCode: created simulation system equations: time 0.0001377/0.01942, allocations: 139.6 kB / 362.1 MB, free: 4.363 MB / 330.7 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0002691/0.01969, allocations: 52.5 kB / 362.1 MB, free: 4.316 MB / 330.7 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.001132/0.02083, allocations: 0.992 MB / 363.1 MB, free: 3.285 MB / 330.7 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 6.554e-05/0.02089, allocations: 109.1 kB / 363.2 MB, free: 3.16 MB / 330.7 MB
Notification: Performance of simCode: alias equations: time 0.0001051/0.021, allocations: 42.95 kB / 363.3 MB, free: 3.117 MB / 330.7 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 6.868e-05/0.02107, allocations: 28.5 kB / 363.3 MB, free: 3.09 MB / 330.7 MB
Notification: Performance of SimCode: time 1.122e-06/0.02107, allocations: 0 / 363.3 MB, free: 3.09 MB / 330.7 MB
Notification: Performance of Templates: time 0.005371/0.02644, allocations: 3.248 MB / 366.5 MB, free: 15.91 MB / 346.7 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: 3.006082106148824]