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 4.0.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.0.0+maint.om/package.mo): time 0.001335/0.001335, allocations: 113.9 kB / 18.94 MB, free: 2.93 MB / 14.72 MB
"
[Timeout remaining time 180]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.0.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.0.0+maint.om/package.mo): time 0.001413/0.001413, allocations: 190.4 kB / 22.22 MB, free: 5.102 MB / 14.72 MB
"
[Timeout remaining time 180]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.0.0+maint.om/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.0.0+maint.om/package.mo): time 1.418/1.418, allocations: 225.6 MB / 251 MB, free: 13.01 MB / 206.1 MB
"
[Timeout remaining time 178]
loadFile("/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.2-master/package.mo", uses=false) [Timeout 180]
"Notification: Performance of loadFile(/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.2-master/package.mo): time 0.0694/0.0694, allocations: 12.44 MB / 318.7 MB, free: 13.03 MB / 254.1 MB
"
[Timeout remaining time 180]
Using package BioChem with version 1.1.2 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/BioChem 1.1.2-master/package.mo)
Using package Modelica with version 4.0.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Modelica 4.0.0+maint.om/package.mo)
Using package Complex with version 4.0.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/Complex 4.0.0+maint.om/package.mo)
Using package ModelicaServices with version 4.0.0 (/home/hudson/saved_omc/libraries/.openmodelica/libraries/ModelicaServices 4.0.0+maint.om/package.mo)
Running command: translateModel(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=-1,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell")
translateModel(BioChem.Examples.CellDivison.cell,tolerance=1e-06,outputFormat="empty",numberOfIntervals=-1,variableFilter="",fileNamePrefix="BioChem_BioChem.Examples.CellDivison.cell") [Timeout 660]
"Warning: Ignoring unknown experiment annotation option: Algorithm = \"dassl\"
Notification: Performance of FrontEnd - loaded program: time 0.002074/0.002074, allocations: 68.3 kB / 445.3 MB, free: 4.035 MB / 302.1 MB
Notification: Performance of FrontEnd - Absyn->SCode: time 0.127/0.1291, allocations: 54.96 MB / 0.4885 GB, free: 13 MB / 366.1 MB
Notification: Performance of NFInst.instantiate(BioChem.Examples.CellDivison.cell): time 0.008866/0.1379, allocations: 5.874 MB / 0.4943 GB, free: 7.09 MB / 366.1 MB
Notification: Performance of NFInst.instExpressions: time 0.0008916/0.1388, allocations: 462.8 kB / 0.4947 GB, free: 6.637 MB / 366.1 MB
Notification: Performance of NFInst.updateImplicitVariability: time 0.0001663/0.139, allocations: 24 kB / 0.4947 GB, free: 6.613 MB / 366.1 MB
Notification: Performance of NFTyping.typeComponents: time 0.0001674/0.1392, allocations: 83.33 kB / 0.4948 GB, free: 6.531 MB / 366.1 MB
Notification: Performance of NFTyping.typeBindings: time 0.000255/0.1394, allocations: 118.9 kB / 0.4949 GB, free: 6.414 MB / 366.1 MB
Notification: Performance of NFTyping.typeClassSections: time 0.0002556/0.1397, allocations: 99.8 kB / 0.495 GB, free: 6.316 MB / 366.1 MB
Notification: Performance of NFFlatten.flatten: time 0.0004677/0.1401, allocations: 454.7 kB / 0.4955 GB, free: 5.871 MB / 366.1 MB
Notification: Performance of NFFlatten.resolveConnections: time 0.000328/0.1405, allocations: 182.4 kB / 0.4956 GB, free: 5.688 MB / 366.1 MB
Notification: Performance of NFEvalConstants.evaluate: time 0.0001784/0.1406, allocations: 191.4 kB / 0.4958 GB, free: 5.5 MB / 366.1 MB
Notification: Performance of NFSimplifyModel.simplify: time 0.0002651/0.1409, allocations: 235 kB / 0.496 GB, free: 5.27 MB / 366.1 MB
Notification: Performance of NFPackage.collectConstants: time 6.292e-05/0.141, allocations: 48 kB / 0.4961 GB, free: 5.223 MB / 366.1 MB
Notification: Performance of NFFlatten.collectFunctions: time 6.936e-05/0.141, allocations: 52 kB / 0.4961 GB, free: 5.172 MB / 366.1 MB
Notification: Performance of NFScalarize.scalarize: time 8.66e-05/0.1411, allocations: 103.7 kB / 0.4962 GB, free: 5.07 MB / 366.1 MB
Notification: Performance of NFVerifyModel.verify: time 0.0002249/0.1413, allocations: 246.8 kB / 0.4965 GB, free: 4.828 MB / 366.1 MB
Notification: Performance of NFConvertDAE.convert: time 0.0005558/0.1419, allocations: 0.5251 MB / 0.497 GB, free: 4.301 MB / 366.1 MB
Notification: Performance of FrontEnd - DAE generated: time 2.565e-06/0.1419, allocations: 0 / 0.497 GB, free: 4.301 MB / 366.1 MB
Notification: Performance of FrontEnd: time 9.62e-07/0.1419, allocations: 4 kB / 0.497 GB, free: 4.297 MB / 366.1 MB
Notification: Performance of Transformations before backend: time 6.322e-06/0.1419, allocations: 0 / 0.497 GB, free: 4.297 MB / 366.1 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 0.001016/0.1429, allocations: 0.6694 MB / 0.4976 GB, free: 3.594 MB / 366.1 MB
Notification: Performance of prepare preOptimizeDAE: time 4.341e-05/0.143, allocations: 12.03 kB / 0.4977 GB, free: 3.582 MB / 366.1 MB
Notification: Performance of preOpt normalInlineFunction (simulation): time 0.0001016/0.1431, allocations: 52.61 kB / 0.4977 GB, free: 3.531 MB / 366.1 MB
Notification: Performance of preOpt evaluateParameters (simulation): time 0.0001998/0.1433, allocations: 161.9 kB / 0.4979 GB, free: 3.348 MB / 366.1 MB
Notification: Performance of preOpt simplifyIfEquations (simulation): time 5.351e-05/0.1433, allocations: 45.69 kB / 0.4979 GB, free: 3.305 MB / 366.1 MB
Notification: Performance of preOpt expandDerOperator (simulation): time 8.839e-05/0.1434, allocations: 60.38 kB / 0.498 GB, free: 3.246 MB / 366.1 MB
Notification: Performance of preOpt clockPartitioning (simulation): time 0.000879/0.1443, allocations: 0.5158 MB / 0.4985 GB, free: 2.715 MB / 366.1 MB
Notification: Performance of preOpt findStateOrder (simulation): time 2.424e-05/0.1443, allocations: 192 / 0.4985 GB, free: 2.715 MB / 366.1 MB
Notification: Performance of preOpt replaceEdgeChange (simulation): time 4.952e-05/0.1444, allocations: 27.94 kB / 0.4985 GB, free: 2.688 MB / 366.1 MB
Notification: Performance of preOpt inlineArrayEqn (simulation): time 1.673e-05/0.1444, allocations: 16 kB / 0.4985 GB, free: 2.672 MB / 366.1 MB
Notification: Performance of preOpt removeEqualRHS (simulation): time 0.0006049/0.145, allocations: 365 kB / 0.4989 GB, free: 2.316 MB / 366.1 MB
Notification: Performance of preOpt removeSimpleEquations (simulation): time 0.002605/0.1476, allocations: 1.54 MB / 0.5004 GB, free: 0.7227 MB / 366.1 MB
Notification: Performance of preOpt comSubExp (simulation): time 0.0005332/0.1481, allocations: 270.3 kB / 0.5006 GB, free: 460 kB / 366.1 MB
Notification: Performance of preOpt resolveLoops (simulation): time 0.0002574/0.1484, allocations: 168.2 kB / 0.5008 GB, free: 292 kB / 366.1 MB
Notification: Performance of preOpt evalFunc (simulation): time 2.788e-05/0.1484, allocations: 4 kB / 0.5008 GB, free: 288 kB / 366.1 MB
Notification: Performance of preOpt encapsulateWhenConditions (simulation): time 3.601e-05/0.1484, allocations: 38.56 kB / 0.5008 GB, free: 240 kB / 366.1 MB
Notification: Performance of pre-optimization done (n=35): time 1.453e-06/0.1484, allocations: 0 / 0.5008 GB, free: 240 kB / 366.1 MB
Notification: Performance of matching and sorting (n=42): time 0.003473/0.1519, allocations: 1.344 MB / 0.5021 GB, free: 14.86 MB / 382.1 MB
Notification: Performance of inlineWhenForInitialization (initialization): time 5.692e-05/0.152, allocations: 59.39 kB / 0.5022 GB, free: 14.79 MB / 382.1 MB
Notification: Performance of selectInitializationVariablesDAE (initialization): time 0.0002141/0.1522, allocations: 195.9 kB / 0.5024 GB, free: 14.58 MB / 382.1 MB
Notification: Performance of collectPreVariables (initialization): time 3.305e-05/0.1522, allocations: 29.7 kB / 0.5024 GB, free: 14.55 MB / 382.1 MB
Notification: Performance of collectInitialEqns (initialization): time 0.0002158/0.1524, allocations: 292.3 kB / 0.5027 GB, free: 14.25 MB / 382.1 MB
Notification: Performance of collectInitialBindings (initialization): time 0.0001414/0.1526, allocations: 162.6 kB / 0.5028 GB, free: 14.09 MB / 382.1 MB
Notification: Performance of simplifyInitialFunctions (initialization): time 0.0001329/0.1527, allocations: 98.3 kB / 0.5029 GB, free: 13.99 MB / 382.1 MB
Notification: Performance of setup shared object (initialization): time 0.0001815/0.1529, allocations: 334.8 kB / 0.5033 GB, free: 13.66 MB / 382.1 MB
Notification: Performance of preBalanceInitialSystem (initialization): time 0.0002111/0.1531, allocations: 133.2 kB / 0.5034 GB, free: 13.53 MB / 382.1 MB
Notification: Performance of partitionIndependentBlocks (initialization): time 0.0003607/0.1535, allocations: 307.9 kB / 0.5037 GB, free: 13.15 MB / 382.1 MB
Notification: Performance of analyzeInitialSystem (initialization): time 0.003731/0.1572, allocations: 1.146 MB / 0.5048 GB, free: 11.92 MB / 382.1 MB
Notification: Performance of solveInitialSystemEqSystem (initialization): time 2.905e-06/0.1572, allocations: 0 / 0.5048 GB, free: 11.92 MB / 382.1 MB
Notification: Performance of matching and sorting (n=74) (initialization): time 0.0008371/0.158, allocations: 0.5274 MB / 0.5053 GB, free: 11.39 MB / 382.1 MB
Notification: Performance of prepare postOptimizeDAE: time 2.217e-05/0.1581, allocations: 4 kB / 0.5053 GB, free: 11.38 MB / 382.1 MB
Notification: Performance of postOpt simplifyComplexFunction (initialization): time 1.211e-05/0.1581, allocations: 8 kB / 0.5053 GB, free: 11.38 MB / 382.1 MB
Notification: Performance of postOpt tearingSystem (initialization): time 2.675e-05/0.1581, allocations: 11.94 kB / 0.5053 GB, free: 11.36 MB / 382.1 MB
Notification: Performance of postOpt solveSimpleEquations (initialization): time 0.0004974/0.1586, allocations: 135.8 kB / 0.5055 GB, free: 11.23 MB / 382.1 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (initialization): time 1.674e-05/0.1586, allocations: 11.94 kB / 0.5055 GB, free: 11.22 MB / 382.1 MB
Notification: Performance of postOpt simplifyAllExpressions (initialization): time 0.0002109/0.1588, allocations: 20 kB / 0.5055 GB, free: 11.2 MB / 382.1 MB
Notification: Performance of postOpt collapseArrayExpressions (initialization): time 3.644e-05/0.1589, allocations: 27.98 kB / 0.5055 GB, free: 11.17 MB / 382.1 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 0.0003915/0.1593, allocations: 208.6 kB / 0.5057 GB, free: 10.96 MB / 382.1 MB
Notification: Performance of postOpt lateInlineFunction (simulation): time 5.411e-05/0.1593, allocations: 23.86 kB / 0.5057 GB, free: 10.94 MB / 382.1 MB
Notification: Performance of postOpt wrapFunctionCalls (simulation): time 0.000107/0.1594, allocations: 46.94 kB / 0.5058 GB, free: 10.89 MB / 382.1 MB
Notification: Performance of postOpt inlineArrayEqn (simulation): time 5.731e-06/0.1594, allocations: 4 kB / 0.5058 GB, free: 10.89 MB / 382.1 MB
Notification: Performance of postOpt constantLinearSystem (simulation): time 8.165e-06/0.1594, allocations: 4 kB / 0.5058 GB, free: 10.89 MB / 382.1 MB
Notification: Performance of postOpt simplifysemiLinear (simulation): time 5.79e-06/0.1594, allocations: 3.984 kB / 0.5058 GB, free: 10.88 MB / 382.1 MB
Notification: Performance of postOpt removeSimpleEquations (simulation): time 0.00134/0.1608, allocations: 0.8729 MB / 0.5066 GB, free: 9.957 MB / 382.1 MB
Notification: Performance of postOpt simplifyComplexFunction (simulation): time 2.505e-06/0.1608, allocations: 4.031 kB / 0.5067 GB, free: 9.953 MB / 382.1 MB
Notification: Performance of postOpt solveSimpleEquations (simulation): time 0.0004342/0.1612, allocations: 83.89 kB / 0.5067 GB, free: 9.871 MB / 382.1 MB
Notification: Performance of postOpt tearingSystem (simulation): time 6.312e-06/0.1612, allocations: 4 kB / 0.5067 GB, free: 9.867 MB / 382.1 MB
Notification: Performance of postOpt inputDerivativesUsed (simulation): time 3.122e-05/0.1613, allocations: 15.98 kB / 0.5067 GB, free: 9.852 MB / 382.1 MB
Notification: Performance of postOpt calculateStrongComponentJacobians (simulation): time 2.826e-06/0.1613, allocations: 0 / 0.5067 GB, free: 9.852 MB / 382.1 MB
Notification: Performance of postOpt calculateStateSetsJacobians (simulation): time 9.52e-07/0.1613, allocations: 0 / 0.5067 GB, free: 9.852 MB / 382.1 MB
Notification: Performance of postOpt symbolicJacobian (simulation): time 0.0008626/0.1621, allocations: 0.6068 MB / 0.5073 GB, free: 9.223 MB / 382.1 MB
Notification: Performance of postOpt removeConstants (simulation): time 2.97e-05/0.1621, allocations: 19.86 kB / 0.5074 GB, free: 9.203 MB / 382.1 MB
Notification: Performance of postOpt simplifyTimeIndepFuncCalls (simulation): time 4.177e-05/0.1622, allocations: 12 kB / 0.5074 GB, free: 9.191 MB / 382.1 MB
Notification: Performance of postOpt simplifyAllExpressions (simulation): time 0.0001572/0.1623, allocations: 11.94 kB / 0.5074 GB, free: 9.18 MB / 382.1 MB
Notification: Performance of postOpt findZeroCrossings (simulation): time 4.848e-05/0.1624, allocations: 27.94 kB / 0.5074 GB, free: 9.152 MB / 382.1 MB
Notification: Performance of postOpt collapseArrayExpressions (simulation): time 2.098e-05/0.1624, allocations: 8 kB / 0.5074 GB, free: 9.145 MB / 382.1 MB
Notification: Performance of sorting global known variables: time 0.0001075/0.1625, allocations: 129.2 kB / 0.5075 GB, free: 9.02 MB / 382.1 MB
Notification: Performance of sort global known variables: time 8e-08/0.1625, allocations: 0 / 0.5075 GB, free: 9.02 MB / 382.1 MB
Notification: Performance of remove unused functions: time 0.0004104/0.1629, allocations: 100 kB / 0.5076 GB, free: 8.922 MB / 382.1 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 0.0001365/0.1631, allocations: 111.2 kB / 0.5077 GB, free: 8.805 MB / 382.1 MB
Notification: Performance of simCode: created initialization part: time 0.0006027/0.1637, allocations: 367.3 kB / 0.5081 GB, free: 8.449 MB / 382.1 MB
Notification: Performance of simCode: created event and clocks part: time 2.565e-06/0.1637, allocations: 0 / 0.5081 GB, free: 8.449 MB / 382.1 MB
Notification: Performance of simCode: created simulation system equations: time 0.0002368/0.1639, allocations: 163.7 kB / 0.5082 GB, free: 8.289 MB / 382.1 MB
Notification: Performance of simCode: created of all other equations (e.g. parameter, nominal, assert, etc): time 0.0003717/0.1643, allocations: 54.36 kB / 0.5083 GB, free: 8.238 MB / 382.1 MB
Notification: Performance of simCode: created linear, non-linear and system jacobian parts: time 0.001961/0.1662, allocations: 1.143 MB / 0.5094 GB, free: 7.066 MB / 382.1 MB
Notification: Performance of simCode: some other stuff during SimCode phase: time 0.0006087/0.1669, allocations: 0.8151 MB / 0.5102 GB, free: 6.227 MB / 382.1 MB
Notification: Performance of simCode: alias equations: time 0.000158/0.167, allocations: 38.95 kB / 0.5103 GB, free: 6.184 MB / 382.1 MB
Notification: Performance of simCode: all other stuff during SimCode phase: time 9.597e-05/0.1671, allocations: 31.44 kB / 0.5103 GB, free: 6.152 MB / 382.1 MB
Notification: Performance of SimCode: time 9.61e-07/0.1671, allocations: 3.938 kB / 0.5103 GB, free: 6.148 MB / 382.1 MB
Notification: Performance of Templates: time 0.009135/0.1762, allocations: 3.708 MB / 0.5139 GB, free: 2.457 MB / 382.1 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=480 -lv LOG_STATS > BioChem_BioChem.Examples.CellDivison.cell.pipe 2>&1) [Timeout 480]
[Calling sys.exit(0), Time elapsed: 4.889439491555095]
Failed to read output from testmodel.py, exit status != 0:
0.18478457909077406 0.397512421 0.25307762100000003
Calling exit ...
<OMPython.OMCSessionZMQ object at 0x7fb1394317b0>