(cd testsuite; time /usr/bin/make -f Makefile > testsuite-trace.txt 2>&1) real 33m16.741s user 0m48.143s sys 1m30.051s echo "log is in testsuite/testsuite-trace.txt" log is in testsuite/testsuite-trace.txt cat testsuite/testsuite-trace.txt make[1]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite' /usr/bin/make -C difftool make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/difftool' flex omc-diff.l gcc -o ../../build/bin/omc-diff".exe" lex.yy.c make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/difftool' /usr/bin/make -C bootstrapping -f Makefile test > bootstrapping.log bootstrapping.log done /usr/bin/make -C libraries/msl31 -f Makefile test > msl31.log msl31.log done /usr/bin/make -C libraries/multibody -f Makefile test > multibody.log multibody.log done /usr/bin/make -C libraries/msl221 -f Makefile test > msl221.log msl221.log done /usr/bin/make -C libraries/msl221 -f Makefile testsim > msl221simulation.log msl221simulation.log done /usr/bin/make -C libraries/msl221/modelicaAdditions -f Makefile test > msl221additions.log msl221additions.log done /usr/bin/make -C interactive-simulation -f Makefile test > interactive-simulation.log interactive-simulation.log done /usr/bin/make -C libraries/msl31/simulate -f Makefile test > msl31simulation.log msl31simulation.log done /usr/bin/make -C libraries/msl31/media -f Makefile test > msl31media.log msl31media.log done /usr/bin/make -C initialization -f Makefile test > initialization.log initialization.log done /usr/bin/make -C mosfiles -f Makefile test > mosfiles.log mosfiles.log done /usr/bin/make -C mosfiles-msl22 -f Makefile test > mosfiles-msl22.log mosfiles-msl22.log done /usr/bin/make -C parser -f Makefile test > parser.log parser.log done /usr/bin/make -C meta -f Makefile test > meta.log meta.log done /usr/bin/make -C dependency -f Makefile test > dependency.log dependency.log done /usr/bin/make -C libraries/biochem -f Makefile test > biochem.log biochem.log done /usr/bin/make -C mofiles -f Makefile test > mofiles.log mofiles.log done /usr/bin/make -C mofiles/msl -f Makefile test > msl.log msl.log done /usr/bin/make -C meta/MetaModelicaDev -f Makefile test > mmdev.log Execution failed! make[3]: *** [Emit.mo] Error 1 mmdev.log done /usr/bin/make -C mosfiles-nosim -f Makefile test > mosfiles-nosim.log mosfiles-nosim.log done /usr/bin/make -C interactive -f Makefile test > interactive.log interactive.log done /usr/bin/make -C records -f Makefile test > records.log records.log done /usr/bin/make -C expandable -f Makefile test > expandable.log expandable.log done /usr/bin/make -C linearize -f Makefile test > linearize.log linearize.log done /usr/bin/make -C modelicaML -f Makefile test > modelicaML.log modelicaML.log done /usr/bin/make -C mofiles/drmodelica -f Makefile test > drmodelica.log drmodelica.log done /usr/bin/make -C streams -f Makefile test > streams.log streams.log done /usr/bin/make -C redeclare -f Makefile test > redeclare.log redeclare.log done /usr/bin/make -C fmi -f Makefile test > fmi.log fmi.log done make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/biochem' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + EnzMM ... ok [time:1] + Glycolysis ... ok [time:2] + InsulinSignaling_Sedaghat ... ok [time:2] + UniBi ... ok [time:2] + UniUni ... ok [time:1] + BioChem.Examples ... equation mismatch [time:11] ==== Log /tmp/omc-rtest-adrpo/biochem/log-BiochemModels.mos true "" "class BioChem_Examples_CircadianOscillator_Container Real V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real Nucleus_V = nucleus.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real Cytoplasm_V = cytoplasm.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real Container_V = V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real nucleus.V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real nucleus.Nucleus_V = nucleus.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real nucleus.y3.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.1, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y3.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y3.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y3.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y3.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y3.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y6.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y6.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y6.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y6.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y6.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y6.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y7.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.05, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y7.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y7.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y7.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y7.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y7.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y3_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y3_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y3_node.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k3t = k3t; Real nucleus.y2_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y2_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y2_node.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.per2_cry_nuclear_export.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.per2_cry_nuclear_export.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.per2_cry_nuclear_export.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.per2_cry_nuclear_export.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.per2_cry_nuclear_export.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.per2_cry_nuclear_export.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.per2_cry_nuclear_export.k3t = nucleus.k3t; Real nucleus.ambientSubstance.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.ambientSubstance.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.ambientSubstance.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.ambientSubstance.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.ambientSubstance.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.ambientSubstance.n1.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k3d = k3d; Real nucleus.nuclear_per2_cry_complex_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.nuclear_per2_cry_complex_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_per2_cry_complex_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_per2_cry_complex_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_per2_cry_complex_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_per2_cry_complex_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_per2_cry_complex_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_per2_cry_complex_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.nuclear_per2_cry_complex_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.nuclear_per2_cry_complex_degradation.k3d = nucleus.k3d; Real nucleus.y6_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y6_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y6_node.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k6t = k6t; Real nucleus.y5_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y5_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y5_node.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_nuclear_export.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_nuclear_export.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_nuclear_export.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_nuclear_export.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_nuclear_export.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_nuclear_export.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_nuclear_export.k6t = nucleus.k6t; parameter Real nucleus.k6d = k6d; Real nucleus.nuclear_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.nuclear_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.nuclear_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.nuclear_BMAL1_degradation.k6d = nucleus.k6d; parameter Real nucleus.k6a = k6a; Real nucleus.BMAL1_activation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_activation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_activation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_activation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_activation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_activation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_activation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_activation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_activation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_activation.k6a = nucleus.k6a; parameter Real nucleus.k7a = k7a; Real nucleus.BMAL1_deactivation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_deactivation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_deactivation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_deactivation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_deactivation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_deactivation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_deactivation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_deactivation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_deactivation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_deactivation.k7a = nucleus.k7a; parameter Real nucleus.k7d = k7d; Real nucleus.Active_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.Active_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.Active_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.Active_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.Active_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.Active_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.Active_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.Active_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.Active_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.Active_BMAL1_degradation.k7d = nucleus.k7d; Real cytoplasm.V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real cytoplasm.Cytoplasm_V = cytoplasm.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real cytoplasm.y1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.2, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y1.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y1.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y1.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y1.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y1.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y2.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y2.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y2.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y2.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y2.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y4.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.8, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y4.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y4.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y4.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y4.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y4.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y5.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y5.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y5.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y5.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y5.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y5.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.ambientSubstance.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.ambientSubstance.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.ambientSubstance.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.ambientSubstance.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.ambientSubstance.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.ambientSubstance.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytoplasm.trans_per2_cry = trans_per2_cry; Real cytoplasm.per2_cry_transcription.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_transcription.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_transcription.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_transcription.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_transcription.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_transcription.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_transcription.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_transcription.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_transcription.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; input Real cytoplasm.per2_cry_transcription.trans_per2_cry = cytoplasm.trans_per2_cry; parameter Real cytoplasm.k1d = k1d; Real cytoplasm.per2_cry_mRNA_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_mRNA_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_mRNA_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_mRNA_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_mRNA_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_mRNA_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_mRNA_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_mRNA_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_mRNA_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.per2_cry_mRNA_degradation.k1d = cytoplasm.k1d; parameter Real cytoplasm.k2b = k2b; parameter Real cytoplasm.q = q; Real cytoplasm.per2_cry_complex_formation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_complex_formation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_complex_formation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_complex_formation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_complex_formation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; Real cytoplasm.per2_cry_complex_formation.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytoplasm.per2_cry_complex_formation.k2b = cytoplasm.k2b; parameter Real cytoplasm.per2_cry_complex_formation.q = cytoplasm.q; parameter Real cytoplasm.k2d = k2d; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d = cytoplasm.k2d; parameter Real cytoplasm.k2t = k2t; Real cytoplasm.y3_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y3_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y3_node.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_nuclear_import.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_nuclear_import.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_nuclear_import.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_nuclear_import.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_nuclear_import.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_nuclear_import.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.per2_cry_nuclear_import.k2t = cytoplasm.k2t; Real cytoplasm.y2_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y2_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y2_node.V(quantity = \"Volume\", unit = \"l\"); input Real cytoplasm.trans_Bmal1 = trans_Bmal1; Real cytoplasm.Bmal1_transcription.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.Bmal1_transcription.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_transcription.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_transcription.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_transcription.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_transcription.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_transcription.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_transcription.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.Bmal1_transcription.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; input Real cytoplasm.Bmal1_transcription.trans_Bmal1 = cytoplasm.trans_Bmal1; parameter Real cytoplasm.k4d = k4d; Real cytoplasm.Bmal1_mRNA_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.Bmal1_mRNA_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_mRNA_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_mRNA_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_mRNA_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_mRNA_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_mRNA_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_mRNA_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.Bmal1_mRNA_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.Bmal1_mRNA_degradation.k4d = cytoplasm.k4d; parameter Real cytoplasm.k5b = k5b; Real cytoplasm.BMAL1_translation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.BMAL1_translation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_translation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_translation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.BMAL1_translation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; Real cytoplasm.BMAL1_translation.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytoplasm.BMAL1_translation.k5b = cytoplasm.k5b; parameter Real cytoplasm.k5d = k5d; Real cytoplasm.cytoplasmic_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.cytoplasmic_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.cytoplasmic_BMAL1_degradation.k5d = cytoplasm.k5d; parameter Real cytoplasm.k5t = k5t; Real cytoplasm.y6_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y6_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y6_node.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.BMAL1_nuclear_import.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_nuclear_import.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_nuclear_import.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_nuclear_import.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_nuclear_import.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.BMAL1_nuclear_import.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.BMAL1_nuclear_import.k5t = cytoplasm.k5t; Real cytoplasm.y5_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y5_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y5_node.V(quantity = \"Volume\", unit = \"l\"); Real trans_per2_cry(start = 0.0); parameter Real v1b = 9.0; parameter Real c_sbml = 0.01; parameter Real k1b = 1.0; parameter Real k1i = 0.56; parameter Real hill_coeff = 8.0; Real trans_Bmal1(start = 0.0); parameter Real v4b = 3.6; parameter Real r_sbml = 3.0; parameter Real k4b = 2.16; Real y5_y6_y7(start = 3.05); parameter Real k1d = 0.12; parameter Real k2b = 0.3; parameter Real q = 2.0; parameter Real k2d = 0.05; parameter Real k2t = 0.24; parameter Real k3t = 0.02; parameter Real k3d = 0.12; parameter Real k4d = 0.75; parameter Real k5b = 0.24; parameter Real k5d = 0.06; parameter Real k5t = 0.45; parameter Real k6t = 0.06; parameter Real k6d = 0.12; parameter Real k6a = 0.09; parameter Real k7a = 0.003; parameter Real k7d = 0.09; equation der(nucleus.y3.n) = nucleus.y3.rNet; nucleus.y3.rNet = nucleus.y3.n1.r; nucleus.y3.c = nucleus.y3.n1.c; nucleus.V = nucleus.y3.n1.V; nucleus.y3.c = nucleus.y3.n / nucleus.V; der(nucleus.y6.n) = nucleus.y6.rNet; nucleus.y6.rNet = nucleus.y6.n1.r; nucleus.y6.c = nucleus.y6.n1.c; nucleus.V = nucleus.y6.n1.V; nucleus.y6.c = nucleus.y6.n / nucleus.V; der(nucleus.y7.n) = nucleus.y7.rNet; nucleus.y7.rNet = nucleus.y7.n1.r; nucleus.y7.c = nucleus.y7.n1.c; nucleus.V = nucleus.y7.n1.V; nucleus.y7.c = nucleus.y7.n / nucleus.V; nucleus.per2_cry_nuclear_export.rr = nucleus.Nucleus_V * (nucleus.per2_cry_nuclear_export.k3t * nucleus.per2_cry_nuclear_export.s1.c); nucleus.per2_cry_nuclear_export.s1.r = nucleus.per2_cry_nuclear_export.nS1 * nucleus.per2_cry_nuclear_export.rr; nucleus.per2_cry_nuclear_export.p1.r = (-nucleus.per2_cry_nuclear_export.nP1) * nucleus.per2_cry_nuclear_export.rr; der(nucleus.ambientSubstance.n) = 0.0; nucleus.ambientSubstance.rNet = nucleus.ambientSubstance.n1.r; nucleus.ambientSubstance.c = nucleus.ambientSubstance.n1.c; nucleus.V = nucleus.ambientSubstance.n1.V; nucleus.ambientSubstance.c = nucleus.ambientSubstance.n / nucleus.V; nucleus.nuclear_per2_cry_complex_degradation.rr = nucleus.Nucleus_V * (nucleus.nuclear_per2_cry_complex_degradation.k3d * nucleus.nuclear_per2_cry_complex_degradation.s1.c); nucleus.nuclear_per2_cry_complex_degradation.s1.r = nucleus.nuclear_per2_cry_complex_degradation.nS1 * nucleus.nuclear_per2_cry_complex_degradation.rr; nucleus.nuclear_per2_cry_complex_degradation.p1.r = (-nucleus.nuclear_per2_cry_complex_degradation.nP1) * nucleus.nuclear_per2_cry_complex_degradation.rr; nucleus.BMAL1_nuclear_export.rr = nucleus.Nucleus_V * (nucleus.BMAL1_nuclear_export.k6t * nucleus.BMAL1_nuclear_export.s1.c); nucleus.BMAL1_nuclear_export.s1.r = nucleus.BMAL1_nuclear_export.nS1 * nucleus.BMAL1_nuclear_export.rr; nucleus.BMAL1_nuclear_export.p1.r = (-nucleus.BMAL1_nuclear_export.nP1) * nucleus.BMAL1_nuclear_export.rr; nucleus.nuclear_BMAL1_degradation.rr = nucleus.Nucleus_V * (nucleus.nuclear_BMAL1_degradation.k6d * nucleus.nuclear_BMAL1_degradation.s1.c); nucleus.nuclear_BMAL1_degradation.s1.r = nucleus.nuclear_BMAL1_degradation.nS1 * nucleus.nuclear_BMAL1_degradation.rr; nucleus.nuclear_BMAL1_degradation.p1.r = (-nucleus.nuclear_BMAL1_degradation.nP1) * nucleus.nuclear_BMAL1_degradation.rr; nucleus.BMAL1_activation.rr = nucleus.Nucleus_V * (nucleus.BMAL1_activation.k6a * nucleus.BMAL1_activation.s1.c); nucleus.BMAL1_activation.s1.r = nucleus.BMAL1_activation.nS1 * nucleus.BMAL1_activation.rr; nucleus.BMAL1_activation.p1.r = (-nucleus.BMAL1_activation.nP1) * nucleus.BMAL1_activation.rr; nucleus.BMAL1_deactivation.rr = nucleus.Nucleus_V * (nucleus.BMAL1_deactivation.k7a * nucleus.BMAL1_deactivation.s1.c); nucleus.BMAL1_deactivation.s1.r = nucleus.BMAL1_deactivation.nS1 * nucleus.BMAL1_deactivation.rr; nucleus.BMAL1_deactivation.p1.r = (-nucleus.BMAL1_deactivation.nP1) * nucleus.BMAL1_deactivation.rr; nucleus.Active_BMAL1_degradation.rr = nucleus.Nucleus_V * (nucleus.Active_BMAL1_degradation.k7d * nucleus.Active_BMAL1_degradation.s1.c); nucleus.Active_BMAL1_degradation.s1.r = nucleus.Active_BMAL1_degradation.nS1 * nucleus.Active_BMAL1_degradation.rr; nucleus.Active_BMAL1_degradation.p1.r = (-nucleus.Active_BMAL1_degradation.nP1) * nucleus.Active_BMAL1_degradation.rr; der(nucleus.V) = 0.0; der(cytoplasm.y1.n) = cytoplasm.y1.rNet; cytoplasm.y1.rNet = cytoplasm.y1.n1.r; cytoplasm.y1.c = cytoplasm.y1.n1.c; cytoplasm.V = cytoplasm.y1.n1.V; cytoplasm.y1.c = cytoplasm.y1.n / cytoplasm.V; der(cytoplasm.y2.n) = cytoplasm.y2.rNet; cytoplasm.y2.rNet = cytoplasm.y2.n1.r; cytoplasm.y2.c = cytoplasm.y2.n1.c; cytoplasm.V = cytoplasm.y2.n1.V; cytoplasm.y2.c = cytoplasm.y2.n / cytoplasm.V; der(cytoplasm.y4.n) = cytoplasm.y4.rNet; cytoplasm.y4.rNet = cytoplasm.y4.n1.r; cytoplasm.y4.c = cytoplasm.y4.n1.c; cytoplasm.V = cytoplasm.y4.n1.V; cytoplasm.y4.c = cytoplasm.y4.n / cytoplasm.V; der(cytoplasm.y5.n) = cytoplasm.y5.rNet; cytoplasm.y5.rNet = cytoplasm.y5.n1.r; cytoplasm.y5.c = cytoplasm.y5.n1.c; cytoplasm.V = cytoplasm.y5.n1.V; cytoplasm.y5.c = cytoplasm.y5.n / cytoplasm.V; der(cytoplasm.ambientSubstance.n) = 0.0; cytoplasm.ambientSubstance.rNet = cytoplasm.ambientSubstance.n1.r; cytoplasm.ambientSubstance.c = cytoplasm.ambientSubstance.n1.c; cytoplasm.V = cytoplasm.ambientSubstance.n1.V; cytoplasm.ambientSubstance.c = cytoplasm.ambientSubstance.n / cytoplasm.V; cytoplasm.per2_cry_transcription.rr = cytoplasm.Cytoplasm_V * cytoplasm.per2_cry_transcription.trans_per2_cry; cytoplasm.per2_cry_transcription.s1.r = cytoplasm.per2_cry_transcription.nS1 * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_transcription.p1.r = (-cytoplasm.per2_cry_transcription.nP1) * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_mRNA_degradation.k1d * cytoplasm.per2_cry_mRNA_degradation.s1.c); cytoplasm.per2_cry_mRNA_degradation.s1.r = cytoplasm.per2_cry_mRNA_degradation.nS1 * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_mRNA_degradation.p1.r = (-cytoplasm.per2_cry_mRNA_degradation.nP1) * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_complex_formation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_complex_formation.k2b * cytoplasm.per2_cry_complex_formation.m1.c ^ cytoplasm.per2_cry_complex_formation.q); cytoplasm.per2_cry_complex_formation.s1.r = cytoplasm.per2_cry_complex_formation.nS1 * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d * cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c); cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r = cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1 * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r = (-cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1) * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.per2_cry_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_nuclear_import.k2t * cytoplasm.per2_cry_nuclear_import.s1.c); cytoplasm.per2_cry_nuclear_import.s1.r = cytoplasm.per2_cry_nuclear_import.nS1 * cytoplasm.per2_cry_nuclear_import.rr; cytoplasm.per2_cry_nuclear_import.p1.r = (-cytoplasm.per2_cry_nuclear_import.nP1) * cytoplasm.per2_cry_nuclear_import.rr; cytoplasm.Bmal1_transcription.rr = cytoplasm.Cytoplasm_V * cytoplasm.Bmal1_transcription.trans_Bmal1; cytoplasm.Bmal1_transcription.s1.r = cytoplasm.Bmal1_transcription.nS1 * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_transcription.p1.r = (-cytoplasm.Bmal1_transcription.nP1) * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.Bmal1_mRNA_degradation.k4d * cytoplasm.Bmal1_mRNA_degradation.s1.c); cytoplasm.Bmal1_mRNA_degradation.s1.r = cytoplasm.Bmal1_mRNA_degradation.nS1 * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.Bmal1_mRNA_degradation.p1.r = (-cytoplasm.Bmal1_mRNA_degradation.nP1) * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.BMAL1_translation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_translation.k5b * cytoplasm.BMAL1_translation.m1.c); cytoplasm.BMAL1_translation.s1.r = cytoplasm.BMAL1_translation.nS1 * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.cytoplasmic_BMAL1_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_BMAL1_degradation.k5d * cytoplasm.cytoplasmic_BMAL1_degradation.s1.c); cytoplasm.cytoplasmic_BMAL1_degradation.s1.r = cytoplasm.cytoplasmic_BMAL1_degradation.nS1 * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = (-cytoplasm.cytoplasmic_BMAL1_degradation.nP1) * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.BMAL1_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_nuclear_import.k5t * cytoplasm.BMAL1_nuclear_import.s1.c); cytoplasm.BMAL1_nuclear_import.s1.r = cytoplasm.BMAL1_nuclear_import.nS1 * cytoplasm.BMAL1_nuclear_import.rr; cytoplasm.BMAL1_nuclear_import.p1.r = (-cytoplasm.BMAL1_nuclear_import.nP1) * cytoplasm.BMAL1_nuclear_import.rr; der(cytoplasm.V) = 0.0; trans_per2_cry = (v1b * (nucleus.y7.c + c_sbml)) / (k1b * (1.0 + (nucleus.y3.c / k1i) ^ hill_coeff) + (nucleus.y7.c + c_sbml)); trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); der(V) = 0.0; nucleus.y3.n1.r + (-nucleus.y3_node.r) + nucleus.per2_cry_nuclear_export.s1.r + nucleus.nuclear_per2_cry_complex_degradation.s1.r = 0.0; nucleus.y6.n1.r + (-nucleus.y6_node.r) + nucleus.BMAL1_nuclear_export.s1.r + nucleus.nuclear_BMAL1_degradation.s1.r + nucleus.BMAL1_activation.s1.r + nucleus.BMAL1_deactivation.p1.r = 0.0; nucleus.y7.n1.r + nucleus.BMAL1_activation.p1.r + nucleus.BMAL1_deactivation.s1.r + nucleus.Active_BMAL1_degradation.s1.r = 0.0; nucleus.y3_node.r + cytoplasm.y3_node.r = 0.0; nucleus.y2_node.r + cytoplasm.y2_node.r = 0.0; (-nucleus.y2_node.r) + nucleus.per2_cry_nuclear_export.p1.r = 0.0; nucleus.ambientSubstance.n1.r + nucleus.nuclear_per2_cry_complex_degradation.p1.r + nucleus.nuclear_BMAL1_degradation.p1.r + nucleus.Active_BMAL1_degradation.p1.r = 0.0; nucleus.y6_node.r + cytoplasm.y6_node.r = 0.0; nucleus.y5_node.r + cytoplasm.y5_node.r = 0.0; (-nucleus.y5_node.r) + nucleus.BMAL1_nuclear_export.p1.r = 0.0; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.per2_cry_nuclear_export.s1.c; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.y3.n1.c; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.y3_node.c; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.per2_cry_nuclear_export.s1.V; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.y3.n1.V; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.y3_node.V; nucleus.Active_BMAL1_degradation.s1.c = nucleus.BMAL1_activation.p1.c; nucleus.Active_BMAL1_degradation.s1.c = nucleus.BMAL1_deactivation.s1.c; nucleus.Active_BMAL1_degradation.s1.c = nucleus.y7.n1.c; nucleus.Active_BMAL1_degradation.s1.V = nucleus.BMAL1_activation.p1.V; nucleus.Active_BMAL1_degradation.s1.V = nucleus.BMAL1_deactivation.s1.V; nucleus.Active_BMAL1_degradation.s1.V = nucleus.y7.n1.V; nucleus.BMAL1_activation.s1.c = nucleus.BMAL1_deactivation.p1.c; nucleus.BMAL1_activation.s1.c = nucleus.BMAL1_nuclear_export.s1.c; nucleus.BMAL1_activation.s1.c = nucleus.nuclear_BMAL1_degradation.s1.c; nucleus.BMAL1_activation.s1.c = nucleus.y6.n1.c; nucleus.BMAL1_activation.s1.c = nucleus.y6_node.c; nucleus.BMAL1_activation.s1.V = nucleus.BMAL1_deactivation.p1.V; nucleus.BMAL1_activation.s1.V = nucleus.BMAL1_nuclear_export.s1.V; nucleus.BMAL1_activation.s1.V = nucleus.nuclear_BMAL1_degradation.s1.V; nucleus.BMAL1_activation.s1.V = nucleus.y6.n1.V; nucleus.BMAL1_activation.s1.V = nucleus.y6_node.V; nucleus.Active_BMAL1_degradation.p1.c = nucleus.ambientSubstance.n1.c; nucleus.Active_BMAL1_degradation.p1.c = nucleus.nuclear_BMAL1_degradation.p1.c; nucleus.Active_BMAL1_degradation.p1.c = nucleus.nuclear_per2_cry_complex_degradation.p1.c; nucleus.Active_BMAL1_degradation.p1.V = nucleus.ambientSubstance.n1.V; nucleus.Active_BMAL1_degradation.p1.V = nucleus.nuclear_BMAL1_degradation.p1.V; nucleus.Active_BMAL1_degradation.p1.V = nucleus.nuclear_per2_cry_complex_degradation.p1.V; nucleus.BMAL1_nuclear_export.p1.c = nucleus.y5_node.c; nucleus.BMAL1_nuclear_export.p1.V = nucleus.y5_node.V; nucleus.per2_cry_nuclear_export.p1.c = nucleus.y2_node.c; nucleus.per2_cry_nuclear_export.p1.V = nucleus.y2_node.V; cytoplasm.y1.n1.r + cytoplasm.per2_cry_transcription.p1.r + cytoplasm.per2_cry_mRNA_degradation.s1.r + cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.y2.n1.r + cytoplasm.per2_cry_complex_formation.p1.r + cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r + cytoplasm.per2_cry_nuclear_import.s1.r + (-cytoplasm.y2_node.r) = 0.0; cytoplasm.y4.n1.r + cytoplasm.Bmal1_transcription.p1.r + cytoplasm.Bmal1_mRNA_degradation.s1.r + cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.y5.n1.r + cytoplasm.BMAL1_translation.p1.r + cytoplasm.cytoplasmic_BMAL1_degradation.s1.r + cytoplasm.BMAL1_nuclear_import.s1.r + (-cytoplasm.y5_node.r) = 0.0; cytoplasm.ambientSubstance.n1.r + cytoplasm.per2_cry_transcription.s1.r + cytoplasm.per2_cry_mRNA_degradation.p1.r + cytoplasm.per2_cry_complex_formation.s1.r + cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r + cytoplasm.Bmal1_transcription.s1.r + cytoplasm.Bmal1_mRNA_degradation.p1.r + cytoplasm.BMAL1_translation.s1.r + cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = 0.0; (-cytoplasm.y3_node.r) + cytoplasm.per2_cry_nuclear_import.p1.r = 0.0; (-cytoplasm.y6_node.r) + cytoplasm.BMAL1_nuclear_import.p1.r = 0.0; cytoplasm.BMAL1_nuclear_import.p1.c = cytoplasm.y6_node.c; cytoplasm.BMAL1_nuclear_import.p1.V = cytoplasm.y6_node.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.per2_cry_complex_formation.p1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.per2_cry_nuclear_import.s1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.y2.n1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.y2_node.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.per2_cry_complex_formation.p1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.per2_cry_nuclear_import.s1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.y2.n1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.y2_node.V; cytoplasm.per2_cry_nuclear_import.p1.c = cytoplasm.y3_node.c; cytoplasm.per2_cry_nuclear_import.p1.V = cytoplasm.y3_node.V; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.BMAL1_translation.p1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.cytoplasmic_BMAL1_degradation.s1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.y5.n1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.y5_node.c; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.BMAL1_translation.p1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.cytoplasmic_BMAL1_degradation.s1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.y5.n1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.y5_node.V; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.per2_cry_mRNA_degradation.s1.c; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.per2_cry_transcription.p1.c; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.y1.n1.c; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.per2_cry_mRNA_degradation.s1.V; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.per2_cry_transcription.p1.V; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.y1.n1.V; cytoplasm.BMAL1_translation.s1.c = cytoplasm.Bmal1_mRNA_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.Bmal1_transcription.s1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.ambientSubstance.n1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.cytoplasmic_BMAL1_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_complex_formation.s1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_mRNA_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_transcription.s1.c; cytoplasm.BMAL1_translation.s1.V = cytoplasm.Bmal1_mRNA_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.Bmal1_transcription.s1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.ambientSubstance.n1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.cytoplasmic_BMAL1_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_complex_formation.s1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_mRNA_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_transcription.s1.V; cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_mRNA_degradation.s1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_transcription.p1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.y4.n1.c; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_mRNA_degradation.s1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_transcription.p1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.y4.n1.V; cytoplasm.y5_node.c = nucleus.y5_node.c; cytoplasm.y5_node.V = nucleus.y5_node.V; cytoplasm.y6_node.c = nucleus.y6_node.c; cytoplasm.y6_node.V = nucleus.y6_node.V; cytoplasm.y2_node.c = nucleus.y2_node.c; cytoplasm.y2_node.V = nucleus.y2_node.V; cytoplasm.y3_node.c = nucleus.y3_node.c; cytoplasm.y3_node.V = nucleus.y3_node.V; end BioChem_Examples_CircadianOscillator_Container; " "" "Check of BioChem_Examples_CircadianOscillator_Container completed successfully. Class BioChem_Examples_CircadianOscillator_Container has 252 equation(s) and 252 variable(s). 175 of these are trivial equation(s). " "" true true "" "class BioChem_Examples_centralMetabolism_extra_cellular Real V(quantity = \"Volume\", unit = \"l\", start = 2.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real default_V = V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real cytosol_V = cytosol.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real cytosol.V(quantity = \"Volume\", unit = \"l\", start = 2.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real cytosol.cytosol_V = cytosol.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real cytosol.NADH.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.00406177, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.NADH.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.NADH.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.NADH.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.NADH.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.NADH.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.FDP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0999758, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.FDP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.FDP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.FDP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.FDP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.FDP.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.PYR.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.148871, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.PYR.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.PYR.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.PYR.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.PYR.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.PYR.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.ADP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0695775, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.ADP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.ADP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.ADP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.ADP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.ADP.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.IMP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.650608, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.IMP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.IMP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.IMP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.IMP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.IMP.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytosol.ATP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 12.7913) = cytosol.atp \"Current concentration of substance (mM)\"; Real cytosol.ATP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.ATP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0) \"Number of moles of substance in pool (mol)\"; Real cytosol.ATP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.ATP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.ATP.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.AMP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.000398124, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.AMP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.AMP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.AMP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.AMP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.AMP.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.LAC.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 4.34299, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.LAC.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.LAC.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.LAC.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.LAC.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.LAC.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytosol.NAD.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.695938) = cytosol.nad \"Current concentration of substance (mM)\"; Real cytosol.NAD.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.NAD.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0) \"Number of moles of substance in pool (mol)\"; Real cytosol.NAD.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.NAD.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.NAD.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.CP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 28.2621, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.CP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.CP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.CP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.CP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.CP.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytosol.Cr.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 25.7379) = cytosol.cr \"Current concentration of substance (mM)\"; Real cytosol.Cr.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.Cr.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0) \"Number of moles of substance in pool (mol)\"; Real cytosol.Cr.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.Cr.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.Cr.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytosol.GLY.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.GLY.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.GLY.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.GLY.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.GLY.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.GLY.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytosol.PN.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0) = cytosol.pn \"Current concentration of substance (mM)\"; Real cytosol.PN.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.PN.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0) \"Number of moles of substance in pool (mol)\"; Real cytosol.PN.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.PN.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.PN.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.G6P.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.603855 / (1.0 + cytosol.kh), StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.G6P.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.G6P.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.G6P.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.G6P.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.G6P.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.F6P.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = (0.603855 * cytosol.kh) / (1.0 + cytosol.kh), StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.F6P.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.F6P.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.F6P.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.F6P.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.F6P.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jda.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.jda.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jda.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jda.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jda.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jda.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jda.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jda.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.jda.bamp \"Stoichiometric coefficient for the substrate\"; Real cytosol.jda.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V \"Stoichiometric coefficient for the product\"; parameter Real cytosol.jda.KmAMP = 0.3; parameter Real cytosol.jda.KmIMP = 3.54545; parameter Real cytosol.jda.KcatDA = 121.0; input Real cytosol.jda.bamp = cytosol.bamp; Real cytosol.vpfk.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vpfk.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpfk.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpfk.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpfk.p2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpfk.p2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpfk.p2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpfk.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpfk.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpfk.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpfk.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytosol.vpfk.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 1\"; Real cytosol.vpfk.nP2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.vpfk.badp \"Stoichiometric coefficient for product 2\"; parameter Real cytosol.vpfk.n_sbml = 2.0; parameter Real cytosol.vpfk.KcatPFK = 400.0; parameter Real cytosol.vpfk.KmF6P = 3.49515; input Real cytosol.vpfk.badp = cytosol.badp; Real cytosol.vldh.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vldh.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vldh.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vldh.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vldh.s2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vldh.s2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vldh.s2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vldh.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vldh.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vldh.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vldh.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 1\"; Real cytosol.vldh.nS2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 2\"; Real cytosol.vldh.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; Real cytosol.vldh.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vldh.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vldh.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vldh.kia = 0.00245; parameter Real cytosol.vldh.kmb = 0.137; parameter Real cytosol.vldh.kip = 7.3; parameter Real cytosol.vldh.kmq = 0.1; parameter Real cytosol.vldh.kiq = 0.5; parameter Real cytosol.vldh.k1ib = 0.1; parameter Real cytosol.vldh.kmp = 1.0; parameter Real cytosol.vldh.kma = 0.00844; parameter Real cytosol.vldh.kib = 0.228; parameter Real cytosol.vldh.kf = 458.0; parameter Real cytosol.vldh.kr = 135.0; parameter Real cytosol.vldh.e0 = 8.0; Real cytosol.vpdh.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vpdh.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpdh.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpdh.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpdh.s2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpdh.s2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpdh.s2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpdh.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpdh.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpdh.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vpdh.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 1\"; Real cytosol.vpdh.nS2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.vpdh.badp \"Stoichiometric coefficient for substrate 2\"; Real cytosol.vpdh.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 3.67 \"Stoichiometric coefficient for the product\"; Real cytosol.vpdh.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vpdh.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vpdh.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vpdh.KmPYR = 0.5; parameter Real cytosol.vpdh.KcatPDH = 1.0; input Real cytosol.vpdh.badp = cytosol.badp; Real cytosol.jak.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.jak.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jak.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jak.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jak.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jak.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jak.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jak.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.jak.bamp \"Stoichiometric coefficient for the substrate\"; Real cytosol.jak.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = (2.0 * cytosol.cytosol_V) / cytosol.jak.badp \"Stoichiometric coefficient for the product\"; Real cytosol.jak.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jak.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jak.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.jak.KcatAK = 150000.0; input Real cytosol.jak.bamp = cytosol.bamp; input Real cytosol.jak.badp = cytosol.badp; Real cytosol.vgph.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vgph.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgph.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgph.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgph.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgph.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgph.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgph.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytosol.vgph.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Integer cytosol.vgph.dimM = 3 \"number of modifiers\"; Real cytosol.vgph.m[1].c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgph.m[1].r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgph.m[1].V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgph.m[2].c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgph.m[2].r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgph.m[2].V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgph.m[3].c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgph.m[3].r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgph.m[3].V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vgph.kh = cytosol.kh; parameter Real cytosol.vgph.KcatGPH = 248.0; input Real cytosol.vgph.bamp = cytosol.bamp; Real cytosol.jatpase.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.jatpase.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jatpase.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jatpase.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jatpase.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jatpase.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jatpase.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jatpase.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytosol.jatpase.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.jatpase.badp \"Stoichiometric coefficient for the product\"; parameter Real cytosol.jatpase.KcatATPase = 370.0 \"I am unsure about this value\"; input Real cytosol.jatpase.badp = cytosol.badp; Real cytosol.jck.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.jck.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jck.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jck.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jck.s2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jck.s2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jck.s2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jck.p2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jck.p2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jck.p2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jck.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.jck.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.jck.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.jck.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 1\"; Real cytosol.jck.nS2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 2\"; Real cytosol.jck.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = cytosol.cytosol_V / cytosol.jck.badp \"Stoichiometric coefficient for product 1\"; Real cytosol.jck.nP2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 2\"; parameter Real cytosol.jck.KcatCK = 1970.0; input Real cytosol.jck.badp = cytosol.badp; Real cytosol.node_LAC.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.node_LAC.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.node_LAC.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.V(quantity = \"Volume\", unit = \"l\", start = 2.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real cytosol.mitochondria.NADHm.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.mitochondria.NADHm.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.mitochondria.NADHm.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.mitochondria.NADHm.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.NADHm.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.mitochondria.NADHm.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.NADm.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.mitochondria.NADm.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.mitochondria.NADm.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.mitochondria.NADm.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.NADm.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.mitochondria.NADm.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.jox.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.mitochondria.jox.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.jox.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.jox.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.jox.s2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.jox.s2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.jox.s2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.jox.p2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.jox.p2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.jox.p2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.jox.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.jox.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.jox.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.jox.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = (2.5 * cytosol.cytosol_V) / cytosol.mitochondria.jox.badp \"Stoichiometric coefficient for substrate 1\"; Real cytosol.mitochondria.jox.nS2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 2\"; Real cytosol.mitochondria.jox.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 1\"; Real cytosol.mitochondria.jox.nP2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 2\"; Real cytosol.mitochondria.jox.badp = cytosol.mitochondria.badp; Real cytosol.mitochondria.node_ADP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.node_ADP.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.node_ADP.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.node_NADHm.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.node_NADHm.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.mitochondria.node_NADHm.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.vn.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.mitochondria.vn.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.vn.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.vn.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.vn.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.vn.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.vn.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.vn.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytosol.mitochondria.vn.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytosol.mitochondria.vn.VmaxN = 10.8347; parameter Real cytosol.mitochondria.vn.KmNADH = 0.216694; Real cytosol.mitochondria.node_NADH.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.node_NADH.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.node_NADH.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.node_ATP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.mitochondria.node_ATP.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.mitochondria.node_ATP.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.mitochondria.badp = cytosol.badp; input Real cytosol.bamp = bamp; input Real cytosol.badp = badp; input Real cytosol.pn = pn; input Real cytosol.atp = atp; input Real cytosol.cr = cr; input Real cytosol.nad = nad; parameter Real cytosol.kh = kh; parameter Real cytosol.kt = kt; Real cytosol.vH6P.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vH6P.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vH6P.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vH6P.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vH6P.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vH6P.p1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vH6P.kS1(quantity = \"Equilibrium coefficient\", unit = \"1\") = 1.0 \"Equilibrium coefficient for the substrate\"; parameter Real cytosol.vH6P.kP1(quantity = \"Equilibrium coefficient\", unit = \"1\") = cytosol.kh \"Equilibrium coefficient for the product\"; Real cytosol.vald.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vald.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vald.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vald.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vald.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vald.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vald.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vald.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytosol.vald.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 2.0 \"Stoichiometric coefficient for the product\"; parameter Real cytosol.vald.kt = cytosol.kt; parameter Real cytosol.vald.ka1 = 0.01; parameter Real cytosol.vald.ka2 = 1.65; parameter Real cytosol.vald.ka3 = 3000.0; parameter Real cytosol.vald.ka4 = 0.125; parameter Real cytosol.vald.ka5 = 340.0; parameter Real cytosol.vald.ka6 = 14000000.0; parameter Real cytosol.vald.ka7 = 56000.0; Real cytosol.DHAP.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.07427 / (1.0 + cytosol.kt), StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.DHAP.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.DHAP.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.DHAP.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.DHAP.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.DHAP.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.G3P.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = (0.07427 * cytosol.kt) / (1.0 + cytosol.kt), StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytosol.G3P.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytosol.G3P.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytosol.G3P.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.G3P.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytosol.G3P.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgpdh_1.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytosol.vgpdh_1.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgpdh_1.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgpdh_1.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgpdh_1.s2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgpdh_1.s2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgpdh_1.s2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgpdh_1.p2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgpdh_1.p2.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgpdh_1.p2.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgpdh_1.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgpdh_1.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgpdh_1.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vgpdh_1.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = (2.0 * cytosol.cytosol_V) / cytosol.vgpdh_1.badp \"Stoichiometric coefficient for substrate 1\"; Real cytosol.vgpdh_1.nS2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for substrate 2\"; Real cytosol.vgpdh_1.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 1\"; Real cytosol.vgpdh_1.nP2(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for product 2\"; Real cytosol.vgpdh_1.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vgpdh_1.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vgpdh_1.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vgpdh_1.KcatGPDH = 78595.6; parameter Real cytosol.vgpdh_1.KmGPDH = 0.0369; parameter Real cytosol.vgpdh_1.KmADP = 1.4; parameter Real cytosol.vgpdh_1.KmPN = 120.0; input Real cytosol.vgpdh_1.badp = cytosol.badp; Real cytosol.vT3P.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vT3P.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vT3P.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytosol.vT3P.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytosol.vT3P.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytosol.vT3P.p1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytosol.vT3P.kS1(quantity = \"Equilibrium coefficient\", unit = \"1\") = 1.0 \"Equilibrium coefficient for the substrate\"; parameter Real cytosol.vT3P.kP1(quantity = \"Equilibrium coefficient\", unit = \"1\") = cytosol.kt \"Equilibrium coefficient for the product\"; Real vef.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real vef.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real vef.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real vef.s1.V(quantity = \"Volume\", unit = \"l\"); Real vef.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real vef.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real vef.p1.V(quantity = \"Volume\", unit = \"l\"); Real vef.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real vef.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real vef.VmaxEF = 15.0; parameter Real vef.KmLAC = 26.8483; Real LACext.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real LACext.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real LACext.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real LACext.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real LACext.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real LACext.n1.V(quantity = \"Volume\", unit = \"l\"); parameter Real iv1 = 0.603855; parameter Real iv2 = 0.0999758; parameter Real iv3 = 0.07427; parameter Real iv4 = 0.148871; parameter Real iv5 = 4.34299; parameter Real iv6 = 0.00406177; parameter Real iv7 = 1.72073e-005; parameter Real iv8 = 0.0695775; parameter Real iv9 = 28.2621; parameter Real iv10 = 0.000398124; parameter Real iv11 = 0.650608; parameter Real nv19 = 1.0; parameter Real nv20 = 1.14947; parameter Real kamp = 0.00841471; parameter Real k2amp = 200.0; parameter Real kadp = 0.05; parameter Real k2adp = 84.7376; parameter Real tan = 27.5 \"\"; parameter Real tcr = 54.0; parameter Real kt = 0.085; parameter Real kh = 0.2; parameter Real PNt = 139.117; Real adpt; Real ampt; Real atp; Real atpt; Real badp; Real bamp; Real pn; Real cr; Real nad; equation der(cytosol.NADH.n) = cytosol.NADH.rNet; cytosol.NADH.rNet = cytosol.NADH.n1.r; cytosol.NADH.c = cytosol.NADH.n1.c; cytosol.V = cytosol.NADH.n1.V; cytosol.NADH.c = cytosol.NADH.n / cytosol.V; der(cytosol.FDP.n) = cytosol.FDP.rNet; cytosol.FDP.rNet = cytosol.FDP.n1.r; cytosol.FDP.c = cytosol.FDP.n1.c; cytosol.V = cytosol.FDP.n1.V; cytosol.FDP.c = cytosol.FDP.n / cytosol.V; der(cytosol.PYR.n) = cytosol.PYR.rNet; cytosol.PYR.rNet = cytosol.PYR.n1.r; cytosol.PYR.c = cytosol.PYR.n1.c; cytosol.V = cytosol.PYR.n1.V; cytosol.PYR.c = cytosol.PYR.n / cytosol.V; der(cytosol.ADP.n) = cytosol.ADP.rNet; cytosol.ADP.rNet = cytosol.ADP.n1.r; cytosol.ADP.c = cytosol.ADP.n1.c; cytosol.V = cytosol.ADP.n1.V; cytosol.ADP.c = cytosol.ADP.n / cytosol.V; der(cytosol.IMP.n) = cytosol.IMP.rNet; cytosol.IMP.rNet = cytosol.IMP.n1.r; cytosol.IMP.c = cytosol.IMP.n1.c; cytosol.V = cytosol.IMP.n1.V; cytosol.IMP.c = cytosol.IMP.n / cytosol.V; cytosol.ATP.rNet = cytosol.ATP.n1.r; cytosol.ATP.c = cytosol.ATP.n1.c; cytosol.V = cytosol.ATP.n1.V; cytosol.ATP.c = cytosol.ATP.n / cytosol.V; der(cytosol.AMP.n) = cytosol.AMP.rNet; cytosol.AMP.rNet = cytosol.AMP.n1.r; cytosol.AMP.c = cytosol.AMP.n1.c; cytosol.V = cytosol.AMP.n1.V; cytosol.AMP.c = cytosol.AMP.n / cytosol.V; der(cytosol.LAC.n) = cytosol.LAC.rNet; cytosol.LAC.rNet = cytosol.LAC.n1.r; cytosol.LAC.c = cytosol.LAC.n1.c; cytosol.V = cytosol.LAC.n1.V; cytosol.LAC.c = cytosol.LAC.n / cytosol.V; cytosol.NAD.rNet = cytosol.NAD.n1.r; cytosol.NAD.c = cytosol.NAD.n1.c; cytosol.V = cytosol.NAD.n1.V; cytosol.NAD.c = cytosol.NAD.n / cytosol.V; der(cytosol.CP.n) = cytosol.CP.rNet; cytosol.CP.rNet = cytosol.CP.n1.r; cytosol.CP.c = cytosol.CP.n1.c; cytosol.V = cytosol.CP.n1.V; cytosol.CP.c = cytosol.CP.n / cytosol.V; cytosol.Cr.rNet = cytosol.Cr.n1.r; cytosol.Cr.c = cytosol.Cr.n1.c; cytosol.V = cytosol.Cr.n1.V; cytosol.Cr.c = cytosol.Cr.n / cytosol.V; der(cytosol.GLY.n) = 0.0; cytosol.GLY.rNet = cytosol.GLY.n1.r; cytosol.GLY.c = cytosol.GLY.n1.c; cytosol.V = cytosol.GLY.n1.V; cytosol.GLY.c = cytosol.GLY.n / cytosol.V; cytosol.PN.rNet = cytosol.PN.n1.r; cytosol.PN.c = cytosol.PN.n1.c; cytosol.V = cytosol.PN.n1.V; cytosol.PN.c = cytosol.PN.n / cytosol.V; der(cytosol.G6P.n) = cytosol.G6P.rNet; cytosol.G6P.rNet = cytosol.G6P.n1.r; cytosol.G6P.c = cytosol.G6P.n1.c; cytosol.V = cytosol.G6P.n1.V; cytosol.G6P.c = cytosol.G6P.n / cytosol.V; der(cytosol.F6P.n) = cytosol.F6P.rNet; cytosol.F6P.rNet = cytosol.F6P.n1.r; cytosol.F6P.c = cytosol.F6P.n1.c; cytosol.V = cytosol.F6P.n1.V; cytosol.F6P.c = cytosol.F6P.n / cytosol.V; cytosol.jda.rr = (cytosol.jda.KcatDA * cytosol.jda.s1.c) / (cytosol.jda.KmAMP + cytosol.jda.s1.c) + (-0.01 * cytosol.jda.p1.c) / (cytosol.jda.KmIMP + cytosol.jda.p1.c); cytosol.jda.s1.r = cytosol.jda.nS1 * cytosol.jda.rr; cytosol.jda.p1.r = (-cytosol.jda.nP1) * cytosol.jda.rr; cytosol.vpfk.rr = (cytosol.vpfk.KcatPFK * cytosol.vpfk.s1.c ^ cytosol.vpfk.n_sbml) / (cytosol.vpfk.KmF6P + cytosol.vpfk.s1.c ^ cytosol.vpfk.n_sbml); cytosol.vpfk.s1.r = cytosol.vpfk.nS1 * cytosol.vpfk.rr; cytosol.vpfk.p1.r = (-cytosol.vpfk.nP1) * cytosol.vpfk.rr; cytosol.vpfk.p2.r = (-cytosol.vpfk.nP2) * cytosol.vpfk.rr; cytosol.vldh.rr = (cytosol.vldh.e0 * ((cytosol.vldh.s2.c * (cytosol.vldh.s1.c * cytosol.vldh.kf)) / (cytosol.vldh.kia * cytosol.vldh.kmb) + ((-cytosol.vldh.kr) * (cytosol.vldh.p1.c * cytosol.vldh.m1.c)) / (cytosol.vldh.kiq * cytosol.vldh.kmp))) / (cytosol.vldh.s2.c / cytosol.vldh.kia + ((cytosol.vldh.s2.c * cytosol.vldh.s1.c) / (cytosol.vldh.kia * cytosol.vldh.kmb) + ((cytosol.vldh.s2.c * (cytosol.vldh.s1.c * cytosol.vldh.p1.c)) / (cytosol.vldh.kmb * cytosol.vldh.kip * cytosol.vldh.kia) + ((cytosol.vldh.s2.c * (cytosol.vldh.kmq * cytosol.vldh.p1.c)) / (cytosol.vldh.kia * cytosol.vldh.kiq * cytosol.vldh.kmp) + ((1.0 + cytosol.vldh.s1.c / cytosol.vldh.k1ib) * (1.0 + ((cytosol.vldh.s1.c * cytosol.vldh.kma) / (cytosol.vldh.kia * cytosol.vldh.kmb) + (cytosol.vldh.kmq * cytosol.vldh.p1.c) / (cytosol.vldh.kmp * cytosol.vldh.kiq))) + (cytosol.vldh.m1.c / cytosol.vldh.kiq + ((cytosol.vldh.s1.c * (cytosol.vldh.kma * cytosol.vldh.m1.c)) / (cytosol.vldh.kmb * cytosol.vldh.kiq * cytosol.vldh.kia) + ((cytosol.vldh.p1.c * cytosol.vldh.m1.c) / (cytosol.vldh.kiq * cytosol.vldh.kmp) + (cytosol.vldh.s1.c * (cytosol.vldh.p1.c * cytosol.vldh.m1.c)) / (cytosol.vldh.kmp * cytosol.vldh.kiq * cytosol.vldh.kib))))))))); cytosol.vldh.s1.r = cytosol.vldh.nS1 * cytosol.vldh.rr; cytosol.vldh.s2.r = cytosol.vldh.nS2 * cytosol.vldh.rr; cytosol.vldh.p1.r = (-cytosol.vldh.nP1) * cytosol.vldh.rr; cytosol.vldh.m1.r = 0.0; cytosol.vpdh.rr = (cytosol.vpdh.KcatPDH * (cytosol.vpdh.s1.c * cytosol.vpdh.m1.c)) / ((0.1 + cytosol.vpdh.m1.c) * (cytosol.vpdh.s1.c + cytosol.vpdh.KmPYR)); cytosol.vpdh.s1.r = cytosol.vpdh.nS1 * cytosol.vpdh.rr; cytosol.vpdh.s2.r = cytosol.vpdh.nS2 * cytosol.vpdh.rr; cytosol.vpdh.p1.r = (-cytosol.vpdh.nP1) * cytosol.vpdh.rr; cytosol.vpdh.m1.r = 0.0; cytosol.jak.rr = (cytosol.jak.KcatAK * (cytosol.jak.m1.c * cytosol.jak.s1.c - cytosol.jak.p1.c ^ 2.0)) / (1.0 + (cytosol.jak.s1.c / 0.1 + (cytosol.jak.p1.c / 0.1 + (cytosol.jak.m1.c * (10.0 + cytosol.jak.s1.c / 0.01) + cytosol.jak.p1.c * (10.0 + (cytosol.jak.p1.c / 0.01 + cytosol.jak.s1.c / 3.49)))))); cytosol.jak.s1.r = cytosol.jak.nS1 * cytosol.jak.rr; cytosol.jak.p1.r = (-cytosol.jak.nP1) * cytosol.jak.rr; cytosol.jak.m1.r = 0.0; cytosol.vgph.rr = (cytosol.vgph.KcatGPH * (cytosol.vgph.m[3].c * (0.002 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)))) / (((0.08 + 8.0 * (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)) / (0.002 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)) + cytosol.vgph.m[3].c) * (0.014 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp))); cytosol.vgph.s1.r = cytosol.vgph.nS1 * cytosol.vgph.rr; cytosol.vgph.p1.r = (-cytosol.vgph.nP1) * cytosol.vgph.rr; cytosol.vgph.m[1].r = 0.0; cytosol.vgph.m[2].r = 0.0; cytosol.vgph.m[3].r = 0.0; cytosol.jatpase.rr = (cytosol.jatpase.KcatATPase * cytosol.jatpase.s1.c) / (0.05 + cytosol.jatpase.s1.c); cytosol.jatpase.s1.r = cytosol.jatpase.nS1 * cytosol.jatpase.rr; cytosol.jatpase.p1.r = (-cytosol.jatpase.nP1) * cytosol.jatpase.rr; cytosol.jck.rr = (cytosol.jck.KcatCK * (1.84331797235023 * (cytosol.jck.s1.c * cytosol.jck.s2.c) + -293.33 * (cytosol.jck.p1.c * cytosol.jck.p2.c))) / (1.0 + (cytosol.jck.s2.c / 34.9 + (cytosol.jck.p2.c / 0.8 + (cytosol.jck.s1.c * (1.43 + cytosol.jck.s2.c / 10.85) + cytosol.jck.p1.c * (16.7 + (cytosol.jck.p2.c / 0.1 + cytosol.jck.s2.c / 2.1)))))); cytosol.jck.s1.r = cytosol.jck.nS1 * cytosol.jck.rr; cytosol.jck.s2.r = cytosol.jck.nS2 * cytosol.jck.rr; cytosol.jck.p1.r = (-cytosol.jck.nP1) * cytosol.jck.rr; cytosol.jck.p2.r = (-cytosol.jck.nP2) * cytosol.jck.rr; der(cytosol.mitochondria.NADHm.n) = cytosol.mitochondria.NADHm.rNet; cytosol.mitochondria.NADHm.rNet = cytosol.mitochondria.NADHm.n1.r; cytosol.mitochondria.NADHm.c = cytosol.mitochondria.NADHm.n1.c; cytosol.mitochondria.V = cytosol.mitochondria.NADHm.n1.V; cytosol.mitochondria.NADHm.c = cytosol.mitochondria.NADHm.n / cytosol.mitochondria.V; der(cytosol.mitochondria.NADm.n) = cytosol.mitochondria.NADm.rNet; cytosol.mitochondria.NADm.rNet = cytosol.mitochondria.NADm.n1.r; cytosol.mitochondria.NADm.c = cytosol.mitochondria.NADm.n1.c; cytosol.mitochondria.V = cytosol.mitochondria.NADm.n1.V; cytosol.mitochondria.NADm.c = cytosol.mitochondria.NADm.n / cytosol.mitochondria.V; cytosol.mitochondria.jox.rr = (10000.0 * (cytosol.mitochondria.jox.s1.c * cytosol.mitochondria.jox.s2.c)) / ((0.15 + cytosol.mitochondria.jox.s2.c) * (0.01 + cytosol.mitochondria.jox.s1.c)); cytosol.mitochondria.jox.s1.r = cytosol.mitochondria.jox.nS1 * cytosol.mitochondria.jox.rr; cytosol.mitochondria.jox.s2.r = cytosol.mitochondria.jox.nS2 * cytosol.mitochondria.jox.rr; cytosol.mitochondria.jox.p1.r = (-cytosol.mitochondria.jox.nP1) * cytosol.mitochondria.jox.rr; cytosol.mitochondria.jox.p2.r = (-cytosol.mitochondria.jox.nP2) * cytosol.mitochondria.jox.rr; cytosol.mitochondria.vn.rr = (cytosol.mitochondria.vn.VmaxN * cytosol.mitochondria.vn.s1.c) / (cytosol.mitochondria.vn.KmNADH + cytosol.mitochondria.vn.s1.c); cytosol.mitochondria.vn.s1.r = cytosol.mitochondria.vn.nS1 * cytosol.mitochondria.vn.rr; cytosol.mitochondria.vn.p1.r = (-cytosol.mitochondria.vn.nP1) * cytosol.mitochondria.vn.rr; der(cytosol.mitochondria.V) = 0.0; cytosol.vH6P.p1.c = (cytosol.vH6P.s1.c * cytosol.vH6P.kP1) / cytosol.vH6P.kS1; cytosol.vH6P.s1.r + cytosol.vH6P.p1.r = 0.0; cytosol.vald.rr = (cytosol.vald.ka7 * cytosol.vald.s1.c - cytosol.vald.ka6 * (cytosol.vald.p1.c ^ 2.0 * cytosol.vald.kt)) / (cytosol.vald.ka1 + (cytosol.vald.ka2 * cytosol.vald.p1.c + (cytosol.vald.s1.c + (cytosol.vald.ka3 * (cytosol.vald.p1.c * cytosol.vald.s1.c) + (cytosol.vald.ka4 * (cytosol.vald.kt * cytosol.vald.p1.c) + cytosol.vald.ka5 * (cytosol.vald.p1.c ^ 2.0 * cytosol.vald.kt)))))); cytosol.vald.s1.r = cytosol.vald.nS1 * cytosol.vald.rr; cytosol.vald.p1.r = (-cytosol.vald.nP1) * cytosol.vald.rr; der(cytosol.DHAP.n) = cytosol.DHAP.rNet; cytosol.DHAP.rNet = cytosol.DHAP.n1.r; cytosol.DHAP.c = cytosol.DHAP.n1.c; cytosol.V = cytosol.DHAP.n1.V; cytosol.DHAP.c = cytosol.DHAP.n / cytosol.V; der(cytosol.G3P.n) = cytosol.G3P.rNet; cytosol.G3P.rNet = cytosol.G3P.n1.r; cytosol.G3P.c = cytosol.G3P.n1.c; cytosol.V = cytosol.G3P.n1.V; cytosol.G3P.c = cytosol.G3P.n / cytosol.V; cytosol.vgpdh_1.rr = (cytosol.vgpdh_1.KcatGPDH * (cytosol.vgpdh_1.s2.c * (cytosol.vgpdh_1.s1.c * cytosol.vgpdh_1.m1.c))) / ((cytosol.vgpdh_1.m1.c + cytosol.vgpdh_1.KmPN) * (cytosol.vgpdh_1.s1.c + cytosol.vgpdh_1.KmADP) * (cytosol.vgpdh_1.KmGPDH + cytosol.vgpdh_1.s2.c)); cytosol.vgpdh_1.s1.r = cytosol.vgpdh_1.nS1 * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.s2.r = cytosol.vgpdh_1.nS2 * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.p1.r = (-cytosol.vgpdh_1.nP1) * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.p2.r = (-cytosol.vgpdh_1.nP2) * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.m1.r = 0.0; cytosol.vT3P.p1.c = (cytosol.vT3P.s1.c * cytosol.vT3P.kP1) / cytosol.vT3P.kS1; cytosol.vT3P.s1.r + cytosol.vT3P.p1.r = 0.0; der(cytosol.V) = 0.0; vef.rr = (vef.VmaxEF * vef.s1.c) / (vef.KmLAC + vef.s1.c); vef.s1.r = vef.nS1 * vef.rr; vef.p1.r = (-vef.nP1) * vef.rr; der(LACext.n) = LACext.rNet; LACext.rNet = LACext.n1.r; LACext.c = LACext.n1.c; V = LACext.n1.V; LACext.c = LACext.n / V; badp = (k2adp * kadp) / (kadp + cytosol.ADP.c); adpt = cytosol.ADP.c * badp; atpt = tan + ((-ampt) - cytosol.IMP.c - adpt); ampt = cytosol.AMP.c * bamp; atp = atpt / cytosol.V; pn = (PNt + (-3.0 * atpt + (-2.0 * adpt + (-2.0 * cytosol.CP.c + ((-2.0 * cytosol.FDP.c + ((-cytosol.G3P.c) - cytosol.DHAP.c) - cytosol.F6P.c - cytosol.G6P.c) * cytosol.V - ampt - cytosol.IMP.c))))) / cytosol.V; bamp = (k2amp * kamp) / (kamp + cytosol.AMP.c); nad = 0.7 - cytosol.NADH.c; cr = tcr - cytosol.CP.c; der(V) = 0.0; cytosol.NADH.n1.r + cytosol.vldh.s2.r + cytosol.mitochondria.node_NADH.r + cytosol.vgpdh_1.p1.r = 0.0; cytosol.FDP.n1.r + cytosol.vpfk.p1.r + cytosol.vald.s1.r = 0.0; cytosol.PYR.n1.r + cytosol.vldh.s1.r + cytosol.vpdh.s1.r + cytosol.vgpdh_1.p2.r = 0.0; cytosol.ADP.n1.r + cytosol.vpfk.p2.r + cytosol.vpdh.s2.r + cytosol.jak.p1.r + cytosol.jatpase.p1.r + cytosol.jck.p1.r + cytosol.mitochondria.node_ADP.r + cytosol.vgpdh_1.s1.r = 0.0; cytosol.IMP.n1.r + cytosol.jda.p1.r + cytosol.vgph.m[1].r = 0.0; cytosol.ATP.n1.r + cytosol.jak.m1.r + cytosol.jatpase.s1.r + cytosol.jck.s1.r + cytosol.mitochondria.node_ATP.r = 0.0; cytosol.AMP.n1.r + cytosol.jda.s1.r + cytosol.jak.s1.r + cytosol.vgph.m[2].r = 0.0; cytosol.LAC.n1.r + cytosol.vldh.p1.r + (-cytosol.node_LAC.r) = 0.0; cytosol.NAD.n1.r + cytosol.vldh.m1.r + cytosol.vpdh.m1.r = 0.0; cytosol.CP.n1.r + cytosol.jck.p2.r = 0.0; cytosol.Cr.n1.r + cytosol.jck.s2.r = 0.0; cytosol.GLY.n1.r + cytosol.vgph.s1.r = 0.0; cytosol.PN.n1.r + cytosol.vgph.m[3].r + cytosol.vgpdh_1.m1.r = 0.0; cytosol.G6P.n1.r + cytosol.vgph.p1.r + cytosol.vH6P.s1.r = 0.0; cytosol.F6P.n1.r + cytosol.vpfk.s1.r + cytosol.vH6P.p1.r = 0.0; cytosol.vpdh.p1.r + cytosol.mitochondria.node_NADHm.r = 0.0; cytosol.node_LAC.r + vef.s1.r = 0.0; cytosol.mitochondria.NADHm.n1.r + cytosol.mitochondria.jox.s2.r + (-cytosol.mitochondria.node_NADHm.r) + cytosol.mitochondria.vn.p1.r = 0.0; cytosol.mitochondria.NADm.n1.r + cytosol.mitochondria.jox.p1.r = 0.0; cytosol.mitochondria.jox.s1.r + (-cytosol.mitochondria.node_ADP.r) = 0.0; cytosol.mitochondria.jox.p2.r + (-cytosol.mitochondria.node_ATP.r) = 0.0; cytosol.mitochondria.vn.s1.r + (-cytosol.mitochondria.node_NADH.r) = 0.0; cytosol.mitochondria.NADm.n1.c = cytosol.mitochondria.jox.p1.c; cytosol.mitochondria.NADm.n1.V = cytosol.mitochondria.jox.p1.V; cytosol.mitochondria.NADHm.n1.c = cytosol.mitochondria.jox.s2.c; cytosol.mitochondria.NADHm.n1.c = cytosol.mitochondria.node_NADHm.c; cytosol.mitochondria.NADHm.n1.c = cytosol.mitochondria.vn.p1.c; cytosol.mitochondria.NADHm.n1.V = cytosol.mitochondria.jox.s2.V; cytosol.mitochondria.NADHm.n1.V = cytosol.mitochondria.node_NADHm.V; cytosol.mitochondria.NADHm.n1.V = cytosol.mitochondria.vn.p1.V; cytosol.mitochondria.jox.p2.c = cytosol.mitochondria.node_ATP.c; cytosol.mitochondria.jox.p2.V = cytosol.mitochondria.node_ATP.V; cytosol.mitochondria.jox.s1.c = cytosol.mitochondria.node_ADP.c; cytosol.mitochondria.jox.s1.V = cytosol.mitochondria.node_ADP.V; cytosol.mitochondria.node_NADH.c = cytosol.mitochondria.vn.s1.c; cytosol.mitochondria.node_NADH.V = cytosol.mitochondria.vn.s1.V; cytosol.vald.p1.r + cytosol.DHAP.n1.r + cytosol.vT3P.s1.r = 0.0; cytosol.G3P.n1.r + cytosol.vgpdh_1.s2.r + cytosol.vT3P.p1.r = 0.0; cytosol.PN.n1.c = cytosol.vgpdh_1.m1.c; cytosol.PN.n1.c = cytosol.vgph.m[3].c; cytosol.PN.n1.V = cytosol.vgpdh_1.m1.V; cytosol.PN.n1.V = cytosol.vgph.m[3].V; cytosol.PYR.n1.c = cytosol.vgpdh_1.p2.c; cytosol.PYR.n1.c = cytosol.vldh.s1.c; cytosol.PYR.n1.c = cytosol.vpdh.s1.c; cytosol.PYR.n1.V = cytosol.vgpdh_1.p2.V; cytosol.PYR.n1.V = cytosol.vldh.s1.V; cytosol.PYR.n1.V = cytosol.vpdh.s1.V; cytosol.DHAP.n1.c = cytosol.vT3P.s1.c; cytosol.DHAP.n1.c = cytosol.vald.p1.c; cytosol.DHAP.n1.V = cytosol.vT3P.s1.V; cytosol.DHAP.n1.V = cytosol.vald.p1.V; cytosol.G3P.n1.c = cytosol.vT3P.p1.c; cytosol.G3P.n1.c = cytosol.vgpdh_1.s2.c; cytosol.G3P.n1.V = cytosol.vT3P.p1.V; cytosol.G3P.n1.V = cytosol.vgpdh_1.s2.V; cytosol.ADP.n1.c = cytosol.jak.p1.c; cytosol.ADP.n1.c = cytosol.jatpase.p1.c; cytosol.ADP.n1.c = cytosol.jck.p1.c; cytosol.ADP.n1.c = cytosol.mitochondria.node_ADP.c; cytosol.ADP.n1.c = cytosol.vgpdh_1.s1.c; cytosol.ADP.n1.c = cytosol.vpdh.s2.c; cytosol.ADP.n1.c = cytosol.vpfk.p2.c; cytosol.ADP.n1.V = cytosol.jak.p1.V; cytosol.ADP.n1.V = cytosol.jatpase.p1.V; cytosol.ADP.n1.V = cytosol.jck.p1.V; cytosol.ADP.n1.V = cytosol.mitochondria.node_ADP.V; cytosol.ADP.n1.V = cytosol.vgpdh_1.s1.V; cytosol.ADP.n1.V = cytosol.vpdh.s2.V; cytosol.ADP.n1.V = cytosol.vpfk.p2.V; cytosol.G6P.n1.c = cytosol.vH6P.s1.c; cytosol.G6P.n1.c = cytosol.vgph.p1.c; cytosol.G6P.n1.V = cytosol.vH6P.s1.V; cytosol.G6P.n1.V = cytosol.vgph.p1.V; cytosol.ATP.n1.c = cytosol.jak.m1.c; cytosol.ATP.n1.c = cytosol.jatpase.s1.c; cytosol.ATP.n1.c = cytosol.jck.s1.c; cytosol.ATP.n1.c = cytosol.mitochondria.node_ATP.c; cytosol.ATP.n1.V = cytosol.jak.m1.V; cytosol.ATP.n1.V = cytosol.jatpase.s1.V; cytosol.ATP.n1.V = cytosol.jck.s1.V; cytosol.ATP.n1.V = cytosol.mitochondria.node_ATP.V; cytosol.FDP.n1.c = cytosol.vald.s1.c; cytosol.FDP.n1.c = cytosol.vpfk.p1.c; cytosol.FDP.n1.V = cytosol.vald.s1.V; cytosol.FDP.n1.V = cytosol.vpfk.p1.V; cytosol.NADH.n1.c = cytosol.mitochondria.node_NADH.c; cytosol.NADH.n1.c = cytosol.vgpdh_1.p1.c; cytosol.NADH.n1.c = cytosol.vldh.s2.c; cytosol.NADH.n1.V = cytosol.mitochondria.node_NADH.V; cytosol.NADH.n1.V = cytosol.vgpdh_1.p1.V; cytosol.NADH.n1.V = cytosol.vldh.s2.V; cytosol.mitochondria.node_NADHm.c = cytosol.vpdh.p1.c; cytosol.mitochondria.node_NADHm.V = cytosol.vpdh.p1.V; cytosol.NAD.n1.c = cytosol.vldh.m1.c; cytosol.NAD.n1.c = cytosol.vpdh.m1.c; cytosol.NAD.n1.V = cytosol.vldh.m1.V; cytosol.NAD.n1.V = cytosol.vpdh.m1.V; cytosol.Cr.n1.c = cytosol.jck.s2.c; cytosol.Cr.n1.V = cytosol.jck.s2.V; cytosol.IMP.n1.c = cytosol.jda.p1.c; cytosol.IMP.n1.c = cytosol.vgph.m[1].c; cytosol.IMP.n1.V = cytosol.jda.p1.V; cytosol.IMP.n1.V = cytosol.vgph.m[1].V; cytosol.CP.n1.c = cytosol.jck.p2.c; cytosol.CP.n1.V = cytosol.jck.p2.V; cytosol.AMP.n1.c = cytosol.jak.s1.c; cytosol.AMP.n1.c = cytosol.jda.s1.c; cytosol.AMP.n1.c = cytosol.vgph.m[2].c; cytosol.AMP.n1.V = cytosol.jak.s1.V; cytosol.AMP.n1.V = cytosol.jda.s1.V; cytosol.AMP.n1.V = cytosol.vgph.m[2].V; cytosol.F6P.n1.c = cytosol.vH6P.p1.c; cytosol.F6P.n1.c = cytosol.vpfk.s1.c; cytosol.F6P.n1.V = cytosol.vH6P.p1.V; cytosol.F6P.n1.V = cytosol.vpfk.s1.V; cytosol.LAC.n1.c = cytosol.node_LAC.c; cytosol.LAC.n1.c = cytosol.vldh.p1.c; cytosol.LAC.n1.V = cytosol.node_LAC.V; cytosol.LAC.n1.V = cytosol.vldh.p1.V; cytosol.GLY.n1.c = cytosol.vgph.s1.c; cytosol.GLY.n1.V = cytosol.vgph.s1.V; vef.p1.r + LACext.n1.r = 0.0; LACext.n1.c = vef.p1.c; LACext.n1.V = vef.p1.V; cytosol.node_LAC.c = vef.s1.c; cytosol.node_LAC.V = vef.s1.V; end BioChem_Examples_centralMetabolism_extra_cellular; " "[extra_cellularTotal.mo:1354:9-1354:231:writable] Warning: Component cytosol has the same name as its type .BioChem.Examples.centralMetabolism.cytosol. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant " "Check of BioChem_Examples_centralMetabolism_extra_cellular completed successfully. [extra_cellularTotal.mo:1354:9-1354:231:writable] Warning: Component cytosol has the same name as its type .BioChem.Examples.centralMetabolism.cytosol. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant Class BioChem_Examples_centralMetabolism_extra_cellular has 353 equation(s) and 353 variable(s). 246 of these are trivial equation(s). " "" true true "" "class BioChem_Examples_CircadianOscillator_Container Real V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real Nucleus_V = nucleus.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real Cytoplasm_V = cytoplasm.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real Container_V = V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real nucleus.V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real nucleus.Nucleus_V = nucleus.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real nucleus.y3.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.1, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y3.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y3.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y3.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y3.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y3.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y6.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y6.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y6.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y6.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y6.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y6.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y7.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.05, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.y7.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.y7.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.y7.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y7.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y7.n1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.y3_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y3_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y3_node.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k3t = k3t; Real nucleus.y2_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y2_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y2_node.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.per2_cry_nuclear_export.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.per2_cry_nuclear_export.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.per2_cry_nuclear_export.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.per2_cry_nuclear_export.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.per2_cry_nuclear_export.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.per2_cry_nuclear_export.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.per2_cry_nuclear_export.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.per2_cry_nuclear_export.k3t = nucleus.k3t; Real nucleus.ambientSubstance.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real nucleus.ambientSubstance.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real nucleus.ambientSubstance.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real nucleus.ambientSubstance.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.ambientSubstance.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.ambientSubstance.n1.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k3d = k3d; Real nucleus.nuclear_per2_cry_complex_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.nuclear_per2_cry_complex_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_per2_cry_complex_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_per2_cry_complex_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_per2_cry_complex_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_per2_cry_complex_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_per2_cry_complex_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_per2_cry_complex_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.nuclear_per2_cry_complex_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.nuclear_per2_cry_complex_degradation.k3d = nucleus.k3d; Real nucleus.y6_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y6_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y6_node.V(quantity = \"Volume\", unit = \"l\"); parameter Real nucleus.k6t = k6t; Real nucleus.y5_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.y5_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real nucleus.y5_node.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_nuclear_export.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_nuclear_export.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_nuclear_export.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_nuclear_export.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_nuclear_export.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_nuclear_export.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_nuclear_export.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_nuclear_export.k6t = nucleus.k6t; parameter Real nucleus.k6d = k6d; Real nucleus.nuclear_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.nuclear_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.nuclear_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.nuclear_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.nuclear_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.nuclear_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.nuclear_BMAL1_degradation.k6d = nucleus.k6d; parameter Real nucleus.k6a = k6a; Real nucleus.BMAL1_activation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_activation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_activation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_activation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_activation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_activation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_activation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_activation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_activation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_activation.k6a = nucleus.k6a; parameter Real nucleus.k7a = k7a; Real nucleus.BMAL1_deactivation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.BMAL1_deactivation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_deactivation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_deactivation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_deactivation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.BMAL1_deactivation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.BMAL1_deactivation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.BMAL1_deactivation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.BMAL1_deactivation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.BMAL1_deactivation.k7a = nucleus.k7a; parameter Real nucleus.k7d = k7d; Real nucleus.Active_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real nucleus.Active_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.Active_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.Active_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.Active_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real nucleus.Active_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real nucleus.Active_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real nucleus.Active_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real nucleus.Active_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real nucleus.Active_BMAL1_degradation.k7d = nucleus.k7d; Real cytoplasm.V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real cytoplasm.Cytoplasm_V = cytoplasm.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real cytoplasm.y1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.2, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y1.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y1.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y1.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y1.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y1.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y2.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y2.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y2.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y2.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y2.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y2.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y4.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.8, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y4.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y4.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y4.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y4.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y4.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.y5.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 1.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.y5.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.y5.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.y5.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y5.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y5.n1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.ambientSubstance.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real cytoplasm.ambientSubstance.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real cytoplasm.ambientSubstance.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real cytoplasm.ambientSubstance.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.ambientSubstance.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.ambientSubstance.n1.V(quantity = \"Volume\", unit = \"l\"); input Real cytoplasm.trans_per2_cry = trans_per2_cry; Real cytoplasm.per2_cry_transcription.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_transcription.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_transcription.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_transcription.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_transcription.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_transcription.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_transcription.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_transcription.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_transcription.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; input Real cytoplasm.per2_cry_transcription.trans_per2_cry = cytoplasm.trans_per2_cry; parameter Real cytoplasm.k1d = k1d; Real cytoplasm.per2_cry_mRNA_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_mRNA_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_mRNA_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_mRNA_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_mRNA_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_mRNA_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_mRNA_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_mRNA_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_mRNA_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.per2_cry_mRNA_degradation.k1d = cytoplasm.k1d; parameter Real cytoplasm.k2b = k2b; parameter Real cytoplasm.q = q; Real cytoplasm.per2_cry_complex_formation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_complex_formation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_complex_formation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_complex_formation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_complex_formation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; Real cytoplasm.per2_cry_complex_formation.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_complex_formation.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_complex_formation.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytoplasm.per2_cry_complex_formation.k2b = cytoplasm.k2b; parameter Real cytoplasm.per2_cry_complex_formation.q = cytoplasm.q; parameter Real cytoplasm.k2d = k2d; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d = cytoplasm.k2d; parameter Real cytoplasm.k2t = k2t; Real cytoplasm.y3_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y3_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y3_node.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.per2_cry_nuclear_import.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_nuclear_import.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_nuclear_import.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.per2_cry_nuclear_import.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.per2_cry_nuclear_import.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.per2_cry_nuclear_import.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.per2_cry_nuclear_import.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.per2_cry_nuclear_import.k2t = cytoplasm.k2t; Real cytoplasm.y2_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y2_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y2_node.V(quantity = \"Volume\", unit = \"l\"); input Real cytoplasm.trans_Bmal1 = trans_Bmal1; Real cytoplasm.Bmal1_transcription.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.Bmal1_transcription.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_transcription.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_transcription.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_transcription.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_transcription.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_transcription.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_transcription.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.Bmal1_transcription.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; input Real cytoplasm.Bmal1_transcription.trans_Bmal1 = cytoplasm.trans_Bmal1; parameter Real cytoplasm.k4d = k4d; Real cytoplasm.Bmal1_mRNA_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.Bmal1_mRNA_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_mRNA_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_mRNA_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_mRNA_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.Bmal1_mRNA_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.Bmal1_mRNA_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.Bmal1_mRNA_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.Bmal1_mRNA_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.Bmal1_mRNA_degradation.k4d = cytoplasm.k4d; parameter Real cytoplasm.k5b = k5b; Real cytoplasm.BMAL1_translation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.BMAL1_translation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_translation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_translation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.BMAL1_translation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; Real cytoplasm.BMAL1_translation.m1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_translation.m1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_translation.m1.V(quantity = \"Volume\", unit = \"l\"); parameter Real cytoplasm.BMAL1_translation.k5b = cytoplasm.k5b; parameter Real cytoplasm.k5d = k5d; Real cytoplasm.cytoplasmic_BMAL1_degradation.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_BMAL1_degradation.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.cytoplasmic_BMAL1_degradation.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.cytoplasmic_BMAL1_degradation.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.cytoplasmic_BMAL1_degradation.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.cytoplasmic_BMAL1_degradation.k5d = cytoplasm.k5d; parameter Real cytoplasm.k5t = k5t; Real cytoplasm.y6_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y6_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y6_node.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real cytoplasm.BMAL1_nuclear_import.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_nuclear_import.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_nuclear_import.s1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.BMAL1_nuclear_import.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real cytoplasm.BMAL1_nuclear_import.p1.V(quantity = \"Volume\", unit = \"l\"); Real cytoplasm.BMAL1_nuclear_import.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real cytoplasm.BMAL1_nuclear_import.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real cytoplasm.BMAL1_nuclear_import.k5t = cytoplasm.k5t; Real cytoplasm.y5_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real cytoplasm.y5_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real cytoplasm.y5_node.V(quantity = \"Volume\", unit = \"l\"); Real trans_per2_cry(start = 0.0); parameter Real v1b = 9.0; parameter Real c_sbml = 0.01; parameter Real k1b = 1.0; parameter Real k1i = 0.56; parameter Real hill_coeff = 8.0; Real trans_Bmal1(start = 0.0); parameter Real v4b = 3.6; parameter Real r_sbml = 3.0; parameter Real k4b = 2.16; Real y5_y6_y7(start = 3.05); parameter Real k1d = 0.12; parameter Real k2b = 0.3; parameter Real q = 2.0; parameter Real k2d = 0.05; parameter Real k2t = 0.24; parameter Real k3t = 0.02; parameter Real k3d = 0.12; parameter Real k4d = 0.75; parameter Real k5b = 0.24; parameter Real k5d = 0.06; parameter Real k5t = 0.45; parameter Real k6t = 0.06; parameter Real k6d = 0.12; parameter Real k6a = 0.09; parameter Real k7a = 0.003; parameter Real k7d = 0.09; equation der(nucleus.y3.n) = nucleus.y3.rNet; nucleus.y3.rNet = nucleus.y3.n1.r; nucleus.y3.c = nucleus.y3.n1.c; nucleus.V = nucleus.y3.n1.V; nucleus.y3.c = nucleus.y3.n / nucleus.V; der(nucleus.y6.n) = nucleus.y6.rNet; nucleus.y6.rNet = nucleus.y6.n1.r; nucleus.y6.c = nucleus.y6.n1.c; nucleus.V = nucleus.y6.n1.V; nucleus.y6.c = nucleus.y6.n / nucleus.V; der(nucleus.y7.n) = nucleus.y7.rNet; nucleus.y7.rNet = nucleus.y7.n1.r; nucleus.y7.c = nucleus.y7.n1.c; nucleus.V = nucleus.y7.n1.V; nucleus.y7.c = nucleus.y7.n / nucleus.V; nucleus.per2_cry_nuclear_export.rr = nucleus.Nucleus_V * (nucleus.per2_cry_nuclear_export.k3t * nucleus.per2_cry_nuclear_export.s1.c); nucleus.per2_cry_nuclear_export.s1.r = nucleus.per2_cry_nuclear_export.nS1 * nucleus.per2_cry_nuclear_export.rr; nucleus.per2_cry_nuclear_export.p1.r = (-nucleus.per2_cry_nuclear_export.nP1) * nucleus.per2_cry_nuclear_export.rr; der(nucleus.ambientSubstance.n) = 0.0; nucleus.ambientSubstance.rNet = nucleus.ambientSubstance.n1.r; nucleus.ambientSubstance.c = nucleus.ambientSubstance.n1.c; nucleus.V = nucleus.ambientSubstance.n1.V; nucleus.ambientSubstance.c = nucleus.ambientSubstance.n / nucleus.V; nucleus.nuclear_per2_cry_complex_degradation.rr = nucleus.Nucleus_V * (nucleus.nuclear_per2_cry_complex_degradation.k3d * nucleus.nuclear_per2_cry_complex_degradation.s1.c); nucleus.nuclear_per2_cry_complex_degradation.s1.r = nucleus.nuclear_per2_cry_complex_degradation.nS1 * nucleus.nuclear_per2_cry_complex_degradation.rr; nucleus.nuclear_per2_cry_complex_degradation.p1.r = (-nucleus.nuclear_per2_cry_complex_degradation.nP1) * nucleus.nuclear_per2_cry_complex_degradation.rr; nucleus.BMAL1_nuclear_export.rr = nucleus.Nucleus_V * (nucleus.BMAL1_nuclear_export.k6t * nucleus.BMAL1_nuclear_export.s1.c); nucleus.BMAL1_nuclear_export.s1.r = nucleus.BMAL1_nuclear_export.nS1 * nucleus.BMAL1_nuclear_export.rr; nucleus.BMAL1_nuclear_export.p1.r = (-nucleus.BMAL1_nuclear_export.nP1) * nucleus.BMAL1_nuclear_export.rr; nucleus.nuclear_BMAL1_degradation.rr = nucleus.Nucleus_V * (nucleus.nuclear_BMAL1_degradation.k6d * nucleus.nuclear_BMAL1_degradation.s1.c); nucleus.nuclear_BMAL1_degradation.s1.r = nucleus.nuclear_BMAL1_degradation.nS1 * nucleus.nuclear_BMAL1_degradation.rr; nucleus.nuclear_BMAL1_degradation.p1.r = (-nucleus.nuclear_BMAL1_degradation.nP1) * nucleus.nuclear_BMAL1_degradation.rr; nucleus.BMAL1_activation.rr = nucleus.Nucleus_V * (nucleus.BMAL1_activation.k6a * nucleus.BMAL1_activation.s1.c); nucleus.BMAL1_activation.s1.r = nucleus.BMAL1_activation.nS1 * nucleus.BMAL1_activation.rr; nucleus.BMAL1_activation.p1.r = (-nucleus.BMAL1_activation.nP1) * nucleus.BMAL1_activation.rr; nucleus.BMAL1_deactivation.rr = nucleus.Nucleus_V * (nucleus.BMAL1_deactivation.k7a * nucleus.BMAL1_deactivation.s1.c); nucleus.BMAL1_deactivation.s1.r = nucleus.BMAL1_deactivation.nS1 * nucleus.BMAL1_deactivation.rr; nucleus.BMAL1_deactivation.p1.r = (-nucleus.BMAL1_deactivation.nP1) * nucleus.BMAL1_deactivation.rr; nucleus.Active_BMAL1_degradation.rr = nucleus.Nucleus_V * (nucleus.Active_BMAL1_degradation.k7d * nucleus.Active_BMAL1_degradation.s1.c); nucleus.Active_BMAL1_degradation.s1.r = nucleus.Active_BMAL1_degradation.nS1 * nucleus.Active_BMAL1_degradation.rr; nucleus.Active_BMAL1_degradation.p1.r = (-nucleus.Active_BMAL1_degradation.nP1) * nucleus.Active_BMAL1_degradation.rr; der(nucleus.V) = 0.0; der(cytoplasm.y1.n) = cytoplasm.y1.rNet; cytoplasm.y1.rNet = cytoplasm.y1.n1.r; cytoplasm.y1.c = cytoplasm.y1.n1.c; cytoplasm.V = cytoplasm.y1.n1.V; cytoplasm.y1.c = cytoplasm.y1.n / cytoplasm.V; der(cytoplasm.y2.n) = cytoplasm.y2.rNet; cytoplasm.y2.rNet = cytoplasm.y2.n1.r; cytoplasm.y2.c = cytoplasm.y2.n1.c; cytoplasm.V = cytoplasm.y2.n1.V; cytoplasm.y2.c = cytoplasm.y2.n / cytoplasm.V; der(cytoplasm.y4.n) = cytoplasm.y4.rNet; cytoplasm.y4.rNet = cytoplasm.y4.n1.r; cytoplasm.y4.c = cytoplasm.y4.n1.c; cytoplasm.V = cytoplasm.y4.n1.V; cytoplasm.y4.c = cytoplasm.y4.n / cytoplasm.V; der(cytoplasm.y5.n) = cytoplasm.y5.rNet; cytoplasm.y5.rNet = cytoplasm.y5.n1.r; cytoplasm.y5.c = cytoplasm.y5.n1.c; cytoplasm.V = cytoplasm.y5.n1.V; cytoplasm.y5.c = cytoplasm.y5.n / cytoplasm.V; der(cytoplasm.ambientSubstance.n) = 0.0; cytoplasm.ambientSubstance.rNet = cytoplasm.ambientSubstance.n1.r; cytoplasm.ambientSubstance.c = cytoplasm.ambientSubstance.n1.c; cytoplasm.V = cytoplasm.ambientSubstance.n1.V; cytoplasm.ambientSubstance.c = cytoplasm.ambientSubstance.n / cytoplasm.V; cytoplasm.per2_cry_transcription.rr = cytoplasm.Cytoplasm_V * cytoplasm.per2_cry_transcription.trans_per2_cry; cytoplasm.per2_cry_transcription.s1.r = cytoplasm.per2_cry_transcription.nS1 * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_transcription.p1.r = (-cytoplasm.per2_cry_transcription.nP1) * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_mRNA_degradation.k1d * cytoplasm.per2_cry_mRNA_degradation.s1.c); cytoplasm.per2_cry_mRNA_degradation.s1.r = cytoplasm.per2_cry_mRNA_degradation.nS1 * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_mRNA_degradation.p1.r = (-cytoplasm.per2_cry_mRNA_degradation.nP1) * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_complex_formation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_complex_formation.k2b * cytoplasm.per2_cry_complex_formation.m1.c ^ cytoplasm.per2_cry_complex_formation.q); cytoplasm.per2_cry_complex_formation.s1.r = cytoplasm.per2_cry_complex_formation.nS1 * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d * cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c); cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r = cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1 * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r = (-cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1) * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.per2_cry_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_nuclear_import.k2t * cytoplasm.per2_cry_nuclear_import.s1.c); cytoplasm.per2_cry_nuclear_import.s1.r = cytoplasm.per2_cry_nuclear_import.nS1 * cytoplasm.per2_cry_nuclear_import.rr; cytoplasm.per2_cry_nuclear_import.p1.r = (-cytoplasm.per2_cry_nuclear_import.nP1) * cytoplasm.per2_cry_nuclear_import.rr; cytoplasm.Bmal1_transcription.rr = cytoplasm.Cytoplasm_V * cytoplasm.Bmal1_transcription.trans_Bmal1; cytoplasm.Bmal1_transcription.s1.r = cytoplasm.Bmal1_transcription.nS1 * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_transcription.p1.r = (-cytoplasm.Bmal1_transcription.nP1) * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.Bmal1_mRNA_degradation.k4d * cytoplasm.Bmal1_mRNA_degradation.s1.c); cytoplasm.Bmal1_mRNA_degradation.s1.r = cytoplasm.Bmal1_mRNA_degradation.nS1 * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.Bmal1_mRNA_degradation.p1.r = (-cytoplasm.Bmal1_mRNA_degradation.nP1) * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.BMAL1_translation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_translation.k5b * cytoplasm.BMAL1_translation.m1.c); cytoplasm.BMAL1_translation.s1.r = cytoplasm.BMAL1_translation.nS1 * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.cytoplasmic_BMAL1_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_BMAL1_degradation.k5d * cytoplasm.cytoplasmic_BMAL1_degradation.s1.c); cytoplasm.cytoplasmic_BMAL1_degradation.s1.r = cytoplasm.cytoplasmic_BMAL1_degradation.nS1 * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = (-cytoplasm.cytoplasmic_BMAL1_degradation.nP1) * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.BMAL1_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_nuclear_import.k5t * cytoplasm.BMAL1_nuclear_import.s1.c); cytoplasm.BMAL1_nuclear_import.s1.r = cytoplasm.BMAL1_nuclear_import.nS1 * cytoplasm.BMAL1_nuclear_import.rr; cytoplasm.BMAL1_nuclear_import.p1.r = (-cytoplasm.BMAL1_nuclear_import.nP1) * cytoplasm.BMAL1_nuclear_import.rr; der(cytoplasm.V) = 0.0; trans_per2_cry = (v1b * (nucleus.y7.c + c_sbml)) / (k1b * (1.0 + (nucleus.y3.c / k1i) ^ hill_coeff) + (nucleus.y7.c + c_sbml)); trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); der(V) = 0.0; nucleus.y3.n1.r + (-nucleus.y3_node.r) + nucleus.per2_cry_nuclear_export.s1.r + nucleus.nuclear_per2_cry_complex_degradation.s1.r = 0.0; nucleus.y6.n1.r + (-nucleus.y6_node.r) + nucleus.BMAL1_nuclear_export.s1.r + nucleus.nuclear_BMAL1_degradation.s1.r + nucleus.BMAL1_activation.s1.r + nucleus.BMAL1_deactivation.p1.r = 0.0; nucleus.y7.n1.r + nucleus.BMAL1_activation.p1.r + nucleus.BMAL1_deactivation.s1.r + nucleus.Active_BMAL1_degradation.s1.r = 0.0; nucleus.y3_node.r + cytoplasm.y3_node.r = 0.0; nucleus.y2_node.r + cytoplasm.y2_node.r = 0.0; (-nucleus.y2_node.r) + nucleus.per2_cry_nuclear_export.p1.r = 0.0; nucleus.ambientSubstance.n1.r + nucleus.nuclear_per2_cry_complex_degradation.p1.r + nucleus.nuclear_BMAL1_degradation.p1.r + nucleus.Active_BMAL1_degradation.p1.r = 0.0; nucleus.y6_node.r + cytoplasm.y6_node.r = 0.0; nucleus.y5_node.r + cytoplasm.y5_node.r = 0.0; (-nucleus.y5_node.r) + nucleus.BMAL1_nuclear_export.p1.r = 0.0; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.per2_cry_nuclear_export.s1.c; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.y3.n1.c; nucleus.nuclear_per2_cry_complex_degradation.s1.c = nucleus.y3_node.c; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.per2_cry_nuclear_export.s1.V; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.y3.n1.V; nucleus.nuclear_per2_cry_complex_degradation.s1.V = nucleus.y3_node.V; nucleus.Active_BMAL1_degradation.s1.c = nucleus.BMAL1_activation.p1.c; nucleus.Active_BMAL1_degradation.s1.c = nucleus.BMAL1_deactivation.s1.c; nucleus.Active_BMAL1_degradation.s1.c = nucleus.y7.n1.c; nucleus.Active_BMAL1_degradation.s1.V = nucleus.BMAL1_activation.p1.V; nucleus.Active_BMAL1_degradation.s1.V = nucleus.BMAL1_deactivation.s1.V; nucleus.Active_BMAL1_degradation.s1.V = nucleus.y7.n1.V; nucleus.BMAL1_activation.s1.c = nucleus.BMAL1_deactivation.p1.c; nucleus.BMAL1_activation.s1.c = nucleus.BMAL1_nuclear_export.s1.c; nucleus.BMAL1_activation.s1.c = nucleus.nuclear_BMAL1_degradation.s1.c; nucleus.BMAL1_activation.s1.c = nucleus.y6.n1.c; nucleus.BMAL1_activation.s1.c = nucleus.y6_node.c; nucleus.BMAL1_activation.s1.V = nucleus.BMAL1_deactivation.p1.V; nucleus.BMAL1_activation.s1.V = nucleus.BMAL1_nuclear_export.s1.V; nucleus.BMAL1_activation.s1.V = nucleus.nuclear_BMAL1_degradation.s1.V; nucleus.BMAL1_activation.s1.V = nucleus.y6.n1.V; nucleus.BMAL1_activation.s1.V = nucleus.y6_node.V; nucleus.Active_BMAL1_degradation.p1.c = nucleus.ambientSubstance.n1.c; nucleus.Active_BMAL1_degradation.p1.c = nucleus.nuclear_BMAL1_degradation.p1.c; nucleus.Active_BMAL1_degradation.p1.c = nucleus.nuclear_per2_cry_complex_degradation.p1.c; nucleus.Active_BMAL1_degradation.p1.V = nucleus.ambientSubstance.n1.V; nucleus.Active_BMAL1_degradation.p1.V = nucleus.nuclear_BMAL1_degradation.p1.V; nucleus.Active_BMAL1_degradation.p1.V = nucleus.nuclear_per2_cry_complex_degradation.p1.V; nucleus.BMAL1_nuclear_export.p1.c = nucleus.y5_node.c; nucleus.BMAL1_nuclear_export.p1.V = nucleus.y5_node.V; nucleus.per2_cry_nuclear_export.p1.c = nucleus.y2_node.c; nucleus.per2_cry_nuclear_export.p1.V = nucleus.y2_node.V; cytoplasm.y1.n1.r + cytoplasm.per2_cry_transcription.p1.r + cytoplasm.per2_cry_mRNA_degradation.s1.r + cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.y2.n1.r + cytoplasm.per2_cry_complex_formation.p1.r + cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r + cytoplasm.per2_cry_nuclear_import.s1.r + (-cytoplasm.y2_node.r) = 0.0; cytoplasm.y4.n1.r + cytoplasm.Bmal1_transcription.p1.r + cytoplasm.Bmal1_mRNA_degradation.s1.r + cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.y5.n1.r + cytoplasm.BMAL1_translation.p1.r + cytoplasm.cytoplasmic_BMAL1_degradation.s1.r + cytoplasm.BMAL1_nuclear_import.s1.r + (-cytoplasm.y5_node.r) = 0.0; cytoplasm.ambientSubstance.n1.r + cytoplasm.per2_cry_transcription.s1.r + cytoplasm.per2_cry_mRNA_degradation.p1.r + cytoplasm.per2_cry_complex_formation.s1.r + cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r + cytoplasm.Bmal1_transcription.s1.r + cytoplasm.Bmal1_mRNA_degradation.p1.r + cytoplasm.BMAL1_translation.s1.r + cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = 0.0; (-cytoplasm.y3_node.r) + cytoplasm.per2_cry_nuclear_import.p1.r = 0.0; (-cytoplasm.y6_node.r) + cytoplasm.BMAL1_nuclear_import.p1.r = 0.0; cytoplasm.BMAL1_nuclear_import.p1.c = cytoplasm.y6_node.c; cytoplasm.BMAL1_nuclear_import.p1.V = cytoplasm.y6_node.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.per2_cry_complex_formation.p1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.per2_cry_nuclear_import.s1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.y2.n1.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c = cytoplasm.y2_node.c; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.per2_cry_complex_formation.p1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.per2_cry_nuclear_import.s1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.y2.n1.V; cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.V = cytoplasm.y2_node.V; cytoplasm.per2_cry_nuclear_import.p1.c = cytoplasm.y3_node.c; cytoplasm.per2_cry_nuclear_import.p1.V = cytoplasm.y3_node.V; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.BMAL1_translation.p1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.cytoplasmic_BMAL1_degradation.s1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.y5.n1.c; cytoplasm.BMAL1_nuclear_import.s1.c = cytoplasm.y5_node.c; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.BMAL1_translation.p1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.cytoplasmic_BMAL1_degradation.s1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.y5.n1.V; cytoplasm.BMAL1_nuclear_import.s1.V = cytoplasm.y5_node.V; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.per2_cry_mRNA_degradation.s1.c; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.per2_cry_transcription.p1.c; cytoplasm.per2_cry_complex_formation.m1.c = cytoplasm.y1.n1.c; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.per2_cry_mRNA_degradation.s1.V; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.per2_cry_transcription.p1.V; cytoplasm.per2_cry_complex_formation.m1.V = cytoplasm.y1.n1.V; cytoplasm.BMAL1_translation.s1.c = cytoplasm.Bmal1_mRNA_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.Bmal1_transcription.s1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.ambientSubstance.n1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.cytoplasmic_BMAL1_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_complex_formation.s1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_mRNA_degradation.p1.c; cytoplasm.BMAL1_translation.s1.c = cytoplasm.per2_cry_transcription.s1.c; cytoplasm.BMAL1_translation.s1.V = cytoplasm.Bmal1_mRNA_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.Bmal1_transcription.s1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.ambientSubstance.n1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.cytoplasmic_BMAL1_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_complex_formation.s1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_mRNA_degradation.p1.V; cytoplasm.BMAL1_translation.s1.V = cytoplasm.per2_cry_transcription.s1.V; cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_mRNA_degradation.s1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_transcription.p1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.y4.n1.c; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_mRNA_degradation.s1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_transcription.p1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.y4.n1.V; cytoplasm.y5_node.c = nucleus.y5_node.c; cytoplasm.y5_node.V = nucleus.y5_node.V; cytoplasm.y6_node.c = nucleus.y6_node.c; cytoplasm.y6_node.V = nucleus.y6_node.V; cytoplasm.y2_node.c = nucleus.y2_node.c; cytoplasm.y2_node.V = nucleus.y2_node.V; cytoplasm.y3_node.c = nucleus.y3_node.c; cytoplasm.y3_node.V = nucleus.y3_node.V; end BioChem_Examples_CircadianOscillator_Container; " "" "Check of BioChem_Examples_CircadianOscillator_Container completed successfully. Class BioChem_Examples_CircadianOscillator_Container has 252 equation(s) and 252 variable(s). 175 of these are trivial equation(s). " "" true true "" "class BioChem_Examples_CaOscillations_Cytosol Real V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real Cytosol_V = V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real Endoplasmic_Reticulum_V = Endoplasmic_Reticulum.V \"Variable used to make the compartment volume of inner compartments accessible. Do not edit.\"; Real Endoplasmic_Reticulum.V(quantity = \"Volume\", unit = \"l\", start = 1.0, StateSelect = StateSelect.prefer) \"Compartment volume\"; Real Endoplasmic_Reticulum.Endoplasmic_Reticulum_V = Endoplasmic_Reticulum.V \"Variable used to make the compartment volume accessible for inner components. Do not edit.\"; Real Endoplasmic_Reticulum.CaER.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real Endoplasmic_Reticulum.CaER.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real Endoplasmic_Reticulum.CaER.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real Endoplasmic_Reticulum.CaER.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.CaER.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real Endoplasmic_Reticulum.CaER.n1.V(quantity = \"Volume\", unit = \"l\"); input Real Endoplasmic_Reticulum.p1_sbml = p1_sbml; input Real Endoplasmic_Reticulum.p2_sbml = p2_sbml; input Real Endoplasmic_Reticulum.p3_sbml = p3_sbml; Real Endoplasmic_Reticulum.Ca_Cyt_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.Ca_Cyt_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real Endoplasmic_Reticulum.Ca_Cyt_node.V(quantity = \"Volume\", unit = \"l\"); Real Endoplasmic_Reticulum.Jch.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real Endoplasmic_Reticulum.Jch.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.Jch.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Endoplasmic_Reticulum.Jch.s1.V(quantity = \"Volume\", unit = \"l\"); Real Endoplasmic_Reticulum.Jch.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.Jch.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Endoplasmic_Reticulum.Jch.p1.V(quantity = \"Volume\", unit = \"l\"); Real Endoplasmic_Reticulum.Jch.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real Endoplasmic_Reticulum.Jch.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real Endoplasmic_Reticulum.Jch.Fch_0 = 8.0; input Real Endoplasmic_Reticulum.Jch.p1_sbml = Endoplasmic_Reticulum.p1_sbml; input Real Endoplasmic_Reticulum.Jch.p2_sbml = Endoplasmic_Reticulum.p2_sbml; input Real Endoplasmic_Reticulum.Jch.p3_sbml = Endoplasmic_Reticulum.p3_sbml; Real Endoplasmic_Reticulum.Jleak.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real Endoplasmic_Reticulum.Jleak.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.Jleak.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Endoplasmic_Reticulum.Jleak.s1.V(quantity = \"Volume\", unit = \"l\"); Real Endoplasmic_Reticulum.Jleak.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.Jleak.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Endoplasmic_Reticulum.Jleak.p1.V(quantity = \"Volume\", unit = \"l\"); Real Endoplasmic_Reticulum.Jleak.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real Endoplasmic_Reticulum.Jleak.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real Endoplasmic_Reticulum.Jleak.Fleak = 0.5; Real Endoplasmic_Reticulum.CaER_node.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Endoplasmic_Reticulum.CaER_node.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real Endoplasmic_Reticulum.CaER_node.V(quantity = \"Volume\", unit = \"l\"); Real Ca_Cyt.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0, start = 0.0, StateSelect = StateSelect.prefer) \"Current concentration of substance (mM)\"; Real Ca_Cyt.rNet(quantity = \"Molar flow rate\", unit = \"mol/s\") \"Net flow rate of substance into the node\"; Real Ca_Cyt.n(quantity = \"AmountOfSubstance\", unit = \"mol\", min = 0.0, StateSelect = StateSelect.prefer) \"Number of moles of substance in pool (mol)\"; Real Ca_Cyt.n1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Ca_Cyt.n1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); output Real Ca_Cyt.n1.V(quantity = \"Volume\", unit = \"l\"); Real n_sbml(start = 1.0); parameter Real n0 = 1.0; parameter Real kbN = 0.5; parameter Real kappa = 5.0; Real p1_sbml(start = 0.0); parameter Real p11 = 0.2; parameter Real p12 = 0.8; parameter Real K1 = 5.0; Real p2_sbml(start = 0.0); parameter Real K2 = 0.7; Real p3_sbml(start = 0.95); parameter Real k31 = 0.5; parameter Real K3 = 0.7; Real Jpump.rr(quantity = \"Reaction rate\", unit = \"mol/s\") \"Rate of the reaction\"; Real Jpump.s1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Jpump.s1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Jpump.s1.V(quantity = \"Volume\", unit = \"l\"); Real Jpump.p1.c(quantity = \"Concentration\", unit = \"mol/l\", min = 0.0); Real Jpump.p1.r(quantity = \"Molar flow rate\", unit = \"mol/s\"); input Real Jpump.p1.V(quantity = \"Volume\", unit = \"l\"); Real Jpump.nS1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the substrate\"; Real Jpump.nP1(quantity = \"Stoichiometric coefficient\", unit = \"1\") = 1.0 \"Stoichiometric coefficient for the product\"; parameter Real Jpump.Fpump_0 = 2.0; parameter Real Jpump.Kpump = 0.1; equation der(Endoplasmic_Reticulum.CaER.n) = Endoplasmic_Reticulum.CaER.rNet; Endoplasmic_Reticulum.CaER.rNet = Endoplasmic_Reticulum.CaER.n1.r; Endoplasmic_Reticulum.CaER.c = Endoplasmic_Reticulum.CaER.n1.c; Endoplasmic_Reticulum.V = Endoplasmic_Reticulum.CaER.n1.V; Endoplasmic_Reticulum.CaER.c = Endoplasmic_Reticulum.CaER.n / Endoplasmic_Reticulum.V; Endoplasmic_Reticulum.Jch.rr = Endoplasmic_Reticulum.Jch.Fch_0 * (Endoplasmic_Reticulum.Jch.p1_sbml * (Endoplasmic_Reticulum.Jch.p2_sbml * Endoplasmic_Reticulum.Jch.p3_sbml)); Endoplasmic_Reticulum.Jch.s1.r = Endoplasmic_Reticulum.Jch.nS1 * Endoplasmic_Reticulum.Jch.rr; Endoplasmic_Reticulum.Jch.p1.r = (-Endoplasmic_Reticulum.Jch.nP1) * Endoplasmic_Reticulum.Jch.rr; Endoplasmic_Reticulum.Jleak.rr = Endoplasmic_Reticulum.Jleak.Fleak; Endoplasmic_Reticulum.Jleak.s1.r = Endoplasmic_Reticulum.Jleak.nS1 * Endoplasmic_Reticulum.Jleak.rr; Endoplasmic_Reticulum.Jleak.p1.r = (-Endoplasmic_Reticulum.Jleak.nP1) * Endoplasmic_Reticulum.Jleak.rr; der(Endoplasmic_Reticulum.V) = 0.0; der(Ca_Cyt.n) = Ca_Cyt.rNet; Ca_Cyt.rNet = Ca_Cyt.n1.r; Ca_Cyt.c = Ca_Cyt.n1.c; V = Ca_Cyt.n1.V; Ca_Cyt.c = Ca_Cyt.n / V; Jpump.rr = (Jpump.Fpump_0 * Jpump.s1.c) / (Jpump.Kpump + Jpump.s1.c); Jpump.s1.r = Jpump.nS1 * Jpump.rr; Jpump.p1.r = (-Jpump.nP1) * Jpump.rr; n_sbml = n0 * (exp((-kbN) * time) + kappa * (1.0 - exp((-kbN) * time))); p1_sbml = p11 + (p12 * n_sbml) / (K1 + n_sbml); p2_sbml = Ca_Cyt.c / (K2 + Ca_Cyt.c); der(p3_sbml) = (-k31) * (Ca_Cyt.c * p3_sbml) + k31 * (K3 * (1.0 - p3_sbml)); der(V) = 0.0; Endoplasmic_Reticulum.CaER.n1.r + Endoplasmic_Reticulum.Jch.s1.r + Endoplasmic_Reticulum.Jleak.s1.r + (-Endoplasmic_Reticulum.CaER_node.r) = 0.0; Endoplasmic_Reticulum.Ca_Cyt_node.r + Ca_Cyt.n1.r + Jpump.s1.r = 0.0; (-Endoplasmic_Reticulum.Ca_Cyt_node.r) + Endoplasmic_Reticulum.Jch.p1.r + Endoplasmic_Reticulum.Jleak.p1.r = 0.0; Endoplasmic_Reticulum.CaER_node.r + Jpump.p1.r = 0.0; Endoplasmic_Reticulum.Ca_Cyt_node.c = Endoplasmic_Reticulum.Jch.p1.c; Endoplasmic_Reticulum.Ca_Cyt_node.c = Endoplasmic_Reticulum.Jleak.p1.c; Endoplasmic_Reticulum.Ca_Cyt_node.V = Endoplasmic_Reticulum.Jch.p1.V; Endoplasmic_Reticulum.Ca_Cyt_node.V = Endoplasmic_Reticulum.Jleak.p1.V; Endoplasmic_Reticulum.CaER.n1.c = Endoplasmic_Reticulum.CaER_node.c; Endoplasmic_Reticulum.CaER.n1.c = Endoplasmic_Reticulum.Jch.s1.c; Endoplasmic_Reticulum.CaER.n1.c = Endoplasmic_Reticulum.Jleak.s1.c; Endoplasmic_Reticulum.CaER.n1.V = Endoplasmic_Reticulum.CaER_node.V; Endoplasmic_Reticulum.CaER.n1.V = Endoplasmic_Reticulum.Jch.s1.V; Endoplasmic_Reticulum.CaER.n1.V = Endoplasmic_Reticulum.Jleak.s1.V; Ca_Cyt.n1.c = Endoplasmic_Reticulum.Ca_Cyt_node.c; Ca_Cyt.n1.c = Jpump.s1.c; Ca_Cyt.n1.V = Endoplasmic_Reticulum.Ca_Cyt_node.V; Ca_Cyt.n1.V = Jpump.s1.V; Endoplasmic_Reticulum.CaER_node.c = Jpump.p1.c; Endoplasmic_Reticulum.CaER_node.V = Jpump.p1.V; end BioChem_Examples_CaOscillations_Cytosol; " "" "Check of BioChem_Examples_CaOscillations_Cytosol completed successfully. Class BioChem_Examples_CaOscillations_Cytosol has 60 equation(s) and 60 variable(s). 41 of these are trivial equation(s). " "" true true "" true "" "Check of BioChem.Examples.InsulinSignaling_Sedaghat completed successfully. Class BioChem.Examples.InsulinSignaling_Sedaghat has 141 equation(s) and 141 variable(s). 95 of these are trivial equation(s). " "" "Check of BioChem.Examples.Glycolysis completed successfully. Class BioChem.Examples.Glycolysis has 170 equation(s) and 170 variable(s). 116 of these are trivial equation(s). " "" "Check of BioChem.Examples.EnzMM completed successfully. Class BioChem.Examples.EnzMM has 22 equation(s) and 22 variable(s). 16 of these are trivial equation(s). " "" "Check of BioChem.Examples.GMO.cell completed successfully. Class BioChem.Examples.GMO.cell has 96 equation(s) and 96 variable(s). 63 of these are trivial equation(s). " "" "Check of BioChem.Examples.centralMetabolism completed successfully. Class BioChem.Examples.centralMetabolism has 0 equation(s) and 0 variable(s). 0 of these are trivial equation(s). " "Check of BioChem.Examples.centralMetabolism.cytosol completed successfully. [package.mo:798:7-798:182:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:789:7-789:182:writable] Error: Variable jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:789:7-789:182:writable] Error: Variable jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:789:7-789:182:writable] Error: Variable jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:790:7-790:183:writable] Error: Variable vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:790:7-790:183:writable] Error: Variable vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:792:7-792:183:writable] Error: Variable vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:792:7-792:183:writable] Error: Variable vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:793:7-793:190:writable] Error: Variable jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:793:7-793:190:writable] Error: Variable jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:793:7-793:190:writable] Error: Variable jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:793:7-793:190:writable] Error: Variable jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:795:7-795:193:writable] Error: Variable jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:795:7-795:193:writable] Error: Variable jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:796:7-796:181:writable] Error: Variable jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:796:7-796:181:writable] Error: Variable jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:1014:7-1014:182:writable] Error: Variable mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant [package.mo:816:7-816:179:writable] Error: Variable vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant [package.mo:816:7-816:179:writable] Error: Variable vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant Class BioChem.Examples.centralMetabolism.cytosol has 320 equation(s) and 320 variable(s). 213 of these are trivial equation(s). " "" "Check of BioChem.Examples.CircadianOscillator.Container completed successfully. Class BioChem.Examples.CircadianOscillator.Container has 252 equation(s) and 252 variable(s). 175 of these are trivial equation(s). " "" "Check of BioChem.Examples.CircadianOscillator.Nucleus completed successfully. Class BioChem.Examples.CircadianOscillator.Nucleus has 99 equation(s) and 101 variable(s). 68 of these are trivial equation(s). " "" "Check of BioChem.Examples.CircadianOscillator.Cytoplasm completed successfully. Class BioChem.Examples.CircadianOscillator.Cytoplasm has 140 equation(s) and 142 variable(s). 96 of these are trivial equation(s). " "" "Check of BioChem.Examples.CellDivison.cell completed successfully. Class BioChem.Examples.CellDivison.cell has 148 equation(s) and 148 variable(s). 99 of these are trivial equation(s). " "" "Check of BioChem.Examples.CaOscillations.Cytosol completed successfully. Class BioChem.Examples.CaOscillations.Cytosol has 60 equation(s) and 60 variable(s). 41 of these are trivial equation(s). " "" "Check of BioChem.Examples.CaOscillations.Endoplasmic_Reticulum completed successfully. Class BioChem.Examples.CaOscillations.Endoplasmic_Reticulum has 34 equation(s) and 35 variable(s). 22 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.GlucoseInsulinModel completed successfully. [package.mo:2395:7-2395:212:writable] Warning: Component GastroIntestinalTract has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.GastroIntestinalTract. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2396:7-2396:194:writable] Warning: Component TissueGlucose has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.TissueGlucose. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2397:7-2397:222:writable] Warning: Component GlucoseRenalExcretion has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.GlucoseRenalExcretion. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2398:7-2398:193:writable] Warning: Component PlasmaGlucose has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.PlasmaGlucose. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2399:7-2399:195:writable] Warning: Component PlasmaInsulin has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.PlasmaInsulin. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2400:7-2400:215:writable] Warning: Component UtilizationMuscleTissue has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.UtilizationMuscleTissue. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2402:7-2402:200:writable] Warning: Component LiverInsulin has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.LiverInsulin. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2403:7-2403:230:writable] Warning: Component EndogenousGlucoseProduction has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.EndogenousGlucoseProduction. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2405:7-2405:196:writable] Warning: Component BetaCell has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Parts.BetaCell. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2446:11-2446:189:writable] Warning: Component dirac has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.dirac. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2656:11-2656:276:writable] Warning: Component UtilizationReaction has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.UtilizationReaction. This is forbidden by Modelica specification and may lead to lookup errors. [package.mo:2580:11-2580:183:writable] Warning: Component m_3 has the same name as its type BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.m_3. This is forbidden by Modelica specification and may lead to lookup errors. Class BioChem.Examples.GlucoseInsulinModel.GlucoseInsulinModel has 687 equation(s) and 687 variable(s). 511 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.FlowReaction completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.FlowReaction has 7 equation(s) and 7 variable(s). 4 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.UtilizationReaction completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.UtilizationReaction has 11 equation(s) and 11 variable(s). 6 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.signaltosubstance completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.signaltosubstance has 7 equation(s) and 7 variable(s). 5 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.U_ii_reaction completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.U_ii_reaction has 7 equation(s) and 7 variable(s). 5 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.ActivationReaction completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.ActivationReaction has 9 equation(s) and 9 variable(s). 6 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.MM_insulin completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.MM_insulin has 9 equation(s) and 9 variable(s). 6 of these are trivial equation(s). " "" "Check of BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.GlucoseUptakeReaction completed successfully. Class BioChem.Examples.GlucoseInsulinModel.Utilities.Reactions.GlucoseUptakeReaction has 9 equation(s) and 9 variable(s). 6 of these are trivial equation(s). " "" "Check of BioChem.Examples.MassAction.UniUni completed successfully. Class BioChem.Examples.MassAction.UniUni has 745 equation(s) and 745 variable(s). 572 of these are trivial equation(s). " "" "Check of BioChem.Examples.MassAction.UniBi completed successfully. Class BioChem.Examples.MassAction.UniBi has 945 equation(s) and 945 variable(s). 732 of these are trivial equation(s). " "" "Check of BioChem.Examples.MultiCompartments.GlucoseMetabolism completed successfully. Class BioChem.Examples.MultiCompartments.GlucoseMetabolism has 385 equation(s) and 385 variable(s). 267 of these are trivial equation(s). " "" "Check of BioChem.Examples.MultiCompartments.BigCompartmentReversible completed successfully. Class BioChem.Examples.MultiCompartments.BigCompartmentReversible has 26 equation(s) and 26 variable(s). 19 of these are trivial equation(s). " "" "Check of BioChem.Examples.MultiCompartments.BigCompartmentIrreversible completed successfully. Class BioChem.Examples.MultiCompartments.BigCompartmentIrreversible has 26 equation(s) and 26 variable(s). 19 of these are trivial equation(s). " "" "Check of BioChem.Examples.MultiCompartments.Utilities.TCA completed successfully. Class BioChem.Examples.MultiCompartments.Utilities.TCA has 206 equation(s) and 206 variable(s). 146 of these are trivial equation(s). " "" "Check of BioChem.Examples.MultiCompartments.Utilities.SmallCompartment completed successfully. Class BioChem.Examples.MultiCompartments.Utilities.SmallCompartment has 10 equation(s) and 10 variable(s). 8 of these are trivial equation(s). " "" Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/biochem/equations-expected 2011-09-24 04:09:13 +0200 +++ /tmp/omc-rtest-adrpo/biochem/equations-got 2011-09-24 04:09:24 +0200 @@ -382,12 +382,12 @@ cytoplasm.per2_cry_transcription.p1.r = (-cytoplasm.per2_cry_transcription.nP1) * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_mRNA_degradation.k1d * cytoplasm.per2_cry_mRNA_degradation.s1.c); cytoplasm.per2_cry_mRNA_degradation.s1.r = cytoplasm.per2_cry_mRNA_degradation.nS1 * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_mRNA_degradation.p1.r = (-cytoplasm.per2_cry_mRNA_degradation.nP1) * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_complex_formation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_complex_formation.k2b * cytoplasm.per2_cry_complex_formation.m1.c ^ cytoplasm.per2_cry_complex_formation.q); -cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.s1.r = cytoplasm.per2_cry_complex_formation.nS1 * cytoplasm.per2_cry_complex_formation.rr; +cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d * cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c); cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r = cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1 * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r = (-cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1) * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.per2_cry_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_nuclear_import.k2t * cytoplasm.per2_cry_nuclear_import.s1.c); @@ -398,23 +398,23 @@ cytoplasm.Bmal1_transcription.p1.r = (-cytoplasm.Bmal1_transcription.nP1) * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.Bmal1_mRNA_degradation.k4d * cytoplasm.Bmal1_mRNA_degradation.s1.c); cytoplasm.Bmal1_mRNA_degradation.s1.r = cytoplasm.Bmal1_mRNA_degradation.nS1 * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.Bmal1_mRNA_degradation.p1.r = (-cytoplasm.Bmal1_mRNA_degradation.nP1) * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.BMAL1_translation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_translation.k5b * cytoplasm.BMAL1_translation.m1.c); -cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.s1.r = cytoplasm.BMAL1_translation.nS1 * cytoplasm.BMAL1_translation.rr; +cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.cytoplasmic_BMAL1_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_BMAL1_degradation.k5d * cytoplasm.cytoplasmic_BMAL1_degradation.s1.c); cytoplasm.cytoplasmic_BMAL1_degradation.s1.r = cytoplasm.cytoplasmic_BMAL1_degradation.nS1 * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = (-cytoplasm.cytoplasmic_BMAL1_degradation.nP1) * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.BMAL1_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_nuclear_import.k5t * cytoplasm.BMAL1_nuclear_import.s1.c); cytoplasm.BMAL1_nuclear_import.s1.r = cytoplasm.BMAL1_nuclear_import.nS1 * cytoplasm.BMAL1_nuclear_import.rr; cytoplasm.BMAL1_nuclear_import.p1.r = (-cytoplasm.BMAL1_nuclear_import.nP1) * cytoplasm.BMAL1_nuclear_import.rr; der(cytoplasm.V) = 0.0; -y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); -trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); trans_per2_cry = (v1b * (nucleus.y7.c + c_sbml)) / (k1b * (1.0 + (nucleus.y3.c / k1i) ^ hill_coeff) + (nucleus.y7.c + c_sbml)); +trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); +y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); der(V) = 0.0; nucleus.y3.n1.r + (-nucleus.y3_node.r) + nucleus.per2_cry_nuclear_export.s1.r + nucleus.nuclear_per2_cry_complex_degradation.s1.r = 0.0; nucleus.y6.n1.r + (-nucleus.y6_node.r) + nucleus.BMAL1_nuclear_export.s1.r + nucleus.nuclear_BMAL1_degradation.s1.r + nucleus.BMAL1_activation.s1.r + nucleus.BMAL1_deactivation.p1.r = 0.0; nucleus.y7.n1.r + nucleus.BMAL1_activation.p1.r + nucleus.BMAL1_deactivation.s1.r + nucleus.Active_BMAL1_degradation.s1.r = 0.0; nucleus.y3_node.r + cytoplasm.y3_node.r = 0.0; @@ -509,18 +509,18 @@ cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_transcription.p1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.y4.n1.c; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_mRNA_degradation.s1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_transcription.p1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.y4.n1.V; -cytoplasm.y3_node.c = nucleus.y3_node.c; -cytoplasm.y3_node.V = nucleus.y3_node.V; -cytoplasm.y2_node.c = nucleus.y2_node.c; -cytoplasm.y2_node.V = nucleus.y2_node.V; -cytoplasm.y6_node.c = nucleus.y6_node.c; -cytoplasm.y6_node.V = nucleus.y6_node.V; cytoplasm.y5_node.c = nucleus.y5_node.c; cytoplasm.y5_node.V = nucleus.y5_node.V; +cytoplasm.y6_node.c = nucleus.y6_node.c; +cytoplasm.y6_node.V = nucleus.y6_node.V; +cytoplasm.y2_node.c = nucleus.y2_node.c; +cytoplasm.y2_node.V = nucleus.y2_node.V; +cytoplasm.y3_node.c = nucleus.y3_node.c; +cytoplasm.y3_node.V = nucleus.y3_node.V; end BioChem_Examples_CircadianOscillator_Container; " "" "Check of BioChem_Examples_CircadianOscillator_Container completed successfully. @@ -929,11 +929,11 @@ parameter Real iv2 = 0.0999758; parameter Real iv3 = 0.07427; parameter Real iv4 = 0.148871; parameter Real iv5 = 4.34299; parameter Real iv6 = 0.00406177; -parameter Real iv7 = 1.72073e-05; +parameter Real iv7 = 1.72073e-005; parameter Real iv8 = 0.0695775; parameter Real iv9 = 28.2621; parameter Real iv10 = 0.000398124; parameter Real iv11 = 0.650608; parameter Real nv19 = 1.0; @@ -1034,26 +1034,26 @@ cytosol.vpfk.rr = (cytosol.vpfk.KcatPFK * cytosol.vpfk.s1.c ^ cytosol.vpfk.n_sbml) / (cytosol.vpfk.KmF6P + cytosol.vpfk.s1.c ^ cytosol.vpfk.n_sbml); cytosol.vpfk.s1.r = cytosol.vpfk.nS1 * cytosol.vpfk.rr; cytosol.vpfk.p1.r = (-cytosol.vpfk.nP1) * cytosol.vpfk.rr; cytosol.vpfk.p2.r = (-cytosol.vpfk.nP2) * cytosol.vpfk.rr; cytosol.vldh.rr = (cytosol.vldh.e0 * ((cytosol.vldh.s2.c * (cytosol.vldh.s1.c * cytosol.vldh.kf)) / (cytosol.vldh.kia * cytosol.vldh.kmb) + ((-cytosol.vldh.kr) * (cytosol.vldh.p1.c * cytosol.vldh.m1.c)) / (cytosol.vldh.kiq * cytosol.vldh.kmp))) / (cytosol.vldh.s2.c / cytosol.vldh.kia + ((cytosol.vldh.s2.c * cytosol.vldh.s1.c) / (cytosol.vldh.kia * cytosol.vldh.kmb) + ((cytosol.vldh.s2.c * (cytosol.vldh.s1.c * cytosol.vldh.p1.c)) / (cytosol.vldh.kmb * cytosol.vldh.kip * cytosol.vldh.kia) + ((cytosol.vldh.s2.c * (cytosol.vldh.kmq * cytosol.vldh.p1.c)) / (cytosol.vldh.kia * cytosol.vldh.kiq * cytosol.vldh.kmp) + ((1.0 + cytosol.vldh.s1.c / cytosol.vldh.k1ib) * (1.0 + ((cytosol.vldh.s1.c * cytosol.vldh.kma) / (cytosol.vldh.kia * cytosol.vldh.kmb) + (cytosol.vldh.kmq * cytosol.vldh.p1.c) / (cytosol.vldh.kmp * cytosol.vldh.kiq))) + (cytosol.vldh.m1.c / cytosol.vldh.kiq + ((cytosol.vldh.s1.c * (cytosol.vldh.kma * cytosol.vldh.m1.c)) / (cytosol.vldh.kmb * cytosol.vldh.kiq * cytosol.vldh.kia) + ((cytosol.vldh.p1.c * cytosol.vldh.m1.c) / (cytosol.vldh.kiq * cytosol.vldh.kmp) + (cytosol.vldh.s1.c * (cytosol.vldh.p1.c * cytosol.vldh.m1.c)) / (cytosol.vldh.kmp * cytosol.vldh.kiq * cytosol.vldh.kib))))))))); -cytosol.vldh.p1.r = (-cytosol.vldh.nP1) * cytosol.vldh.rr; -cytosol.vldh.s2.r = cytosol.vldh.nS2 * cytosol.vldh.rr; cytosol.vldh.s1.r = cytosol.vldh.nS1 * cytosol.vldh.rr; +cytosol.vldh.s2.r = cytosol.vldh.nS2 * cytosol.vldh.rr; +cytosol.vldh.p1.r = (-cytosol.vldh.nP1) * cytosol.vldh.rr; cytosol.vldh.m1.r = 0.0; cytosol.vpdh.rr = (cytosol.vpdh.KcatPDH * (cytosol.vpdh.s1.c * cytosol.vpdh.m1.c)) / ((0.1 + cytosol.vpdh.m1.c) * (cytosol.vpdh.s1.c + cytosol.vpdh.KmPYR)); -cytosol.vpdh.p1.r = (-cytosol.vpdh.nP1) * cytosol.vpdh.rr; -cytosol.vpdh.s2.r = cytosol.vpdh.nS2 * cytosol.vpdh.rr; cytosol.vpdh.s1.r = cytosol.vpdh.nS1 * cytosol.vpdh.rr; +cytosol.vpdh.s2.r = cytosol.vpdh.nS2 * cytosol.vpdh.rr; +cytosol.vpdh.p1.r = (-cytosol.vpdh.nP1) * cytosol.vpdh.rr; cytosol.vpdh.m1.r = 0.0; cytosol.jak.rr = (cytosol.jak.KcatAK * (cytosol.jak.m1.c * cytosol.jak.s1.c - cytosol.jak.p1.c ^ 2.0)) / (1.0 + (cytosol.jak.s1.c / 0.1 + (cytosol.jak.p1.c / 0.1 + (cytosol.jak.m1.c * (10.0 + cytosol.jak.s1.c / 0.01) + cytosol.jak.p1.c * (10.0 + (cytosol.jak.p1.c / 0.01 + cytosol.jak.s1.c / 3.49)))))); -cytosol.jak.p1.r = (-cytosol.jak.nP1) * cytosol.jak.rr; cytosol.jak.s1.r = cytosol.jak.nS1 * cytosol.jak.rr; +cytosol.jak.p1.r = (-cytosol.jak.nP1) * cytosol.jak.rr; cytosol.jak.m1.r = 0.0; cytosol.vgph.rr = (cytosol.vgph.KcatGPH * (cytosol.vgph.m[3].c * (0.002 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)))) / (((0.08 + 8.0 * (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)) / (0.002 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp)) + cytosol.vgph.m[3].c) * (0.014 + (cytosol.vgph.m[2].c + cytosol.vgph.m[1].c / cytosol.vgph.bamp))); -cytosol.vgph.p1.r = (-cytosol.vgph.nP1) * cytosol.vgph.rr; cytosol.vgph.s1.r = cytosol.vgph.nS1 * cytosol.vgph.rr; +cytosol.vgph.p1.r = (-cytosol.vgph.nP1) * cytosol.vgph.rr; cytosol.vgph.m[1].r = 0.0; cytosol.vgph.m[2].r = 0.0; cytosol.vgph.m[3].r = 0.0; cytosol.jatpase.rr = (cytosol.jatpase.KcatATPase * cytosol.jatpase.s1.c) / (0.05 + cytosol.jatpase.s1.c); cytosol.jatpase.s1.r = cytosol.jatpase.nS1 * cytosol.jatpase.rr; @@ -1096,14 +1096,14 @@ cytosol.G3P.rNet = cytosol.G3P.n1.r; cytosol.G3P.c = cytosol.G3P.n1.c; cytosol.V = cytosol.G3P.n1.V; cytosol.G3P.c = cytosol.G3P.n / cytosol.V; cytosol.vgpdh_1.rr = (cytosol.vgpdh_1.KcatGPDH * (cytosol.vgpdh_1.s2.c * (cytosol.vgpdh_1.s1.c * cytosol.vgpdh_1.m1.c))) / ((cytosol.vgpdh_1.m1.c + cytosol.vgpdh_1.KmPN) * (cytosol.vgpdh_1.s1.c + cytosol.vgpdh_1.KmADP) * (cytosol.vgpdh_1.KmGPDH + cytosol.vgpdh_1.s2.c)); -cytosol.vgpdh_1.p2.r = (-cytosol.vgpdh_1.nP2) * cytosol.vgpdh_1.rr; -cytosol.vgpdh_1.p1.r = (-cytosol.vgpdh_1.nP1) * cytosol.vgpdh_1.rr; -cytosol.vgpdh_1.s2.r = cytosol.vgpdh_1.nS2 * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.s1.r = cytosol.vgpdh_1.nS1 * cytosol.vgpdh_1.rr; +cytosol.vgpdh_1.s2.r = cytosol.vgpdh_1.nS2 * cytosol.vgpdh_1.rr; +cytosol.vgpdh_1.p1.r = (-cytosol.vgpdh_1.nP1) * cytosol.vgpdh_1.rr; +cytosol.vgpdh_1.p2.r = (-cytosol.vgpdh_1.nP2) * cytosol.vgpdh_1.rr; cytosol.vgpdh_1.m1.r = 0.0; cytosol.vT3P.p1.c = (cytosol.vT3P.s1.c * cytosol.vT3P.kP1) / cytosol.vT3P.kS1; cytosol.vT3P.s1.r + cytosol.vT3P.p1.r = 0.0; der(cytosol.V) = 0.0; vef.rr = (vef.VmaxEF * vef.s1.c) / (vef.KmLAC + vef.s1.c); @@ -1112,19 +1112,19 @@ der(LACext.n) = LACext.rNet; LACext.rNet = LACext.n1.r; LACext.c = LACext.n1.c; V = LACext.n1.V; LACext.c = LACext.n / V; -cr = tcr - cytosol.CP.c; -nad = 0.7 - cytosol.NADH.c; -bamp = (k2amp * kamp) / (kamp + cytosol.AMP.c); -pn = (PNt + (-3.0 * atpt + (-2.0 * adpt + (-2.0 * cytosol.CP.c + ((-2.0 * cytosol.FDP.c + ((-cytosol.G3P.c) - cytosol.DHAP.c) - cytosol.F6P.c - cytosol.G6P.c) * cytosol.V - ampt - cytosol.IMP.c))))) / cytosol.V; -atp = atpt / cytosol.V; -ampt = cytosol.AMP.c * bamp; -atpt = tan + ((-ampt) - cytosol.IMP.c - adpt); -adpt = cytosol.ADP.c * badp; badp = (k2adp * kadp) / (kadp + cytosol.ADP.c); +adpt = cytosol.ADP.c * badp; +atpt = tan + ((-ampt) - cytosol.IMP.c - adpt); +ampt = cytosol.AMP.c * bamp; +atp = atpt / cytosol.V; +pn = (PNt + (-3.0 * atpt + (-2.0 * adpt + (-2.0 * cytosol.CP.c + ((-2.0 * cytosol.FDP.c + ((-cytosol.G3P.c) - cytosol.DHAP.c) - cytosol.F6P.c - cytosol.G6P.c) * cytosol.V - ampt - cytosol.IMP.c))))) / cytosol.V; +bamp = (k2amp * kamp) / (kamp + cytosol.AMP.c); +nad = 0.7 - cytosol.NADH.c; +cr = tcr - cytosol.CP.c; der(V) = 0.0; cytosol.NADH.n1.r + cytosol.vldh.s2.r + cytosol.mitochondria.node_NADH.r + cytosol.vgpdh_1.p1.r = 0.0; cytosol.FDP.n1.r + cytosol.vpfk.p1.r + cytosol.vald.s1.r = 0.0; cytosol.PYR.n1.r + cytosol.vldh.s1.r + cytosol.vpdh.s1.r + cytosol.vgpdh_1.p2.r = 0.0; cytosol.ADP.n1.r + cytosol.vpfk.p2.r + cytosol.vpdh.s2.r + cytosol.jak.p1.r + cytosol.jatpase.p1.r + cytosol.jck.p1.r + cytosol.mitochondria.node_ADP.r + cytosol.vgpdh_1.s1.r = 0.0; @@ -1245,27 +1245,103 @@ cytosol.LAC.n1.V = cytosol.node_LAC.V; cytosol.LAC.n1.V = cytosol.vldh.p1.V; cytosol.GLY.n1.c = cytosol.vgph.s1.c; cytosol.GLY.n1.V = cytosol.vgph.s1.V; vef.p1.r + LACext.n1.r = 0.0; -cytosol.node_LAC.c = vef.s1.c; -cytosol.node_LAC.V = vef.s1.V; LACext.n1.c = vef.p1.c; LACext.n1.V = vef.p1.V; +cytosol.node_LAC.c = vef.s1.c; +cytosol.node_LAC.V = vef.s1.V; end BioChem_Examples_centralMetabolism_extra_cellular; " "[extra_cellularTotal.mo:1354:9-1354:231:writable] Warning: Component cytosol has the same name as its type .BioChem.Examples.centralMetabolism.cytosol. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. +This is forbidden by Modelica specification and may lead to lookup errors. +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant " "Check of BioChem_Examples_centralMetabolism_extra_cellular completed successfully. [extra_cellularTotal.mo:1354:9-1354:231:writable] Warning: Component cytosol has the same name as its type .BioChem.Examples.centralMetabolism.cytosol. This is forbidden by Modelica specification and may lead to lookup errors. [extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1235:9-1235:184:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. +This is forbidden by Modelica specification and may lead to lookup errors. +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1226:9-1226:184:writable] Error: Variable cytosol.jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1227:9-1227:185:writable] Error: Variable cytosol.vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1229:9-1229:185:writable] Error: Variable cytosol.vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1230:9-1230:192:writable] Error: Variable cytosol.jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1232:9-1232:195:writable] Error: Variable cytosol.jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1233:9-1233:183:writable] Error: Variable cytosol.jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1451:9-1451:184:writable] Error: Variable cytosol.mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[extra_cellularTotal.mo:1253:9-1253:181:writable] Error: Variable cytosol.vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant Class BioChem_Examples_centralMetabolism_extra_cellular has 353 equation(s) and 353 variable(s). 246 of these are trivial equation(s). " "" @@ -1654,12 +1730,12 @@ cytoplasm.per2_cry_transcription.p1.r = (-cytoplasm.per2_cry_transcription.nP1) * cytoplasm.per2_cry_transcription.rr; cytoplasm.per2_cry_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_mRNA_degradation.k1d * cytoplasm.per2_cry_mRNA_degradation.s1.c); cytoplasm.per2_cry_mRNA_degradation.s1.r = cytoplasm.per2_cry_mRNA_degradation.nS1 * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_mRNA_degradation.p1.r = (-cytoplasm.per2_cry_mRNA_degradation.nP1) * cytoplasm.per2_cry_mRNA_degradation.rr; cytoplasm.per2_cry_complex_formation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_complex_formation.k2b * cytoplasm.per2_cry_complex_formation.m1.c ^ cytoplasm.per2_cry_complex_formation.q); -cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.s1.r = cytoplasm.per2_cry_complex_formation.nS1 * cytoplasm.per2_cry_complex_formation.rr; +cytoplasm.per2_cry_complex_formation.p1.r = (-cytoplasm.per2_cry_complex_formation.nP1) * cytoplasm.per2_cry_complex_formation.rr; cytoplasm.per2_cry_complex_formation.m1.r = 0.0; cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_per2_cry_complex_degradation.k2d * cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.c); cytoplasm.cytoplasmic_per2_cry_complex_degradation.s1.r = cytoplasm.cytoplasmic_per2_cry_complex_degradation.nS1 * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.cytoplasmic_per2_cry_complex_degradation.p1.r = (-cytoplasm.cytoplasmic_per2_cry_complex_degradation.nP1) * cytoplasm.cytoplasmic_per2_cry_complex_degradation.rr; cytoplasm.per2_cry_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.per2_cry_nuclear_import.k2t * cytoplasm.per2_cry_nuclear_import.s1.c); @@ -1670,23 +1746,23 @@ cytoplasm.Bmal1_transcription.p1.r = (-cytoplasm.Bmal1_transcription.nP1) * cytoplasm.Bmal1_transcription.rr; cytoplasm.Bmal1_mRNA_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.Bmal1_mRNA_degradation.k4d * cytoplasm.Bmal1_mRNA_degradation.s1.c); cytoplasm.Bmal1_mRNA_degradation.s1.r = cytoplasm.Bmal1_mRNA_degradation.nS1 * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.Bmal1_mRNA_degradation.p1.r = (-cytoplasm.Bmal1_mRNA_degradation.nP1) * cytoplasm.Bmal1_mRNA_degradation.rr; cytoplasm.BMAL1_translation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_translation.k5b * cytoplasm.BMAL1_translation.m1.c); -cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.s1.r = cytoplasm.BMAL1_translation.nS1 * cytoplasm.BMAL1_translation.rr; +cytoplasm.BMAL1_translation.p1.r = (-cytoplasm.BMAL1_translation.nP1) * cytoplasm.BMAL1_translation.rr; cytoplasm.BMAL1_translation.m1.r = 0.0; cytoplasm.cytoplasmic_BMAL1_degradation.rr = cytoplasm.Cytoplasm_V * (cytoplasm.cytoplasmic_BMAL1_degradation.k5d * cytoplasm.cytoplasmic_BMAL1_degradation.s1.c); cytoplasm.cytoplasmic_BMAL1_degradation.s1.r = cytoplasm.cytoplasmic_BMAL1_degradation.nS1 * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.cytoplasmic_BMAL1_degradation.p1.r = (-cytoplasm.cytoplasmic_BMAL1_degradation.nP1) * cytoplasm.cytoplasmic_BMAL1_degradation.rr; cytoplasm.BMAL1_nuclear_import.rr = cytoplasm.Cytoplasm_V * (cytoplasm.BMAL1_nuclear_import.k5t * cytoplasm.BMAL1_nuclear_import.s1.c); cytoplasm.BMAL1_nuclear_import.s1.r = cytoplasm.BMAL1_nuclear_import.nS1 * cytoplasm.BMAL1_nuclear_import.rr; cytoplasm.BMAL1_nuclear_import.p1.r = (-cytoplasm.BMAL1_nuclear_import.nP1) * cytoplasm.BMAL1_nuclear_import.rr; der(cytoplasm.V) = 0.0; -y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); -trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); trans_per2_cry = (v1b * (nucleus.y7.c + c_sbml)) / (k1b * (1.0 + (nucleus.y3.c / k1i) ^ hill_coeff) + (nucleus.y7.c + c_sbml)); +trans_Bmal1 = (v4b * nucleus.y3.c ^ r_sbml) / (k4b ^ r_sbml + nucleus.y3.c ^ r_sbml); +y5_y6_y7 = cytoplasm.y5.c + (nucleus.y6.c + nucleus.y7.c); der(V) = 0.0; nucleus.y3.n1.r + (-nucleus.y3_node.r) + nucleus.per2_cry_nuclear_export.s1.r + nucleus.nuclear_per2_cry_complex_degradation.s1.r = 0.0; nucleus.y6.n1.r + (-nucleus.y6_node.r) + nucleus.BMAL1_nuclear_export.s1.r + nucleus.nuclear_BMAL1_degradation.s1.r + nucleus.BMAL1_activation.s1.r + nucleus.BMAL1_deactivation.p1.r = 0.0; nucleus.y7.n1.r + nucleus.BMAL1_activation.p1.r + nucleus.BMAL1_deactivation.s1.r + nucleus.Active_BMAL1_degradation.s1.r = 0.0; nucleus.y3_node.r + cytoplasm.y3_node.r = 0.0; @@ -1781,18 +1857,18 @@ cytoplasm.BMAL1_translation.m1.c = cytoplasm.Bmal1_transcription.p1.c; cytoplasm.BMAL1_translation.m1.c = cytoplasm.y4.n1.c; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_mRNA_degradation.s1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.Bmal1_transcription.p1.V; cytoplasm.BMAL1_translation.m1.V = cytoplasm.y4.n1.V; -cytoplasm.y3_node.c = nucleus.y3_node.c; -cytoplasm.y3_node.V = nucleus.y3_node.V; -cytoplasm.y2_node.c = nucleus.y2_node.c; -cytoplasm.y2_node.V = nucleus.y2_node.V; -cytoplasm.y6_node.c = nucleus.y6_node.c; -cytoplasm.y6_node.V = nucleus.y6_node.V; cytoplasm.y5_node.c = nucleus.y5_node.c; cytoplasm.y5_node.V = nucleus.y5_node.V; +cytoplasm.y6_node.c = nucleus.y6_node.c; +cytoplasm.y6_node.V = nucleus.y6_node.V; +cytoplasm.y2_node.c = nucleus.y2_node.c; +cytoplasm.y2_node.V = nucleus.y2_node.V; +cytoplasm.y3_node.c = nucleus.y3_node.c; +cytoplasm.y3_node.V = nucleus.y3_node.V; end BioChem_Examples_CircadianOscillator_Container; " "" "Check of BioChem_Examples_CircadianOscillator_Container completed successfully. @@ -1897,14 +1973,14 @@ V = Ca_Cyt.n1.V; Ca_Cyt.c = Ca_Cyt.n / V; Jpump.rr = (Jpump.Fpump_0 * Jpump.s1.c) / (Jpump.Kpump + Jpump.s1.c); Jpump.s1.r = Jpump.nS1 * Jpump.rr; Jpump.p1.r = (-Jpump.nP1) * Jpump.rr; -der(p3_sbml) = (-k31) * (Ca_Cyt.c * p3_sbml) + k31 * (K3 * (1.0 - p3_sbml)); -p2_sbml = Ca_Cyt.c / (K2 + Ca_Cyt.c); -p1_sbml = p11 + (p12 * n_sbml) / (K1 + n_sbml); n_sbml = n0 * (exp((-kbN) * time) + kappa * (1.0 - exp((-kbN) * time))); +p1_sbml = p11 + (p12 * n_sbml) / (K1 + n_sbml); +p2_sbml = Ca_Cyt.c / (K2 + Ca_Cyt.c); +der(p3_sbml) = (-k31) * (Ca_Cyt.c * p3_sbml) + k31 * (K3 * (1.0 - p3_sbml)); der(V) = 0.0; Endoplasmic_Reticulum.CaER.n1.r + Endoplasmic_Reticulum.Jch.s1.r + Endoplasmic_Reticulum.Jleak.s1.r + (-Endoplasmic_Reticulum.CaER_node.r) = 0.0; Endoplasmic_Reticulum.Ca_Cyt_node.r + Ca_Cyt.n1.r + Jpump.s1.r = 0.0; (-Endoplasmic_Reticulum.Ca_Cyt_node.r) + Endoplasmic_Reticulum.Jch.p1.r + Endoplasmic_Reticulum.Jleak.p1.r = 0.0; Endoplasmic_Reticulum.CaER_node.r + Jpump.p1.r = 0.0; @@ -1975,10 +2051,28 @@ " "Check of BioChem.Examples.centralMetabolism.cytosol completed successfully. [package.mo:798:7-798:182:writable] Warning: Component mitochondria has the same name as its type centralMetabolism.mitochondria. This is forbidden by Modelica specification and may lead to lookup errors. +[package.mo:789:7-789:182:writable] Error: Variable jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:789:7-789:182:writable] Error: Variable jda: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:789:7-789:182:writable] Error: Variable jda: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:790:7-790:183:writable] Error: Variable vpfk: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:790:7-790:183:writable] Error: Variable vpfk: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:792:7-792:183:writable] Error: Variable vpdh: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:792:7-792:183:writable] Error: Variable vpdh: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:793:7-793:190:writable] Error: Variable jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:793:7-793:190:writable] Error: Variable jak: Variable bamp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:793:7-793:190:writable] Error: Variable jak: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:793:7-793:190:writable] Error: Variable jak: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:795:7-795:193:writable] Error: Variable jatpase: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:795:7-795:193:writable] Error: Variable jatpase: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:796:7-796:181:writable] Error: Variable jck: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:796:7-796:181:writable] Error: Variable jck: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:1014:7-1014:182:writable] Error: Variable mitochondria.jox: Variable badp in package BioChem.Examples.centralMetabolism.mitochondria is not constant +[package.mo:816:7-816:179:writable] Error: Variable vgpdh_1: Variable cytosol_V in package BioChem.Examples.centralMetabolism.cytosol is not constant +[package.mo:816:7-816:179:writable] Error: Variable vgpdh_1: Variable badp in package BioChem.Examples.centralMetabolism.cytosol is not constant Class BioChem.Examples.centralMetabolism.cytosol has 320 equation(s) and 320 variable(s). 213 of these are trivial equation(s). " "" Equation mismatch: omc-diff says: Line 387: Text differs: expected: _cry_complex_formation.p got: _cry_complex_formation.s == 1 out of 6 tests failed [biochem, time: 19] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/biochem' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/bootstrapping' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + DumpTest ... ok [time:60] + GraphTest ... ok [time:3] + HashTable Unit Testing ... ok [time:28] + MainTest ... ok [time:76] + SimCodeTest ... equation mismatch [time:58] ==== Log /tmp/omc-rtest-adrpo/bootstrapping/log-SimCodeTest.mos {true,true} true Loaded all files without error "true " "" true "" "" "1: #ifndef SimCodeC_abc__H 2: #define SimCodeC_abc__H 3: #include \"modelica.h\" 4: #include 5: #include 6: #include 7: #ifdef __cplusplus 8: extern \"C\" { 9: #endif 10: 11: 12: void _SimCodeC_abc(); 13: 14: #ifdef __cplusplus 15: } 16: #endif 17: #endif 18: " "1: #include \"SimCodeC_abc.h\" 2: #define MODELICA_ASSERT(info,msg) { printInfo(stderr,info); fprintf(stderr,\"Modelica Assert: %s!\\n\", msg); } 3: #define MODELICA_TERMINATE(msg) { fprintf(stderr,\"Modelica Terminate: %s!\\n\", msg); fflush(stderr); } 4: 5: 6: void _SimCodeC_abc() 7: { 8: 9: /* functionBodyRegularFunction: GC: save roots mark when you enter the function */ 10: /* functionBodyRegularFunction: GC: adding inputs as roots! */ 11: 12: /* functionBodyRegularFunction: GC: do garbage collection */ 13: 14: /* functionBodyRegularFunction: arguments */ 15: /* functionBodyRegularFunction: locals */ 16: state tmp1; 17: _tailrecursive: 18: /* functionBodyRegularFunction: out inits */ 19: 20: /* functionBodyRegularFunction: state in */ 21: tmp1 = get_memory_state(); 22: 23: /* functionBodyRegularFunction: var inits */ 24: /* functionBodyRegularFunction: body */ 25: 26: _return: 27: /* functionBodyRegularFunction: out var copy */ 28: /* functionBodyRegularFunction: state out */ 29: restore_memory_state(tmp1); 30: /* functionBodyRegularFunction: out var assign */ 31: 32: /* GC: pop the mark! */ 33: 34: /* functionBodyRegularFunction: return the outs */ 35: return ; 36: } 37: 38: int in_SimCodeC_abc(type_description * inArgs, type_description * outVar) 39: { 40: MMC_TRY_TOP() 41: _SimCodeC_abc(); 42: MMC_CATCH_TOP(return 1) 43: write_noretcall(outVar); 44: fflush(NULL); 45: 46: return 0; 47: } 48: " Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/bootstrapping/equations-expected 2011-09-24 03:43:34 +0200 +++ /tmp/omc-rtest-adrpo/bootstrapping/equations-got 2011-09-24 03:44:32 +0200 @@ -15,55 +15,64 @@ 5: #include 6: #include 7: #ifdef __cplusplus 8: extern \"C\" { 9: #endif -10: void _SimCodeC_abc(); -11: #ifdef __cplusplus -12: } -13: #endif -14: #endif +10: +11: +12: void _SimCodeC_abc(); +13: +14: #ifdef __cplusplus +15: } +16: #endif +17: #endif +18: " "1: #include \"SimCodeC_abc.h\" 2: #define MODELICA_ASSERT(info,msg) { printInfo(stderr,info); fprintf(stderr,\"Modelica Assert: %s!\\n\", msg); } 3: #define MODELICA_TERMINATE(msg) { fprintf(stderr,\"Modelica Terminate: %s!\\n\", msg); fflush(stderr); } -4: void _SimCodeC_abc() -5: { -6: /* functionBodyRegularFunction: GC: save roots mark when you enter the function */ -7: /* functionBodyRegularFunction: GC: adding inputs as roots! */ +4: +5: +6: void _SimCodeC_abc() +7: { 8: -9: /* functionBodyRegularFunction: GC: do garbage collection */ -10: -11: /* functionBodyRegularFunction: arguments */ -12: /* functionBodyRegularFunction: locals */ -13: state tmp1; -14: _tailrecursive: -15: /* functionBodyRegularFunction: out inits */ -16: -17: /* functionBodyRegularFunction: state in */ -18: tmp1 = get_memory_state(); +9: /* functionBodyRegularFunction: GC: save roots mark when you enter the function */ +10: /* functionBodyRegularFunction: GC: adding inputs as roots! */ +11: +12: /* functionBodyRegularFunction: GC: do garbage collection */ +13: +14: /* functionBodyRegularFunction: arguments */ +15: /* functionBodyRegularFunction: locals */ +16: state tmp1; +17: _tailrecursive: +18: /* functionBodyRegularFunction: out inits */ 19: -20: /* functionBodyRegularFunction: var inits */ -21: /* functionBodyRegularFunction: body */ +20: /* functionBodyRegularFunction: state in */ +21: tmp1 = get_memory_state(); 22: -23: _return: -24: /* functionBodyRegularFunction: out var copy */ -25: /* functionBodyRegularFunction: state out */ -26: restore_memory_state(tmp1); -27: /* functionBodyRegularFunction: out var assign */ -28: -29: /* GC: pop the mark! */ -30: -31: /* functionBodyRegularFunction: return the outs */ -32: return ; -33: } -34: int in_SimCodeC_abc(type_description * inArgs, type_description * outVar) -35: { -36: MMC_TRY_TOP() -37: _SimCodeC_abc(); -38: MMC_CATCH_TOP(return 1) -39: write_noretcall(outVar); -40: fflush(NULL); -41: -42: return 0; -43: } +23: /* functionBodyRegularFunction: var inits */ +24: /* functionBodyRegularFunction: body */ +25: +26: _return: +27: /* functionBodyRegularFunction: out var copy */ +28: /* functionBodyRegularFunction: state out */ +29: restore_memory_state(tmp1); +30: /* functionBodyRegularFunction: out var assign */ +31: +32: /* GC: pop the mark! */ +33: +34: /* functionBodyRegularFunction: return the outs */ +35: return ; +36: } +37: +38: int in_SimCodeC_abc(type_description * inArgs, type_description * outVar) +39: { +40: MMC_TRY_TOP() +41: _SimCodeC_abc(); +42: MMC_CATCH_TOP(return 1) +43: write_noretcall(outVar); +44: fflush(NULL); +45: +46: return 0; +47: } +48: " Equation mismatch: omc-diff says: Line 20: Text differs: expected: : void _SimCodeC_abc(); got: : + SimplifyTest ... ok [time:36] + SusanTest ... ok [time:14] + System ... ok [time:17] + UtilTest ... ok [time:19] == 1 out of 9 tests failed [bootstrapping, time: 311] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/bootstrapping' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/dependency' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + DependencyChecking.mos ... ok [time:1] + Dependency + check Modelica.Mechanics.MultiBody [version 3.1] ... ok [time:8] == 0 out of 2 tests failed [dependency, time: 9] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/dependency' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles/drmodelica' Running tests: + ABCDsystem ... ok [time:0] - AccessDemo Illegal Mod ... ok [time:0] + AccessDemo Legal Mod ... ok [time:0] + ActivateWhenEquation ... ok [time:0] + AlgorithmCondAssign ... ok [time:1] + AlgorithmCondAssign ... ok [time:0] + AlgorithmSection ... ok [time:0] + ArrayAddSub1 ... ok [time:0] - ArrayAddSub ... ok [time:0] + ArrayConstruct1 ... ok [time:0] + ArrayDim1 ... ok [time:0] + ArrayDim2 ... ok [time:0] + ArrayDim3 ... ok [time:1] + ArrayDim4 ... ok [time:0] - ArrayDivError ... ok [time:0] - ArrayDiv ... ok [time:0] + ArrayExponentiation ... ok [time:0] + ArrayFieldSlice ... ok [time:0] + ArrayIndex ... ok [time:0] + ArrayMult ... ok [time:0] + ArrayReduce ... ok [time:0] - ArraysInitIllegal ... ok [time:1] + ArraysInitLegal ... ok [time:0] + AssertTest ... ok [time:0] + AssertTest1 ... ok [time:0] + AssertTest2 ... ok [time:0] - BlockMatrix ... ok [time:0] - BlockMatrix2 ... ok [time:0] - BlockMatrix3 ... ok [time:0] + BouncingBall ... ok [time:1] + Colered Point Legal Mod ... ok [time:0] + Colors ... ok [time:0] + ComplexNumbers ... ok [time:0] + Concat3 ... ok [time:0] + ConstructFunc ... ok [time:0] + DAEexample ... ok [time:0] + DiscreteVectorStateSpace ... ok [time:0] + DoubleWhenSequential ... ok [time:0] + ElementWiseMultiplication.mo ... ok [time:0] + Epidemics1 ... ok [time:0] + EqualityEquationsCorrect ... ok [time:0] + EquationCall ... ok [time:0] + Equations ... ok [time:0] + FilterBlock1 ... ok [time:0] + FiveForEquations ... ok [time:0] + FlatTank ... ok [time:0] + ForLoopHideVariable ... ok [time:1] + FuncDer ... ok [time:0] + FuncMultResults ... ok [time:0] + HeatTankExpanded ... ok [time:0] + HeatTank ... ok [time:0] + HelloWorld ... ok [time:0] + HideVariableForEquations ... ok [time:0] + HydrogenIodide ... ok [time:0] + IfEquation ... ok [time:1] + joinThreeVectors2 ... ok [time:0] + LeastSquares ... ok [time:0] + LogCall1 ... ok [time:0] + LotkaVolterra ... ok [time:0] - MicroCircuitInvalid ... ok [time:0] + ModifiedFiltersInSeries ... ok [time:0] + MoonLanding ... ok [time:0] + MultipleResultsFunction ... ok [time:0] + MultFuncCall ... ok [time:0] + OneArgBaseFunction ... ok [time:0] - PointSum ... ok [time:0] + PolynomialEvaluator1 ... ok [time:0] + PolynomialEvaluator2 ... ok [time:0] + PolynomialEvaluator ... ok [time:0] + PolynomialEvaluatorA ... ok [time:0] + PolynomialEvaluatorB ... ok [time:0] + RangeVector ... ok [time:1] - RefinedSimpleCircuitInvalid ... ok [time:0] + RefinedSimpleCircuitValid ... ok [time:0] + RefinedSimpleCircuitValid2 ... ok [time:0] + SimplePeriodicSampler ... ok [time:0] + StepAdvanced ... ok [time:0] + SumForLoop ... ok [time:0] + Summation ... ok [time:0] + SumSeriesWhile ... ok [time:0] + SumVectorForIf ... ok [time:0] + TankHybridPID ... ok [time:0] + TankHybridPI ... ok [time:0] + Tank ... ok [time:0] + TankPID ... ok [time:0] + TankPI ... ok [time:0] + TanksConnectedPI ... ok [time:0] + TempDepResistorCircuitInherited ... ok [time:0] + TempDepResistorCircuit ... ok [time:0] + TwoRateSampler ... ok [time:0] + VanDerPol ... ok [time:0] + WatchDog1AlgorithmWhen ... ok [time:0] + WatchDog2EquationWhen ... ok [time:0] + VectorizeOneReturnValue ... ok [time:0] - VectorizeSeveralArguments ... ok [time:0] + WhenEquation ... ok [time:0] - WhenNotValid ... ok [time:0] + WhenPriority ... ok [time:0] + WhenStatement1 ... ok [time:0] + WhenStatement2 ... ok [time:0] + WhenStatement3 ... ok [time:0] + WhenValidResult ... ok [time:0] + WhenVectorPredicateEquation ... ok [time:0] == 0 out of 103 tests failed [drmodelica, time: 12] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles/drmodelica' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/expandable' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + ExpandableConnectors ... ok [time:10] == 0 out of 1 tests failed [expandable, time: 10] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/expandable' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/fmi' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + BouncingBall ... ok [time:3] == 0 out of 1 tests failed [fmi, time: 3] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/fmi' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/initialization' Running tests... + forest ... ok [time:4] == 0 out of 1 tests failed [initialization, time: 4] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/initialization' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/interactive-simulation' Running tests... OPENMODELICAHOME = C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Interactive Simulation Compilation Testing ... ok [time:5] == 0 out of 1 tests failed [interactive-simulation, time: 5] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/interactive-simulation' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/interactive' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + DefaultComponentName ... ok [time:0] + DeleteConnection ... ok [time:0] + Differentiate ... ok [time:0] + For-statement 1 ... ok [time:4] + For-statement 2 ... ok [time:0] + For-statement 3 ... ok [time:1] + For-statement 4 ... ok [time:0] - For-statement fail 5 ... ok [time:0] + For-statement 6 ... ok [time:0] + For-statement 7 ... ok [time:0] + If-statement ... ok [time:0] - If-statement Illegal ... ok [time:1] + API-Parameters ... ok [time:0] + API Classes ... ok [time:0] + API loading and saving ... ok [time:0] + API-attributes ... ok [time:1] + API-Interactive Calls ... ok [time:0] + Test Interactive API for Annotations for MSL 3.1 ... ok [time:8] + Test Interactive API for Simulations ... ok [time:11] + Graphical-API ... ok [time:0] + API Class/Elements query ... ok [time:0] + Matrices ... ok [time:0] + refactorGraphAnn1 ... ok [time:0] + refactorGraphAnn2 ... ok [time:2] + Regular Expression Scripting ... ok [time:0] + Rename ... equation mismatch [time:11] ==== Log /tmp/omc-rtest-adrpo/interactive/log-Rename.mos true "" "model TestRename flow Real x; Real y; equation x = 0.2; end TestRename; " "" {.TestRenameComp2,.Pck2.TestRenameComp,.TestRenameExt3,.Pck.TestRenameExt,.Pck.TestRenameExt2,Pck.TestRename} "" "model TestRename flow Real RENAMED_X; Real y; equation RENAMED_X = 0.2; end TestRename; " "" true "" true true true "model m1 Modelica.Electrical.Analog.Basic.EMF emf1; end m1; " "" {m1} "" "model m1 Modelica.Electrical.Analog.Basic.EMF emf2; end m1; " "" Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryParameter "J" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryParameter "phi_rel0" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: No such file or directory Error when reading line 1 from file "Modelica/Utilities/data/Examples_readRealParameters.txt": No such file or directoryParameter "w_rel0" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"{m1} "[Continuous.mo:1207:5-1208:95:writable] Warning: Component: a with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1321:5-1322:54:writable] Warning: Component: B with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1323:5-1324:54:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. [Continuous.mo:1323:5-1324:54:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. [Discrete.mo:187:5-187:73:writable] Warning: Component: a with no default value! This might happen if you are using a constant with no binding as a modifier. [Discrete.mo:290:5-290:68:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. [Discrete.mo:291:5-291:68:writable] Warning: Component: B with no default value! This might happen if you are using a constant with no binding as a modifier. [Discrete.mo:290:5-290:68:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. [Discrete.mo:292:5-292:68:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1481:9-1481:52:writable] Warning: Component: deltaq with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1482:9-1483:34:writable] Warning: Component: qd_max with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1484:9-1485:38:writable] Warning: Component: qdd_max with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1650:5-1650:43:writable] Warning: Component: q_end with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1651:5-1652:34:writable] Warning: Component: qd_max with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:1653:5-1654:38:writable] Warning: Component: qdd_max with no default value! This might happen if you are using a constant with no binding as a modifier. [Sources.mo:2842:7-2843:108:writable] Warning: Component: table with no default value! This might happen if you are using a constant with no binding as a modifier. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. [Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. Warning: Parameter Lm has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter Lmd has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter Lmq has neither value nor start value, and is fixed during initialization (fixed=true) [Machines.mo:7053:9-7053:48:writable] Warning: Invalid public variable m, function variables that are not input/output must be protected. [Machines.mo:7054:9-7054:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. [Machines.mo:7073:9-7073:48:writable] Warning: Invalid public variable m, function variables that are not input/output must be protected. [Machines.mo:7074:9-7074:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. [Machines.mo:7108:9-7108:53:writable] Warning: Invalid public variable small, function variables that are not input/output must be protected. [Machines.mo:7133:9-7133:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. [Machines.mo:7134:9-7134:53:writable] Warning: Invalid public variable small, function variables that are not input/output must be protected. Warning: Parameter Jr has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter h_w has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter b_w has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter l_avg has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter l_avg has neither value nor start value, and is fixed during initialization (fixed=true) Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) " "model m1 Modelica.Electrical.Analog.Basic.EMF emf3; end m1; " "" true "" "model m1RO Modelica.Electrical.Analog.Basic.EMF emf1; end m1RO; " "" Error: class: m1RO is in a read only file! "" Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/interactive/equations-expected 2011-09-24 04:12:10 +0200 +++ /tmp/omc-rtest-adrpo/interactive/equations-got 2011-09-24 04:12:21 +0200 @@ -7,11 +7,11 @@ x = 0.2; end TestRename; " "" -{.TestRenameExt3,.TestRenameComp2,.Pck2.TestRenameComp,.Pck.TestRenameExt,.Pck.TestRenameExt2,Pck.TestRename} +{.TestRenameComp2,.Pck2.TestRenameComp,.TestRenameExt3,.Pck.TestRenameExt,.Pck.TestRenameExt2,Pck.TestRename} "" "model TestRename flow Real RENAMED_X; Real y; equation @@ -37,12 +37,209 @@ Modelica.Electrical.Analog.Basic.EMF emf2; end m1; " "" -{m1} -"" +Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryParameter "J" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryParameter "phi_rel0" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"Not possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryNot possible to open file "Modelica/Utilities/data/Examples_readRealParameters.txt" for reading: +No such file or directory +Error when reading line 1 from file +"Modelica/Utilities/data/Examples_readRealParameters.txt": +No such file or directoryParameter "w_rel0" not found in file "Modelica/Utilities/data/Examples_readRealParameters.txt"{m1} +"[Continuous.mo:1207:5-1208:95:writable] Warning: Component: a with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1321:5-1322:54:writable] Warning: Component: B with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1323:5-1324:54:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1319:5-1320:60:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. +[Continuous.mo:1323:5-1324:54:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. +[Discrete.mo:187:5-187:73:writable] Warning: Component: a with no default value! This might happen if you are using a constant with no binding as a modifier. +[Discrete.mo:290:5-290:68:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. +[Discrete.mo:291:5-291:68:writable] Warning: Component: B with no default value! This might happen if you are using a constant with no binding as a modifier. +[Discrete.mo:290:5-290:68:writable] Warning: Component: A with no default value! This might happen if you are using a constant with no binding as a modifier. +[Discrete.mo:292:5-292:68:writable] Warning: Component: C with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1481:9-1481:52:writable] Warning: Component: deltaq with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1482:9-1483:34:writable] Warning: Component: qd_max with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1484:9-1485:38:writable] Warning: Component: qdd_max with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1650:5-1650:43:writable] Warning: Component: q_end with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1651:5-1652:34:writable] Warning: Component: qd_max with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:1653:5-1654:38:writable] Warning: Component: qdd_max with no default value! This might happen if you are using a constant with no binding as a modifier. +[Sources.mo:2842:7-2843:108:writable] Warning: Component: table with no default value! This might happen if you are using a constant with no binding as a modifier. +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:139:3-141:73:writable] Warning: Variable r: Non-array modification '"Ohm/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:143:3-146:40:writable] Warning: Variable l: Non-array modification '"H/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:148:3-151:49:writable] Warning: Variable g: Non-array modification '"S/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '1e-060' for array component, possibly due to missing 'each'. + +[Lines.mo:153:3-156:51:writable] Warning: Variable c: Non-array modification '"F/m"' for array component, possibly due to missing 'each'. + +Warning: Parameter Lm has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter Lmd has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter Lmq has neither value nor start value, and is fixed during initialization (fixed=true) +[Machines.mo:7053:9-7053:48:writable] Warning: Invalid public variable m, function variables that are not input/output must be protected. +[Machines.mo:7054:9-7054:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. +[Machines.mo:7073:9-7073:48:writable] Warning: Invalid public variable m, function variables that are not input/output must be protected. +[Machines.mo:7074:9-7074:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. +[Machines.mo:7108:9-7108:53:writable] Warning: Invalid public variable small, function variables that are not input/output must be protected. +[Machines.mo:7133:9-7133:47:writable] Warning: Invalid public variable pi, function variables that are not input/output must be protected. +[Machines.mo:7134:9-7134:53:writable] Warning: Invalid public variable small, function variables that are not input/output must be protected. +Warning: Parameter Jr has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter h_w has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter b_w has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter l_avg has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter l_avg has neither value nor start value, and is fixed during initialization (fixed=true) +Warning: Parameter V_op has neither value nor start value, and is fixed during initialization (fixed=true) +" "model m1 Modelica.Electrical.Analog.Basic.EMF emf3; end m1; " Equation mismatch: omc-diff says: Line 12: Text differs: expected: {.TestRenameExt got: {.TestRenameComp + RunScript ... ok [time:0] + Test Interactive API for Components ... ok [time:0] + Simplify ... ok [time:0] + strings ... ok [time:1] + Show Documentation via getDocumentationAnnotation (bug: 1446) ... ok [time:1] + Variables ... ok [time:0] + XmlDumpComment ... ok [time:0] == 1 out of 33 tests failed [interactive, time: 43] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/interactive' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/linearize' Running tests... OPENMODELICAHOME = C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Linearization of linear model ... ok [time:3] + VanDerPol linearization ... ok [time:3] + small values in linearization ... ok [time:4] + LotkaVolterra linearization ... ok [time:3] + twoflattankmodel linearization ... ok [time:3] + nonlinsys linearization ... ok [time:3] + extfunctions linearization ... ok [time:5] + test_01.mos ... ok [time:4] + test_02.mos ... ok [time:3] + test_03.mos ... ok [time:3] + test_04.mos ... ok [time:3] + test_05.mos ... ok [time:4] + test_06.mos ... ok [time:4] + Jacobian for Knownvars ... ok [time:3] == 0 out of 14 tests failed [linearize, time: 48] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/linearize' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + AlgPatternm ... ok [time:1] + AllWild ... ok [time:1] + BuiltinArray ... ok [time:0] + BuiltinBoolean ... ok [time:1] + BuiltinInteger ... ok [time:0] + BuiltinList ... ok [time:1] + BuiltinMisc ... ok [time:1] + BuiltinReal ... ok [time:2] + BuiltinString ... ok [time:1] + ComplicatedInteractive ... ok [time:0] + Equality ... ok [time:1] + EqPatternm ... ok [time:1] + ErrorInteractiveCallFunctionPtr ... ok [time:1] - ErrorInvalidComplexType ... ok [time:0] - ErrorInvalidMetarecord ... ok [time:0] - ErrorInvalidPattern1 ... ok [time:0] - ErrorInvalidPattern2 ... ok [time:0] - ErrorInvalidPattern3 ... ok [time:0] - ErrorInvalidPattern4 ... ok [time:1] - ErrorLocalElement1 ... ok [time:0] - ErrorLocalElement2 ... ok [time:0] - ErrorMatchInOut1.mo ... ok [time:0] + ErrorMatchNumOutput ... ok [time:0] - ErrorNone ... ok [time:0] + Failure ... ok [time:1] + List1 ... ok [time:1] + List2 ... ok [time:2] + List3 ... ok [time:3] + List4 ... ok [time:1] + List5 ... ok [time:0] + ListInteractive ... ok [time:0] + ListReductionCodegen ... ok [time:1] - ListReductionDimError ... ok [time:0] + ListReductionInterpret ... ok [time:1] + MatchCase1 ... ok [time:2] + MatchCase2 ... ok [time:2] + MatchCase3 ... ok [time:2] + MatchCase4 ... ok [time:2] + MatchCase5 ... ok [time:2] + MatchCase6 ... ok [time:2] + MatchCase7 ... ok [time:2] + MatchCase8 ... ok [time:2] + MatchCase9 ... ok [time:3] + MatchCase10 ... ok [time:2] + MatchCase11 ... ok [time:1] + MatchCase12 ... ok [time:1] + MatchCase13 ... ok [time:1] + MatchCase14 ... ok [time:1] + MatchCase15 ... ok [time:1] + MatchCase16 ... ok [time:1] + MatchCase17 ... ok [time:0] + MatchCaseInteractive1 ... ok [time:5] + MatchCaseInteractive3 ... ok [time:1] + MatchElse1 ... ok [time:1] + MatchIfEquation1 ... ok [time:1] + OptimizeContinue ... ok [time:0] + OptimizeMatchToIfExp ... ok [time:0] + OptionInteractive ... ok [time:1] + PartialFn1 ... ok [time:0] + PartialFn2 ... ok [time:1] - PartialFn3 ... ok [time:0] + PartialFn4 ... ok [time:1] + PartialFn5 ... ok [time:1] + PartialFn6 ... ok [time:0] + PartialFn7 ... ok [time:1] + PartialFn8 ... ok [time:2] + PartialFn10 ... ok [time:1] + PartialFn11 ... ok [time:2] + PartialFn12 ... ok [time:2] + PartialFn13 ... equation mismatch [time:0] ==== Log /tmp/omc-rtest-adrpo/meta/log-PartialFn13.mos true record SimulationResult resultFile = "", simulationOptions = "startTime = 0.0, stopTime = 1.0, numberOfIntervals = 500, tolerance = 1e-006, method = 'dassl', fileNamePrefix = 'PartialFn13', storeInTemp = false, noClean = false, options = '', outputFormat = 'mat', variableFilter = '.*', measureTime = false, cflags = ''", messages = "Simulation failed for model: PartialFn13 Error: Error building simulator. Buildlog: \\tools\\MinGW\\bin\\mingw32-make[3]: Entering directory `c:/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' gcc -O3 -falign-functions -msse2 -mfpmath=sse -I\"c:/bin/cygwin/home/adrpo/dev/OpenModelica/build/include/omc\" -I. -c -o PartialFn13.o PartialFn13.c In file included from PartialFn13.c:10: PartialFn13_functions.c: In function '_CallerFn__FullFn': PartialFn13_functions.c:39: error: '_inPartFn' undeclared (first use in this function) PartialFn13_functions.c:39: error: (Each undeclared identifier is reported only once PartialFn13_functions.c:39: error: for each function it appears in.) \\tools\\MinGW\\bin\\mingw32-make[3]: *** [PartialFn13.o] Error 1 \\tools\\MinGW\\bin\\mingw32-make[3]: Leaving directory `c:/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' " end SimulationResult; Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/meta/equations-expected 2011-09-24 04:08:34 +0200 +++ /tmp/omc-rtest-adrpo/meta/equations-got 2011-09-24 04:08:34 +0200 @@ -1,7 +1,18 @@ true record SimulationResult -resultFile = "PartialFn13_res.mat", -simulationOptions = "startTime = 0.0, stopTime = 1.0, numberOfIntervals = 500, tolerance = 1e-06, method = 'dassl', fileNamePrefix = 'PartialFn13', storeInTemp = false, noClean = false, options = '', outputFormat = 'mat', variableFilter = '.*', measureTime = false, cflags = ''", -messages = "" +resultFile = "", +simulationOptions = "startTime = 0.0, stopTime = 1.0, numberOfIntervals = 500, tolerance = 1e-006, method = 'dassl', fileNamePrefix = 'PartialFn13', storeInTemp = false, noClean = false, options = '', outputFormat = 'mat', variableFilter = '.*', measureTime = false, cflags = ''", +messages = "Simulation failed for model: PartialFn13 +Error: Error building simulator. Buildlog: \\tools\\MinGW\\bin\\mingw32-make[3]: Entering directory `c:/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' +gcc -O3 -falign-functions -msse2 -mfpmath=sse -I\"c:/bin/cygwin/home/adrpo/dev/OpenModelica/build/include/omc\" -I. -c -o PartialFn13.o PartialFn13.c +In file included from PartialFn13.c:10: +PartialFn13_functions.c: In function '_CallerFn__FullFn': +PartialFn13_functions.c:39: error: '_inPartFn' undeclared (first use in this function) +PartialFn13_functions.c:39: error: (Each undeclared identifier is reported only once +PartialFn13_functions.c:39: error: for each function it appears in.) +\\tools\\MinGW\\bin\\mingw32-make[3]: *** [PartialFn13.o] Error 1 +\\tools\\MinGW\\bin\\mingw32-make[3]: Leaving directory `c:/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' + +" end SimulationResult; -4.5 + Equation mismatch: omc-diff says: Line 3: Text differs: expected: resultFile = "PartialFn got: resultFile = "", + PartialFn14 ... ok [time:1] + PartialFn15 ... ok [time:1] + Polymorphic ... ok [time:0] + Polymorphic2 ... ok [time:0] + Recursive ... ok [time:1] + Shadowing1 ... ok [time:1] + Shadowing2 ... ok [time:0] + Simplify1 ... ok [time:1] + StrictRML ... ok [time:0] + TailRecursion ... ok [time:4] + TupleInteractive ... ok [time:0] + Uniontype1 ... ok [time:2] + Uniontype2 ... ok [time:1] + Uniontype3 ... ok [time:2] + Uniontype4 ... ok [time:2] + Uniontype5 ... ok [time:1] + Uniontype6 ... ok [time:2] + Uniontype8 ... ok [time:1] + Uniontype9 ... ok [time:0] + Uniontype10 ... ok [time:0] + Uniontype11 ... ok [time:0] + Uniontype12 ... ok [time:0] + Uniontype13 ... ok [time:0] + Uniontype14 ... ok [time:0] + Uniontype15 ... ok [time:1] == 1 out of 95 tests failed [meta, time: 94] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta/MetaModelicaDev' == 10 failed + 01 Experiment ... ok [time:1] + 02a Exp1 ... ok [time:2] + 02b Exp2 ... ok [time:2] + 03 Symbolic Differentation ... ok [time:1] + 04 Assignment ... ok [time:1] + 05a AssignTwoType ... ok [time:2] + 05b AssignTwoType ... ok [time:1] + 06 Advanced ... ok [time:1] + 08 Pam ... ok [time:1] + 09 Pam Decl ... ok [time:1] + 11 Petrol ... ok [time:4] == 0 out of 11 tests failed [MetaModelica Course, time: 23] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/meta/MetaModelicaDev' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/modelicaML' Running tests... OPENMODELICAHOME = C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Simulation ModelicaML model twotank ... ok [time:3] + Simulation ModelicaML model BouncingBall ... ok [time:2] + Simulation simple ModelicaML model ... ok [time:2] + Simulation ModelicaML model watchdog ... ok [time:3] + Simulation ModelicaML models ... ok [time:2] == 0 out of 5 tests failed [modelicaML, time: 12] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/modelicaML' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles' Running tests... + Abs1 ... ok [time:0] - Abs2 ... ok [time:0] + Abs ... ok [time:0] + Acos ... ok [time:0] + AddReal1 ... ok [time:0] + Algorithm1 ... ok [time:0] - Algorithm2 ... ok [time:0] + Algorithm3 ... ok [time:1] + AlgorithmElseOpt ... ok [time:0] + AlgorithmFor1 ... ok [time:0] + AlgorithmFor2 ... ok [time:0] + AlgorithmFor3 ... ok [time:0] + AlgorithmFor4 ... ok [time:0] + AlgorithmFor5 ... ok [time:0] + AlgorithmFor6 ... ok [time:0] + AlgorithmNoRetCall ... ok [time:1] + And ... ok [time:0] + Array10 ... ok [time:0] + Array11 ... ok [time:0] + Array12 ... ok [time:0] + Array13 ... ok [time:0] + Array14 ... ok [time:0] + Array15 ... ok [time:0] + Array1 ... ok [time:1] + Array2 ... ok [time:0] + Array3 ... ok [time:0] + Array4 ... ok [time:0] + Array7 ... ok [time:0] + Array8 ... ok [time:0] + Array9 ... ok [time:0] + ArrayAccess ... ok [time:0] + ArrayAddition ... ok [time:0] + ArrayAddition2 ... ok [time:0] + ArrayAsAliasInExtends ... ok [time:0] + ArrayAsAlias ... ok [time:0] + ArrayAssignWholeDim ... ok [time:0] + ArrayBrackets ... ok [time:0] - Array_builtin ... ok [time:0] + ArrayCall ... ok [time:0] + ArrayCurlyBrackets ... ok [time:0] + ArrayDeclaration1 ... ok [time:1] + ArrayDeclaration2 ... ok [time:0] + ArrayDeclaration3 ... ok [time:0] + ArrayDeclaration4 ... ok [time:0] + ArrayDeclaration5 ... ok [time:0] + ArrayDivision ... ok [time:0] + ArrayEWOps1 ... ok [time:0] + ArrayEWOps2 ... ok [time:0] + ArrayEWOps3 ... ok [time:1] + ArrayEWOps4 ... ok [time:0] + ArrayEWOps5 ... ok [time:0] + ArrayEWOpsCEval1 ... ok [time:0] + ArrayEWOpsCEval2 ... ok [time:0] + ArrayEWOpsCEval3 ... ok [time:0] + ArrayEWOpsCEval4 ... ok [time:0] + ArrayEWOpsCEval5 ... ok [time:0] + ArrayExtend ... ok [time:0] + ArrayExtendsUnknown ... ok [time:0] + ArrayIndex ... ok [time:0] + ArrayIndex2 ... ok [time:0] - ArrayInvalidDims ... ok [time:0] + ArrayLogic ... ok [time:0] + ArrayMatrixSimplifier ... ok [time:0] + ArrayModification10 ... ok [time:0] + ArrayModification11 ... ok [time:0] + ArrayModification12 ... ok [time:0] + ArrayModification13 ... equation mismatch [time:0] ==== Log /tmp/omc-rtest-adrpo/mofiles/log-ArrayModification13.mo class C2 Real x[1] = 1.0; Real x[2] = 1.0; Real x[3] = 1.0; end C2; [ArrayModification13.mo:10:3-10:12:writable] Warning: Index modifications: (x[-1] = 2) are overlapping with array binding modification x={1,1,1} for array component: x. The final bindings will be set by the last index modification given for the same index. Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/mofiles/equations-expected 2011-09-24 04:09:33 +0200 +++ /tmp/omc-rtest-adrpo/mofiles/equations-got 2011-09-24 04:09:33 +0200 @@ -1,8 +1,8 @@ class C2 Real x[1] = 1.0; -Real x[2] = 2.0; +Real x[2] = 1.0; Real x[3] = 1.0; end C2; -[ArrayModification13.mo:10:3-10:12:writable] Warning: Index modifications: (x[2] = 2) are overlapping with array binding modification x={1,1,1} for array component: x. +[ArrayModification13.mo:10:3-10:12:writable] Warning: Index modifications: (x[-1] = 2) are overlapping with array binding modification x={1,1,1} for array component: x. The final bindings will be set by the last index modification given for the same index. Equation mismatch: omc-diff says: Line 3: Real 2.0 != 1.0 eps: 0.000000, actual diff: 1.000000 - ArrayModification14 ... ok [time:0] + ArrayModification1 ... ok [time:0] + ArrayModification2 ... ok [time:0] + ArrayModification3 ... ok [time:0] + ArrayModification4 ... ok [time:0] + ArrayModification5 ... ok [time:0] + ArrayModification6 ... ok [time:0] + ArrayModification7 ... ok [time:0] + ArrayModification8 ... ok [time:0] + ArrayModification9 ... ok [time:0] + ArrayMulMatrixSimplifier ... ok [time:0] + ArrayMultiplication ... ok [time:0] + ArrayOperators ... ok [time:0] + ArrayRange ... ok [time:1] + ArrayReduce2 ... ok [time:0] + ArrayRemoveIndex1 ... ok [time:0] + ArraySizeFromFunc ... ok [time:0] + ArraySlice1 ... ok [time:0] + ArraySlice2 ... ok [time:0] + ArraySubtraction ... ok [time:0] + Asin ... ok [time:0] - AssignmentErrorConstant ... ok [time:1] - AssignmentErrorInput ... ok [time:0] + AssignmentFunction ... ok [time:0] + AssignmentFunctionMultiple1 ... ok [time:0] + AssignmentSimple ... ok [time:0] + Atan2 ... ok [time:0] + Atan ... ok [time:0] + BlockComponents ... ok [time:0] + BlockIllegal ... ok [time:0] + BlockResult ... ok [time:1] + BlockSimple ... ok [time:0] + BoolArrayTest ... ok [time:0] + BooleanDim ... ok [time:0] + BooleanLiterals ... ok [time:0] + BooleanRanges ... ok [time:0] + Break ... ok [time:0] + Cardinality ... ok [time:0] + Ceil ... ok [time:1] + Circle ... ok [time:0] + Circuit1 ... ok [time:0] + Class1 ... ok [time:0] + Class2 ... ok [time:0] + Comment1 ... ok [time:0] + Comment2 ... ok [time:0] - ComponentNames ... ok [time:0] + ComponentNames2 ... ok [time:0] - RedeclarationComponentNames ... ok [time:0] + CondDeclaration ... ok [time:0] - ConditionalArrayExpression1 ... ok [time:0] + ConditionalArrayExpression2 ... ok [time:0] + ConditionalComponent ... ok [time:0] + CondOperators ... ok [time:0] + Connect12 ... ok [time:0] + Connect13 ... ok [time:0] + Connect14 ... ok [time:1] + Connect15 ... ok [time:0] + Connect16 ... ok [time:0] + Connect1 ... ok [time:0] + Connect2 ... ok [time:0] + Connect4 ... ok [time:0] + Connect5 ... ok [time:0] + Connect6 ... ok [time:0] + Connect7 ... ok [time:1] + Connect8 ... ok [time:0] + Connect9 ... ok [time:0] + ConnectEnumArray ... ok [time:0] - ConnectFlowEffort ... ok [time:0] + ConnectHierarchical1 ... ok [time:0] + ConnectHierarchical2 ... ok [time:0] + ConnectInner1 ... ok [time:0] + ConnectInner2 ... ok [time:0] + ConnectInner3 ... ok [time:0] + ConnectInnerOuter2 ... ok [time:0] + ConnectInnerOuter3 ... ok [time:0] + ConnectInnerOuter ... ok [time:0] + ConnectorComponents ... ok [time:0] - ConnectorIllegal ... ok [time:0] - ConnectorIllegal2 ... ok [time:0] + ConnectorSimple ... ok [time:0] + ConnectTypes ... ok [time:1] + Constant10 ... ok [time:0] + Constant11 ... ok [time:0] + Constant12 ... ok [time:0] + Constant1 ... ok [time:0] + Constant2 ... ok [time:0] + Constant3 ... ok [time:0] + Constant4 ... ok [time:0] + Constant5 ... ok [time:0] + Constant6 ... ok [time:0] + Constant7 ... ok [time:0] + Constant8 ... ok [time:0] - Constant9 ... equation mismatch [time:0] ==== Log /tmp/omc-rtest-adrpo/mofiles/log-Constant9.mo Error processing file: Constant9.mo Error: Variable A.x in package A is not constant [Constant9.mo:14:3-14:13:writable] Error: Found a component with same name when looking for type x Error: Variable A.x in package A is not constant [Constant9.mo:14:3-14:13:writable] Error: Variable A.x not found in scope test # Error encountered! Exiting... # Please check the error message and the flags. Execution failed! Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/mofiles/equations-expected 2011-09-24 04:09:44 +0200 +++ /tmp/omc-rtest-adrpo/mofiles/equations-got 2011-09-24 04:09:44 +0200 @@ -1,7 +1,9 @@ Error processing file: Constant9.mo Error: Variable A.x in package A is not constant +[Constant9.mo:14:3-14:13:writable] Error: Found a component with same name when looking for type x +Error: Variable A.x in package A is not constant [Constant9.mo:14:3-14:13:writable] Error: Variable A.x not found in scope test # Error encountered! Exiting... # Please check the error message and the flags. Equation mismatch: omc-diff says: Line 3: Text differs: expected: :writable] Error: Variable A.x not found in scope test got: :writable] Error: Found a component with same name when looking for type x + ConstantDeclConnector ... ok [time:0] + ConstantDeclRecord ... ok [time:0] + ConstantDeclType ... ok [time:1] + ConstantLogicalRelations ... ok [time:0] + ConstantReductions ... ok [time:0] + ConstantSize ... ok [time:0] + ConstrainingType1 ... ok [time:0] + ConstructParameters2 ... ok [time:0] + ConstructParameters ... ok [time:0] + Cosh ... ok [time:0] + Cos ... ok [time:1] + Cross ... ok [time:0] - CyclicBindingConditional ... ok [time:0] - CyclicBindingConst ... ok [time:0] - CyclicBindingParam ... ok [time:0] + DeclarationEquation1 ... ok [time:0] + DeclarationEquation2 ... ok [time:0] + DeclarationEquation3 ... ok [time:0] + DeclarationOrder1 ... ok [time:0] + DeclarationOrder2 ... ok [time:0] + DeclarationOrder ... ok [time:0] - DeclareConstant3 ... ok [time:0] + DefaultRecordParameters ... ok [time:0] + Delay2 ... ok [time:0] + Delay3 ... ok [time:0] + Delay4 ... ok [time:0] + Delay5 ... ok [time:0] + Delay6 ... ok [time:1] + Delay7 ... ok [time:0] + Delay ... ok [time:0] + DependsMutual ... ok [time:0] - DependsRecursive ... ok [time:0] + Derivative1 ... ok [time:0] + DerConstant1 ... ok [time:0] + DerConstant2 ... ok [time:0] - DerConstant3 ... ok [time:1] + DiagonalBlock ... ok [time:0] + Discrete1 ... ok [time:0] - Discrete2 ... erroneous ==== Log /tmp/omc-rtest-adrpo/mofiles/log-Discrete2.mo class Discrete2 discrete Real x; equation x = sin(time); end Discrete2; + DiscreteDeclConnector ... ok [time:0] + DiscreteDeclRecord ... ok [time:0] + DiscreteDeclType ... ok [time:0] - DisturbedResistance1 ... ok [time:0] - DisturbedResistance3 ... ok [time:0] - DisturbedResistance4 ... ok [time:0] + Div ... ok [time:0] + DocString.mo ... ok [time:0] - DuplicateElements ... ok [time:0] - DuplicateElementsEquivalent ... ok [time:0] - DuplicateElementsNonEquivalent ... ok [time:0] - DuplicateElementsExtends ... ok [time:0] + DuplicateElementsExtendsEquivalent ... ok [time:0] + Each1 ... ok [time:1] - EmptyArray ... ok [time:0] + EmptyArraySubscript ... ok [time:0] + Encapsulated1 ... ok [time:0] - Encapsulated2 ... ok [time:0] - Encapsulated3 ... ok [time:0] - Encapsulated4 ... ok [time:0] + End ... ok [time:0] - EndIllegal ... ok [time:0] + EndUnknown ... ok [time:0] + EngineSAAB95Total ... ok [time:0] + Enumeration1 ... ok [time:0] + Enumeration2 ... ok [time:1] + Enumeration3 ... ok [time:0] + Enumeration4 ... ok [time:0] - Enumeration5 ... ok [time:0] + Enumeration6 ... ok [time:0] + Enumeration7 ... ok [time:0] + Enumeration8 ... ok [time:0] + Enumeration9 ... ok [time:0] + Enum10 ... ok [time:1] + Enum11 ... ok [time:0] - Enum12 ... ok [time:0] + Enum13 ... ok [time:0] + EnumConnectArray ... ok [time:0] + EnumDimSum ... ok [time:0] + EnumFor ... ok [time:0] - EnumInvalidLiteral ... ok [time:0] + EnumRange ... ok [time:0] + Equals ... ok [time:0] + EquationComponent1 ... ok [time:0] + EquationComponent2 ... ok [time:0] + EquationComponent3 ... ok [time:0] + EquationComponent4 ... ok [time:0] + EquationComponent5 ... ok [time:0] + EquationFor1 ... ok [time:0] + EquationFor2 ... ok [time:0] + EquationFor3 ... ok [time:1] + EquationFor4 ... ok [time:0] + EquationFor5 ... ok [time:0] + EquationFor6 ... ok [time:0] + EquationFor7 ... ok [time:0] + EquationIf1 ... ok [time:0] + EquationIf2 ... ok [time:0] + EquationIf3 ... ok [time:0] + EquationIf4 ... ok [time:1] - ExternalAlgorithm ... ok [time:0] - ErrorMultipleClasses ... ok [time:0] - ErrorUnknownDimension ... equation mismatch [time:0] ==== Log /tmp/omc-rtest-adrpo/mofiles/log-ErrorUnknownDimension.mo Error processing file: ErrorUnknownDimension.mo # Error encountered! Exiting... # Please check the error message and the flags. Execution failed! Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/mofiles/equations-expected 2011-09-24 04:09:57 +0200 +++ /tmp/omc-rtest-adrpo/mofiles/equations-got 2011-09-24 04:09:57 +0200 @@ -1,7 +1,5 @@ Error processing file: ErrorUnknownDimension.mo -[ErrorUnknownDimension.mo:5:3-5:12:writable] Error: Failed to deduce dimensions of r due to missing binding equation. - # Error encountered! Exiting... # Please check the error message and the flags. Execution failed! Equation mismatch: omc-diff says: Line 2: Text differs: expected: [ErrorUnknownDimension.mo: got: # Error encountered! Exiting... + EventFunctions ... ok [time:0] + Exp ... ok [time:0] + Expressions ... ok [time:0] + Extends1 ... ok [time:1] + Extends2 ... ok [time:0] + Extends3 ... ok [time:0] + Extends4 ... ok [time:0] + Extends5 ... ok [time:0] + Extends6 ... ok [time:0] + Extends7 ... ok [time:0] + Extends8 ... ok [time:0] + Extends9 ... ok [time:1] + Extends10 ... ok [time:0] + Extends11 ... ok [time:0] + ExtendsModWithImport ... ok [time:0] + ExternalFunction1 ... ok [time:1] + ExternalFunction2 ... ok [time:0] + ExternalFunction3 ... ok [time:1] + ExternalFunction4 ... ok [time:0] + ExternalFunction5 ... ok [time:0] + ExternalFunction6 ... ok [time:0] + ExternalFunction7 ... ok [time:1] - ExternalFunction8 ... ok [time:0] + Derivative Annotation ... ok [time:0] + ExternalFunctionBuiltin ... ok [time:0] + ExternalFunctionExtends ... ok [time:0] - ExtObjError ... ok [time:0] + Faculty1 ... ok [time:1] + Faculty2 ... ok [time:0] + Faculty3 ... ok [time:0] + Faculty5 ... ok [time:0] + FillSize ... ok [time:0] + FinalParameterModification ... ok [time:0] + FixedFinalParameter ... ok [time:0] + FlexibleShaft ... ok [time:0] + FloatingPoint ... ok [time:1] + Floor ... ok [time:0] + FlowDeclConnector ... ok [time:0] + FlowDeclRecord ... ok [time:0] + FlowDeclRecord2 ... ok [time:0] + FlowDeclType ... ok [time:0] - FlowDeclRecord ... ok [time:0] + ForceAndTorque.mo ... ok [time:0] + ForIf ... ok [time:0] + ForIterator1 ... ok [time:0] + ForIterator2 ... ok [time:0] + ForIterator3 ... ok [time:0] + ForIteratorType ... ok [time:0] + ForNested ... ok [time:0] + ForSimple ... ok [time:0] + Function10 ... ok [time:0] + Function11 ... ok [time:0] + Function12 ... ok [time:0] + Function1 ... ok [time:0] + Function2 ... ok [time:0] + Function5 ... ok [time:0] + Function5 ... ok [time:0] + Function6 ... ok [time:0] - Function7 ... ok [time:0] - Function8 ... ok [time:0] + Function9 ... ok [time:1] + FunctionBreak ... ok [time:0] + FunctionBubblesort ... ok [time:0] + FunctionCall ... ok [time:0] + FunctionDefaultArgs ... ok [time:0] + FunctionEval1 ... ok [time:0] + FunctionEval2 ... ok [time:0] + FunctionEval3 ... ok [time:0] + FunctionEval4 ... ok [time:0] + FunctionEval6 ... ok [time:0] + FunctionEval7 ... ok [time:0] + FunctionEval8 ... ok [time:0] + FunctionEval9 ... ok [time:0] + FunctionEval10 ... ok [time:0] + FunctionEval11 ... ok [time:0] + FunctionEval11 ... ok [time:0] + FunctionEvalBuiltin ... ok [time:0] + FunctionEvalFail ... ok [time:0] + FunctionEvalSlice ... ok [time:0] - FunctionInvalidVar1 ... ok [time:0] - FunctionInvalidVar2 ... ok [time:0] - FunctionProtectedInput ... ok [time:0] + FunctionReturn ... ok [time:0] + FunctionSimple ... ok [time:0] + FunctionSimplex ... ok [time:0] - FunctionWithEquation ... ok [time:0] + GreaterThanEqual ... ok [time:0] + GreaterThan ... ok [time:0] + RecursiveSelfReference ... ok [time:0] + IdenticalEquations ... ok [time:0] + if_then_elseif_else ... ok [time:0] + IfExpCombiTable1 ... ok [time:0] - IfExpCombiTable2 ... ok [time:0] - IllegalSubscript ... ok [time:1] + Import1 ... ok [time:0] - Import2 ... ok [time:0] + Import3 ... ok [time:0] + Import4 ... ok [time:0] + Import5 ... ok [time:0] + Import6 ... ok [time:0] + Import7 ... ok [time:0] + ImportSelf1 ... ok [time:1] + Influenza ... ok [time:0] + InheritanceClassMod ... ok [time:0] + InheritanceDiamond.mo ... ok [time:0] + InheritanceMultiple ... ok [time:0] + InheritanceProtected ... ok [time:0] + InheritancePublic ... ok [time:0] + InheritanceSeveral ... ok [time:0] + InheritanceSimple ... ok [time:0] + InnerOuter1 ... ok [time:0] + InnerOuter2 ... ok [time:0] + InnerOuterSystem ... ok [time:0] + InnerOuterWithExtends ... ok [time:0] + String arrays ... ok [time:0] + InOutArray ... ok [time:0] + InOutBool ... ok [time:0] + InputDeclConnector ... ok [time:0] + InputDeclRecord ... ok [time:1] + InputDeclType ... ok [time:0] + IntAdd ... ok [time:0] - IntDiv ... ok [time:0] + Integer2Real ... ok [time:0] + Integer ... ok [time:0] + IntMul ... ok [time:0] - IntPow ... ok [time:0] + IntSub ... ok [time:0] - InvalidExtends1 ... ok [time:0] - InvalidSizeScalar ... ok [time:0] - InvalidSizeIndex1 ... ok [time:0] - InvalidSizeIndex2 ... ok [time:0] + Inverted Pendulum ... ok [time:1] + LessThanEqual ... ok [time:0] + LessThan ... ok [time:0] + Log10 ... ok [time:0] + Log ... ok [time:0] + Lookup10 ... ok [time:0] + Lookup1 ... ok [time:0] + Lookup2 ... ok [time:0] - Lookup3 ... ok [time:1] + Lookup4 ... ok [time:0] + Lookup5 ... ok [time:0] + Lookup6 ... ok [time:0] - Lookup7 ... ok [time:0] + Lookup9 ... ok [time:0] + Lookup with arrays ... ok [time:0] + MathematicalFunctions ... ok [time:0] + Matrix ... ok [time:0] + Matrix1 ... ok [time:0] + MatrixAddition ... ok [time:0] + MatrixBrackets ... ok [time:0] + MatrixPow ... ok [time:0] + MatrixRowIndexing ... ok [time:0] + MaxArray ... ok [time:0] + Min & Max ... ok [time:0] + ModelAccess ... ok [time:0] + modelica_1_1_Array9 ... ok [time:0] + modelica_1_1_Function10 ... ok [time:0] - modelica_1_1_Type10 ... ok [time:0] + modelica_1_1_Type9 ... ok [time:0] + ModelSimple ... ok [time:0] + Modification10 ... ok [time:0] + Modification11 ... ok [time:0] + Modification12 ... ok [time:0] + Modification13 ... ok [time:1] + Modification14 ... ok [time:0] - Modification15 ... ok [time:0] + Modification1 ... ok [time:0] + Modification2 ... ok [time:0] + Modification3 ... ok [time:0] - Modification4 ... ok [time:0] + Modification5 ... ok [time:0] + Modification6 ... ok [time:1] + Modification7 ... ok [time:0] - Modification8 ... ok [time:0] - Modification9 ... this test should have failed ==== Log /tmp/omc-rtest-adrpo/mofiles/log-Modification9.mo class Modification9 Real x[1,1] = 1.0; Real x[1,2] = 0.0; Real x[1,3] = 0.0; Real x[2,1] = 0.0; Real x[2,2] = 1.0; Real x[2,3] = 0.0; Real x[3,1] = 0.0; Real x[3,2] = 0.0; Real x[3,3] = 1.0; end Modification9; [Modification9.mo:9:3-9:27:writable] Warning: Index modifications: (x[-1] = 2) are overlapping with array binding modification x={{1,0,0},{0,1,0},{0,0,1}} for array component: x. The final bindings will be set by the last index modification given for the same index. + ModifierClass ... ok [time:0] + ModifierExtends ... ok [time:0] + ModifiersProblem ... ok [time:0] + ModifierRedeclare ... ok [time:0] - ModifierTypeError ... ok [time:0] + ModifierVariable ... ok [time:1] - ModifyConstant4 ... ok [time:0] - ModifyConstant5 ... ok [time:0] - ModifyConstant6 ... ok [time:0] + modifyOuter2 ... ok [time:0] + modifyOuter ... ok [time:0] - ModifyUnknown1 ... ok [time:0] - ModifyUnknown2 ... ok [time:0] + Mod ... ok [time:1] - MultipleDeclarations2 ... ok [time:0] - MultipleDeclarations ... ok [time:0] + MyPointsInst1 ... ok [time:0] + MyPointsInst2 ... ok [time:0] + NamedArguments ... ok [time:0] + NestedClasses ... ok [time:0] + NoEvent1 ... ok [time:0] + NonConstantReduction ... ok [time:0] + Non-expanded Array1 ... ok [time:0] + Non-expanded Array 2 ... ok [time:0] + Non-expanded Array3 ... ok [time:0] + Non-expanded Array 4 ... ok [time:0] + Non-expanded Array - Modification ... ok [time:0] + NonfixedParamSubscript ... ok [time:0] + NotDependsRecursive ... ok [time:0] + NotEquals ... ok [time:0] + Not ... ok [time:1] + NumericFunctions ... ok [time:0] + Operators.mo ... ok [time:0] + Or ... ok [time:0] + OutputDeclConnector ... ok [time:0] + OutputDeclRecord ... ok [time:0] + OutputDeclType ... ok [time:0] + OverrideFinalTest ... ok [time:0] + Overwriting1 ... ok [time:0] + Overwriting2 ... ok [time:0] + Overwriting3 ... equation mismatch [time:0] ==== Log /tmp/omc-rtest-adrpo/mofiles/log-Overwriting3.mo class Overwriting3 Real x[1] = 0.0; Real x[2] = 0.0; Real x[3] = 0.0; end Overwriting3; [Overwriting3.mo:10:3-10:23:writable] Warning: Index modifications: (x[-1] = 1.0) are overlapping with array binding modification x={0,0,0} for array component: x. The final bindings will be set by the last index modification given for the same index. Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/mofiles/equations-expected 2011-09-24 04:10:27 +0200 +++ /tmp/omc-rtest-adrpo/mofiles/equations-got 2011-09-24 04:10:27 +0200 @@ -1,8 +1,8 @@ class Overwriting3 -Real x[1] = 1.0; +Real x[1] = 0.0; Real x[2] = 0.0; Real x[3] = 0.0; end Overwriting3; -[Overwriting3.mo:10:3-10:23:writable] Warning: Index modifications: (x[1] = 1.0) are overlapping with array binding modification x={0,0,0} for array component: x. +[Overwriting3.mo:10:3-10:23:writable] Warning: Index modifications: (x[-1] = 1.0) are overlapping with array binding modification x={0,0,0} for array component: x. The final bindings will be set by the last index modification given for the same index. Equation mismatch: omc-diff says: Line 2: Real 1.0 != 0.0 eps: 0.000000, actual diff: 1.000000 - Overwriting4 ... this test should have failed ==== Log /tmp/omc-rtest-adrpo/mofiles/log-Overwriting4.mo class Overwriting4 Real x[1,1] = 1.0; Real x[1,2] = 0.0; Real x[1,3] = 0.0; Real x[2,1] = 0.0; Real x[2,2] = 1.0; Real x[2,3] = 0.0; Real x[3,1] = 0.0; Real x[3,2] = 0.0; Real x[3,3] = 1.0; end Overwriting4; [Overwriting4.mo:10:3-10:27:writable] Warning: Index modifications: (x[-1] = 2) are overlapping with array binding modification x={{1,0,0},{0,1,0},{0,0,1}} for array component: x. The final bindings will be set by the last index modification given for the same index. + PackageComponents ... ok [time:0] + PackageIllegal ... ok [time:0] + package-s-1 ... ok [time:0] + package-s-1 ... ok [time:0] + packages2 ... ok [time:0] + PackageSimple ... ok [time:0] + ParameterDeclConnector ... ok [time:0] + ParameterDeclRecord ... ok [time:0] + ParameterDeclType ... ok [time:0] - Partial1 ... ok [time:0] + PEXPipe ... ok [time:0] + Philosopher2 ... ok [time:1] + Philosopher ... ok [time:0] + Pow ... ok [time:0] + PredefinedTypes ... ok [time:0] - Protected1 ... ok [time:0] + ProtectedAccess2 ... ok [time:0] - ProtectedAccess ... ok [time:0] - prtest ... ok [time:0] + PublicAccess ... ok [time:1] + Range1 ... ok [time:0] - Real2Integer1 ... ok [time:0] - Real2Integer2 ... ok [time:0] + Real2Integer3 ... ok [time:0] + RealAdd ... ok [time:0] + RealDiv ... ok [time:0] + RealMul ... ok [time:0] + RealPow ... ok [time:0] + RealSub ... ok [time:0] + Record1 ... ok [time:0] + RecordAssignment ... ok [time:0] + RecordConnections ... ok [time:0] + RecordConstant1 ... ok [time:0] + RecordConstant2 ... ok [time:0] + RecordConstant3 ... ok [time:0] + RecordConstant4 ... ok [time:0] + RecordConstructors ... ok [time:1] + RecordConstructorVectorization.mo ... ok [time:0] + RecordNonPublic ... ok [time:0] + RecordPrefixes.mo ... ok [time:0] + RecordSimple ... ok [time:0] - RecursiveDefinition ... ok [time:0] + RecursiveFunctionCall ... ok [time:0] - RecursiveShort ... ok [time:0] + Reductions ... ok [time:1] + reinit ... ok [time:0] + ReinitArray ... ok [time:0] + Rem ... ok [time:0] - ReturnError ... ok [time:0] - SampleError ... ok [time:0] + Scalar ... ok [time:0] + ScopeDeclaration1 ... ok [time:0] - ScopeDeclaration2 ... ok [time:0] + ScopeDeclaration3 ... ok [time:0] + ScopeModification1 ... ok [time:0] - ScopeModification2 ... ok [time:0] + Sequence ... ok [time:0] + Shadow1 ... ok [time:0] + ShortClassDef ... ok [time:0] + Sign ... ok [time:0] + SimpleInheritance ... ok [time:0] + SimpleIntegrator1 ... ok [time:1] + SimpleIntegrator2 ... ok [time:0] - SimpleIntegrator3 ... ok [time:0] - SimpleTypeExtend ... ok [time:0] + Simplify ... ok [time:0] + Simplify2 ... ok [time:0] + SimplifyBinary ... ok [time:0] + SimplifyRangeInCall ... ok [time:0] + Sinh ... ok [time:1] + Sin ... ok [time:0] + Skew ... ok [time:0] + SmallLinsys ... ok [time:0] + Sqrt ... ok [time:0] + StaticAssertSuccess ... ok [time:0] + StringBoolean ... ok [time:0] + StringConcatenation ... ok [time:0] + StringConversion ... ok [time:0] + StringInteger ... ok [time:0] + StringLiterals ... ok [time:0] + StringPool ... ok [time:0] + StringReal ... ok [time:0] + StructuralParameter1 ... ok [time:0] + SubScript1 ... ok [time:0] + SubScript2 ... ok [time:0] + Subscript3 ... ok [time:0] + SubscriptEval ... ok [time:0] + Sum ... ok [time:0] + Switch ... ok [time:0] + Tanh ... ok [time:0] + Tan ... ok [time:1] + Terminal1 ... ok [time:0] - Terminal2 ... ok [time:0] + TestGravityAcceleration ... ok [time:1] + Transpose2 ... ok [time:0] + Transpose ... ok [time:0] + TrigIdentity ... ok [time:0] + tupleSubset ... ok [time:0] + TupleSingleAssign ... ok [time:1] + Type10 ... ok [time:0] - Type1 ... ok [time:0] - Type3 ... ok [time:0] + Type4 ... ok [time:0] + Type5 ... ok [time:0] + Type6 ... ok [time:0] - Type7 ... ok [time:0] - Type8 ... ok [time:1] + Type9 ... ok [time:0] + TypeArray ... ok [time:0] + TypeClass1 ... ok [time:0] - TypeClass2 ... ok [time:0] + TypeDeclArray ... ok [time:0] + TypeEnumeration ... ok [time:0] + TypeSimple ... ok [time:0] - Units2 ... ok [time:0] + UnusedInput ... ok [time:1] + UsertypeModifications ... ok [time:0] + VectorBuiltin ... ok [time:0] + VectorDimension ... ok [time:0] + Vectorizable1 ... ok [time:0] + Vectorizable2 ... ok [time:0] + Vectorizable3 ... ok [time:0] + Vectorizable4 ... ok [time:0] + Vectorizable5 ... ok [time:1] + Vectorizable6 ... ok [time:0] + VectorizeExtendedType ... ok [time:0] + VectorizeUnknownDim ... ok [time:0] + VectorTest ... ok [time:0] + WaveEquationSample ... ok [time:0] - WhenElseNested ... ok [time:0] - WhenNested ... ok [time:0] - WhenNestedEquation ... ok [time:1] + WhenSemantics1 ... ok [time:0] + While ... ok [time:0] + WillowForest ... ok [time:0] == 7 out of 614 tests failed [mofiles, time: 80] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles-msl22' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + avg ... ok [time:2] + BacklashTest ... ok [time:3] + Blocks Sources ... ok [time:10] + Circuit1 ... ok [time:2] + DCMotor (Blocks) ... ok [time:2] + DCMotorDeadzone ... ok [time:3] + DCMotor (Rotational) ... ok [time:3] + ElasticBearing ... ok [time:3] + First ... ok [time:3] + FuncCross ... ok [time:2] + IdealGear ... ok [time:3] + IdealGearBrake ... ok [time:3] + InputOutput ... ok [time:2] + InitTest ... ok [time:2] + MatrixTest ... ok [time:2] + NonLinSystems ... ok [time:9] + Shaft ... ok [time:3] + Simulation2 ... ok [time:4] + SineAccelerate ... ok [time:2] + SineSpeed ... ok [time:3] + SineTorque ... ok [time:3] + SineTorque2inertias ... ok [time:3] + SpringMass ... ok [time:3] + StepTorque ... ok [time:3] + Tank ... ok [time:3] + Test3Test3PhaseInit ... ok [time:2] + Test3PhaseInitParam ... ok [time:2] + Test3PhaseInitOver ... ok [time:2] + Test3PhaseStart ... ok [time:2] + TimeVaryingLinsys ... ok [time:2] + TrapezoidTest ... ok [time:3] + tupleTest ... ok [time:2] + WeakAxis ... ok [time:2] == 0 out of 33 tests failed [mosfiles-msl22, time: 100] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles-msl22' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles-nosim' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Array1 ... ok [time:0] + BaseClass1 ... ok [time:0] + cat ... ok [time:0] + ComplexConnect ... ok [time:0] + EnzMM ... ok [time:0] + ErrorFunctionCallNumArgs ... ok [time:0] + Extends Order ... ok [time:0] + External Function: Result Order ... ok [time:4] + ExternalLibraryFunction ... ok [time:2] + FinalTests ... equation mismatch [time:1] ==== Log /tmp/omc-rtest-adrpo/mosfiles-nosim/log-FinalTests.mos true "" "Error: trying to override final variable in class: test1 by using modifiers: ( = 10, = final 1.123456) that do not agree. [FinalTests.mo:3:3-3:49:writable] Warning: Component: p_finalPrefix5 with no default value! This might happen if you are using a constant with no binding as a modifier. Error: trying to override final variable in class: test1 by using modifiers: ( = 10, = final 1.123456) that do not agree. Error: Error occured while flattening model test1 " "" "[FinalTests.mo:27:3-27:23:writable] Error: Variable a1: trying to override final variable in class: test2 by using modifiers: ( = "deg", = final "rad") that do not agree. [FinalTests.mo:27:3-27:23:writable] Error: Variable a1: trying to override final variable in class: Real by using modifiers: a1( = "deg", = final "rad") that do not agree. Error: Error occured while flattening model test2 " "" "Error: trying to override final variable in class: PI by using modifiers: c2( = {33}, = final {c2.k * c2.T,c2.k}) that do not agree. Error: Error occured while flattening model test3 " Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/mosfiles-nosim/equations-expected 2011-09-24 04:11:24 +0200 +++ /tmp/omc-rtest-adrpo/mosfiles-nosim/equations-got 2011-09-24 04:11:25 +0200 @@ -1,10 +1,10 @@ true "" "Error: trying to override final variable in class: test1 by using modifiers: ( = 10, = final 1.123456) that do not agree. -Error: Error occured while flattening model test1 +[FinalTests.mo:3:3-3:49:writable] Warning: Component: p_finalPrefix5 with no default value! This might happen if you are using a constant with no binding as a modifier. Error: trying to override final variable in class: test1 by using modifiers: ( = 10, = final 1.123456) that do not agree. Error: Error occured while flattening model test1 " "" Equation mismatch: omc-diff says: Line 5: Text differs: expected: Error: Error occured while flattening model test got: [FinalTests.mo: + FuncNamespace ... ok [time:0] + GroupImport ... ok [time:0] + Integer Multiplication Overflow ... ok [time:0] + Integer Power Overflow ... ok [time:0] + Integer Division Overflow ... ok [time:0] + Integer Add/Sub Overflow ... ok [time:0] + LookupBuiltin ... ok [time:0] + LookupPackageFail ... ok [time:0] + Model1.mos Test for BUG 1238 ... ok [time:5] + Model2.mos Test for BUG 1238 ... ok [time:4] + ModifierVariabilityError ... ok [time:0] + Not basic type ... ok [time:0] + Not basic type 2 ... ok [time:1] + OverloadingFunc ... ok [time:0] + Return ... ok [time:0] + SolveLinearSystem ... ok [time:0] + TestLoadModel ... ok [time:1] + Unparsing of operator precedence ... ok [time:0] + UnusedVariable ... ok [time:0] + UriLookup ... ok [time:0] + While-statement ... ok [time:1] - While-statement Illegal ... ok [time:1] + ModifiersProblem ... ok [time:0] + TransformerYY ... ok [time:0] + AIMC_DOL ... ok [time:0] + Check model with zero dimension arrays. ... ok [time:0] + ZeroRange ... ok [time:0] == 1 out of 37 tests failed [mosfiles-nosim, time: 24] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles-nosim' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + ABCDsystem.plt ... ok [time:1] + ABCDsystem.csv ... ok [time:1] + ABCDsystem.csv ... ok [time:2] + AliasEquations ... ok [time:2] + AlgorithmArrayEqn ... ok [time:1] + AlgorithmCondAssign1 ... ok [time:2] + AlgorithmCondAssign2 ... ok [time:2] + AlgorithmForInClass ... ok [time:1] + AlgorithmSection ... ok [time:2] + Algorithms ... ok [time:4] + ArrayAddSub1 ... ok [time:2] + ArrayDivError ... ok [time:0] + ArrayExponentiation ... ok [time:2] + ArrayEquation ... ok [time:2] + ArrayMult ... ok [time:1] + ArrayReduce ... ok [time:2] + ArrayParameterSize ... ok [time:0] + ArraySlice ... ok [time:2] + AsubCrefExpType ... ok [time:1] + ASubIfExp ... ok [time:2] + BooleanArray ... ok [time:2] + BouncingBall ... ok [time:1] + BouncingBall2.mos ... ok [time:2] + BouncingBall from Examples ... ok [time:3] + BuiltinMath ... ok [time:2] + CheckEvents ... ok [time:2] + ComplexNumbers.mos ... ok [time:1] + ComplexTypeEquationCount ... ok [time:0] + ConstructFunc ... ok [time:2] + Cross ... ok [time:2] + CyclicPerm ... ok [time:0] + Delay ... ok [time:2] + DAEexample ... ok [time:1] + DAEexample2 ... ok [time:2] + dertest ... ok [time:2] + DimConvert ... ok [time:1] + DiscreteVectorStateSpace ... ok [time:1] + DoubleWhenConflict ... ok [time:0] + DoubleWhenSequential ... ok [time:1] + Test Bug #1617 ... ok [time:2] + EnumArray ... ok [time:1] + Epidemics1 ... ok [time:1] + EquationCallIntegerArray ... ok [time:2] + EqualityEquations ... ok [time:1] + EqualityEquationsCorrect ... ok [time:1] + EventDelay ... ok [time:2] + EventIteration ... ok [time:2] + EventTest ... ok [time:1] + Extends Basic ... ok [time:2] + ExternalLibraries ... ok [time:2] + ExternalObject ... ok [time:2] + External Object with String parameter input ... ok [time:3] + FiveForEquations ... ok [time:2] + FinalPropagation.mos [BUG https://openmodelica.org:8443/cb/issue/1488] ... ok [time:0] + FlatTank ... ok [time:2] + ForIterator1 ... ok [time:2] + FrameTest ... ok [time:2] + FuncDer ... ok [time:2] + FunctionIndirectRecursion ... ok [time:1] + FunctionIndirectRecursion2 ... ok [time:0] + FunctionInReinit ... ok [time:1] + HeatTank ... ok [time:0] + HeatTankExpanded ... ok [time:2] + HideVariableForEquations ... ok [time:2] + HydrogenIodide ... ok [time:1] + Identity Matrix ... ok [time:2] + IdealDiode ... ok [time:2] + IfEquation ... ok [time:2] + IfEquation2 ... ok [time:1] + IfEquation3 ... ok [time:2] + Initialization ... ok [time:5] + InitialConstantSection ... ok [time:1] + InlineSolverCodeGenerationEuler ... ok [time:2] + InlineSolverCodeGenerationRK ... ok [time:3] + Interpolation ... ok [time:1] + String array arguments ... ok [time:5] + Record arguments ... ok [time:3] + Bouncing Ball (Quoted identifiers using Japanese UTF-8 characters) ... ok [time:2] + HelloWorld ... ok [time:1] + LinearSysEq (test bug 1012) ... ok [time:2] + LocalVariableInit ... ok [time:2] + LotkaVolterra ... ok [time:1] + Test fixes of bug 180 ... ok [time:4] + MeasureTime ... ok [time:2] + MissV (test bug 1110) ... ok [time:1] + ModelicaUtilities ... ok [time:2] + MyPointsInst1 ... ok [time:1] + MyPointsInst2 ... ok [time:2] + ModelBalance1 ... ok [time:1] + ModelBalance2 ... ok [time:0] + ModelBalance3 ... ok [time:0] + nonConstantIndex ... ok [time:2] + nonConstantParam ... ok [time:2] + NonlinearFailed ... ok [time:1] + NonlinearMixed ... ok [time:2] + OneArgBaseFunction.mos ... ok [time:2] + Pendulum ... ok [time:2] + PolynomialEvaluatorA ... ok [time:1] + PolynomialEvaluatorB ... ok [time:2] + PolynomialEvaluator1.mos ... ok [time:2] + PolynomialEvaluator2.mos ... ok [time:1] + PolynomialEvaluator3.mos ... ok [time:2] + PreAndAliasedVar ... ok [time:1] + Random.mos ... ok [time:4] + Reductions ... ok [time:2] + Ricatti ... ok [time:2] + Sample1 ... ok [time:1] + Sample2 ... ok [time:2] + Sample3 ... ok [time:2] + SemiLinear ... ok [time:1] + Sign ... ok [time:2] + SimplePeriodicSampler ... ok [time:2] + SimResultScripting ... ok [time:1] + Simulation ... ok [time:2] + SliceAssignment ... ok [time:2] + StepAdvanced ... ok [time:1] + StringTest ... ok [time:2] + SumSeriesWhile ... ok [time:2] + SyncFilter ... ok [time:4] + Switch ... ok [time:2] + Tank ... ok [time:2] + TankPI ... ok [time:1] + TankPID ... ok [time:2] + TankHybridPID ... ok [time:2] + TankHybridPI ... ok [time:2] + TanksConnectedPI ... ok [time:2] + terminal ... ok [time:1] + tempInterpol2test ... ok [time:2] + TestLapack [BUG: 1370 https://openmodelica.org:8443/cb/issue/1370] ... ok [time:2] + TestSolve ... ok [time:1] + Time ... ok [time:2] + TupleReturn ... ok [time:2] + TwoRateSampler ... ok [time:1] + val ... ok [time:2] + VariableFilter ... ok [time:2] + VectorizeOneReturnValue ... ok [time:1] + WatchDog1AlgorithmWhen ... ok [time:1] + WatchDog2EquationWhen ... ok [time:2] + WhenEquation ... ok [time:2] + WhenEquation1 ... ok [time:1] + WhenPriority ... ok [time:2] + when-sorting ... ok [time:1] + WhenStatement1 ... ok [time:2] + WhenStatement2 ... ok [time:2] + WhenStatement3 ... ok [time:2] + when-statements ... ok [time:1] + Xpowers1 ... ok [time:2] + Xpowers2 ... ok [time:2] + Xpowers3 ... ok [time:1] + ZeroCrossing in algorithm for loop ... ok [time:2] == 1 out of 150 tests failed [mosfiles, time: 261] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mosfiles' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles/msl' Running tests: + BC1 - Der component ... ok [time:0] + BC2 - Derivative component ... ok [time:0] + BC3 - FirstOrder component ... ok [time:0] + BC4 - Integrator component ... ok [time:0] + BC5 - LimIntegrator component ... ok [time:0] + BC6 - LimPID component ... ok [time:0] + BC7 - PI component ... ok [time:0] + BC8 - PID component ... ok [time:0] + BC9 - SecondOrder component ... ok [time:0] + BC10 - StateSpace component ... ok [time:0] + BC11 - TransferFunction component ... ok [time:0] + BS1 - Clock component ... ok [time:0] + BS2 - Constant component ... ok [time:0] + BS3 - ExpSine component ... ok [time:0] + BS4 - Exponentials component ... ok [time:0] + BS5 - KinematicPTP component ... ok [time:0] + BS6 - Pulse component ... ok [time:0] + BS7 - Ramp component ... ok [time:0] + BS8 - SawTooth component ... ok [time:0] + BS9 - Sine component ... ok [time:0] + BS10 - Step component ... ok [time:0] + BS11 - TimeTable component ... ok [time:0] + BS12 - Trapetzoid component ... ok [time:0] + BS13 - IntegerConstant component ... ok [time:0] + BS14 - IntegerStep component ... ok [time:0] + BS15 - BooleanConstant component ... ok [time:0] + BS16 - BooleanPulse component ... ok [time:0] + BS17 - BooleanStep component ... ok [time:0] + BN1 - DeadZone component ... ok [time:0] + BN2 - Limiter component ... ok [time:0] + BN3 - VariableLimiter component ... ok [time:0] + BM1 - Abs component ... ok [time:1] + BM2 - Acos component ... ok [time:0] + BM3 - Add component ... ok [time:0] + BM4 - Add3 component ... ok [time:0] + BM5 - Asin component ... ok [time:0] + BM6 - Atan component ... ok [time:0] + BM7 - Atan2 component ... ok [time:0] + BM8 - Cos component ... ok [time:0] + BM9 - Cosh component ... ok [time:0] + BM10 - Division component ... ok [time:0] + BM11 - Exp component ... ok [time:0] + BM5 - Feedback component ... ok [time:0] + BM13 - Gain component ... ok [time:0] + BM14 - Log component ... ok [time:0] + BM15 - Log10 component ... ok [time:0] + BM16 - MatrixGain component ... ok [time:1] + BM17 - Max component ... ok [time:0] + BM18 - Min component ... ok [time:0] + BM19 - Product component ... ok [time:0] + BM20 - Sign component ... ok [time:0] + BM21 - Sin component ... ok [time:0] + BM22 - Sinh component ... ok [time:0] + BM23 - Sqrt component ... ok [time:0] + BM24 - Sum component ... ok [time:0] + BM25 - Tan component ... ok [time:0] + BM26 - Tanh component ... ok [time:0] + BM27 - TwoInputs component ... ok [time:0] + BM28 - TwoOutputs component ... ok [time:0] + Gear - Complete example with Gear ... ok [time:0] == 0 out of 60 tests failed [msl, time: 8] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/mofiles/msl' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + AIMC_DOL ... ok [time:2] + AIMC_Inverter ... ok [time:1] + AIMC_YD ... ok [time:1] + AIMS_start ... ok [time:2] + Accelerate ... ok [time:1] + BusUsage ... ok [time:1] + CauerLowPassAnalog ... ok [time:1] + CauerLowPassOPV ... ok [time:1] + CauerLowPassSC ... ok [time:1] + CharacteristicIdealDiodes ... ok [time:2] + CharacteristicThyristors ... ok [time:1] + ChuaCircuit ... ok [time:1] + ControlledTanks ... ok [time:1] + CoupledClutches ... ok [time:1] + DCEE_start ... ok [time:1] + DCPM_start ... ok [time:1] + DCSE_start ... ok [time:2] + Damper ... ok [time:1] + DifferentialAmplifier ... ok [time:3] + ElasticBearing ... ok [time:1] + EnforcedMovement ... ok [time:0] + ExecutionPaths ... ok [time:1] + ExtractorTest ... ok [time:0] + First ... ok [time:1] + FirstExample ... ok [time:1] + FirstExample_Variant2 ... ok [time:1] + FirstExample_Variant3 ... ok [time:1] + Friction ... ok [time:1] + HeatingMOSInverter ... ok [time:1] + HeatingRectifier ... ok [time:1] + IndirectCooling ... ok [time:2] + InitialConditions ... ok [time:1] + LogicalNetwork1 ... ok [time:1] + LossyGearDemo1 ... ok [time:1] + LossyGearDemo2 ... ok [time:1] + MotionCycleWithLoad ... ok [time:0] + Motor ... ok [time:1] + NandGatee ... ok [time:2] + OneMass ... ok [time:1] + OneWayRectifier ... ok [time:1] + OneWayRectifierBG ... ok [time:0] + Oscillator ... ok [time:1] + PID_Controller ... ok [time:1] + ParallelCooling ... ok [time:1] + ParallelPumpDropOut ... ok [time:1] + PreLoad ... ok [time:1] + PullinStroke ... ok [time:0] + PumpAndValve ... ok [time:1] + PumpDropOut ... ok [time:1] + Rectifier ... ok [time:1] + SMEE_Gen ... ok [time:1] + SMPM_Inverter ... ok [time:2] + SMR_Inverter ... ok [time:1] + Sensors ... ok [time:1] + ShowCompositeStep ... ok [time:1] + ShowExceptions ... ok [time:1] + ShowLogicalSources ... ok [time:1] + ShowSaturatingInductor ... ok [time:1] + ShowVariableResistor ... ok [time:1] + SignConvention ... ok [time:1] + SimpleCooling ... ok [time:1] + TestNand ... ok [time:7] + TransformerYD ... ok [time:1] + TransformerYY ... ok [time:1] + TwoMass ... ok [time:1] + TwoMasses ... ok [time:1] + WhyArrows ... ok [time:1] == 0 out of 67 tests failed [msl221, time: 82] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221/modelicaAdditions' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + ModelicaAdditions.MultiBody.Examples.Engine1.mos ... ok [time:2] + ModelicaAdditions.MultiBody.Examples.Engine2 ... ok [time:1] + ModelicaAdditions.MultiBody.Examples.Loops.FourBar1 ... ok [time:1] + ModelicaAdditions.MultiBody.Examples.Loops.FourBar2 ... ok [time:2] + ModelicaAdditions.MultiBody.Examples.Loops.TwoLoop ... ok [time:2] + ModelicaAdditions.MultiBody.Examples.Robots.r3.robot ... ok [time:5] == 0 out of 6 tests failed [modelicaAdditions, time: 13] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221/modelicaAdditions' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221' make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221/Mechanics' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Accelerate2 ... ok [time:5] + Damper2 ... ok [time:15] + ElasticBearing2 ... ok [time:17] + First2 ... ok [time:16] + Oscillator2 ... ok [time:15] + Sensors2 ... ok [time:10] + SignConvention2 ... ok [time:7] + WhyArrows2 ... ok [time:10] == 0 out of 8 tests failed [Mechanics, time: 95] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221/Mechanics' make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl221' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica.Blocks [version 3.1] ... ok [time:7] + Modelica.Electrical.Analog [version 3.1] ... ok [time:22] + Modelica.Electrical.Digital [version 3.1] ... ok [time:36] + Modelica.Electrical.Machines.Examples [version 3.1] ... ok [time:20] + Modelica.Electrical.MultiPhase.Examples [version 3.1] ... ok [time:5] + Modelica.Magnetic.FluxTubes [version 3.1] ... ok [time:16] + Modelica.Math [version 3.1] ... ok [time:6] + Modelica.Math.Matrices [Lapack] ... ok [time:5] + Modelica.Math.Matrices.LAPACK [version 3.1] ... ok [time:14] + Modelica.Mechanics [version 3.1] ... ok [time:2] + Modelica.Mechanics.MultiBody [version 3.1] ... ok [time:6] + Modelica.Thermal [version 3.1] ... ok [time:3] + Modelica.Utilities [version 3.1] ... ok [time:3] == 0 out of 13 tests failed [msl31, time: 146] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31/media' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica.Media.Air.SimpleAir [version 3.1] ... ok [time:2] + Modelica.Media.Examples.IdealGasH2O [version 3.1] ... ok [time:3] + Modelica.Media.Examples.MixtureGases [version 3.1] ... ok [time:5] + Modelica.Media.Examples.MoistAir [version 3.1] ... ok [time:3] + Modelica.Media.Examples.SimpleLiquidWater [version 3.1] ... ok [time:3] + Modelica.Media.Examples.SolveOneNonlinearEquation.Inverse_sh_T [version 3.1] ... ok [time:3] + Modelica.Media.Examples.SolveOneNonlinearEquation.Inverse_sine [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TestOnly.FlueGas [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TestOnly.IdealGasN2Mix [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TestOnly.IdealGasN2 [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TestOnly.MixIdealGasAir [version 3.1] ... ok [time:4] + Modelica.Media.Examples.TestOnly.N2AsMix [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TestOnly.MixIdealGasAir [version 3.1] ... ok [time:2] + Modelica.Media.Examples.Tests.Components [version 3.1] ... ok [time:8] + Modelica.Media.Examples.Tests.MediaTestModels.Air.DryAirNasa [version 3.1] ... ok [time:4] + Modelica.Media.Examples.Tests.MediaTestModels.Air.SimpleAir [version 3.1] ... ok [time:4] + Modelica.Media.Examples.Tests.MediaTestModels.IdealGases.Air [version 3.1] ... ok [time:4] + Modelica.Media.Examples.Tests.MediaTestModels.IdealGases.Nitrogen [version 3.1] ... ok [time:4] + Modelica.Media.Examples.Tests.MediaTestModels.IdealGases.SimpleNaturalGasFixedComposition [version 3.1]... ok [time:7] + Modelica.Media.Examples.Tests.MediaTestModels.LinearFluid.LinearColdWater [version 3.1]... ok [time:4] + Modelica.Media.Examples.Tests.MediaTestModels.LinearFluid.LinearWater_pT [version 3.1]... ok [time:7] + Modelica.Media.Examples.Tests.MediaTestModels.Water.IdealSteam [version 3.1] ... ok [time:5] + Modelica.Media.Examples.Tests.MediaTestModels.Water.WaterIF97OnePhase_ph [version 3.1]... ok [time:7] + Modelica.Media.Examples.Tests.MediaTestModels.Water.WaterIF97_ph [version 3.1] ... ok [time:8] + Modelica.Media.Examples.Tests.MediaTestModels.Water.WaterIF97_pT [version 3.1] ... ok [time:6] + Modelica.Media.Examples.TwoPhaseWater [version 3.1] ... ok [time:3] + Modelica.Media.Examples.TwoPhaseWater.TestTwoPhaseStates.mos [version 3.1] ... ok [time:4] + Modelica.Media.Examples.WaterIF97 [version 3.1] ... ok [time:5] + Modelica.Media.Incompressible.Examples.Glycol47 [version 3.1] ... ok [time:3] + Modelica.Media.Incompressible.Examples.TestGlycol [version 3.1] ... ok [time:3] + Modelica.Media.Water.StandardWater [version 3.1] ... ok [time:3] == 0 out of 31 tests failed [media, time: 130] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31/media' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31/simulate' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Simulate Modelica.Blocks.Examples [version 3.1] ... ok [time:4] + Modelica.Blocks.Examples.BusUsage ... ok [time:4] + Modelica.Blocks.Examples.InverseModel ... ok [time:4] + Modelica.Blocks.Examples.LogicalNetwork1 ... ok [time:4] + Modelica.Blocks.Examples.ShowLogicalSources ... ok [time:5] + Modelica.Electrical.Analog.Examples.CauerLowPassAnalog ... ok [time:4] + Modelica.Electrical.Analog.Examples.ChuaCircuit ... ok [time:4] + Modelica.Electrical.Analog.Examples.NandGate ... ok [time:4] + Modelica.Electrical.Machines.Examples.TransformerTestbench ... ok [time:7] + Modelica.Mechanics.MultiBody.Examples.Elementary.DoublePendulum ... ok [time:21] + Modelica.Mechanics.MultiBody.Examples.Elementary.InitSpringConstant ... ok [time:19] + Modelica.Mechanics.MultiBody.Examples.Elementary.Pendulum ... ok [time:15] + Modelica.Mechanics.MultiBody.Examples.Elementary.RollingWheelSetDriving ... ok [time:32] + Modelica.Mechanics.MultiBody.Examples.Elementary.RollingWheelSetPulling ... ok [time:32] + Modelica.Mechanics.MultiBody.Examples.Elementary.SpringMassSystem ... ok [time:21] + Modelica.Mechanics.Rotational.Examples.RollingWheel ... ok [time:4] + Modelica.Mechanics.Translational.Examples.Accelerate ... ok [time:4] + Modelica.Mechanics.Translational.Examples.Brake ... ok [time:4] + Modelica.Mechanics.Translational.Examples.Damper ... ok [time:4] + Modelica.Mechanics.Translational.Examples.InitialConditions ... ok [time:4] + Modelica.Mechanics.Translational.Examples.SignConvention ... ok [time:4] + Modelica.Mechanics.Translational.Examples.WhyArrows ... ok [time:4] + Modelica.Thermal.FluidHeatFlow.Examples.OneMass ... ok [time:5] + Modelica.Math.Matrices.norm ... ok [time:4] == 0 out of 24 tests failed [simulate, time: 217] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/msl31/simulate' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody' /usr/bin/make -C elementary -f Makefile test > elementary.log /usr/bin/make -C loops -f Makefile test > loops.log /usr/bin/make -C rotational3deffects -f Makefile test > rotational3deffects.log /usr/bin/make -C systems -f Makefile test > systems.log /usr/bin/make -C checkingModels -f Makefile test > checkingModels.log make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/elementary' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.DoublePendulum ... ok [time:7] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.ForceAndTorque ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.FreeBody ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.InitSpringConstant ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.LineForceWithTwoMasses ... ok [time:5] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.Pendulum ... ok [time:4] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.PendulumWithSpringDamper ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.PointGravity ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.PointGravityWithPointMasses2 ... ok [time:6] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.PointGravityWithPointMasses ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.RollingWheel ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.RollingWheelSetDriving ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.RollingWheelSetPulling ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.SpringDamperSystem ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.SpringMassSystem ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.SpringWithMass ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Elementary.ThreeSprings ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.World ... ok [time:1] == 0 out of 18 tests failed [elementary, time: 57] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/elementary' make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/loops' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Engine1a ... ok [time:5] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Engine1b ... ok [time:4] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Engine1b_analytic ... ok [time:6] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Fourbar1 ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Fourbar2 ... ok [time:3] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.Fourbar_analytic ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.PlanarLoops_analytic ... ok [time:11] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.EngineV6 [instantiation] ... ok [time:10] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.EngineV6_analytic [instantiation] ... ok [time:18] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.EngineV6 [checkModel] ... ok [time:12] + Modelica3.x.Mechanics.MultiBody.Examples.Loops.EngineV6_analytic [checkModel] ... ok [time:19] == 0 out of 11 tests failed [loops, time: 96] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/loops' make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/rotational3deffects' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica3.x.Mechanics.MultiBody.Examples.Rotational3DEffects.GyroscopicEffects ... ok [time:4] + Modelica3.x.Mechanics.MultiBody.Examples.Rotational3DEffects.ActuatedDrive ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Rotational3DEffects.MovingActuatedDrive ... ok [time:2] + Modelica3.x.Mechanics.MultiBody.Examples.Rotational3DEffects.GearConstraint ... ok [time:2] == 0 out of 4 tests failed [rotational3deffects, time: 11] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/rotational3deffects' make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/systems' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica3.x.Mechanics.MultiBody.Examples.Systems.RobotR3 ... ok [time:14] == 0 out of 1 tests failed [systems, time: 15] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/systems' make[3]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/checkingModels' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Modelica3.x.Mechanics.MultiBody.Parts.BodyCylinder ... ok [time:6] == 0 out of 1 tests failed [checkingModels, time: 6] make[3]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody/checkingModels' make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/libraries/multibody' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/parser' Running tests... + IntegerLiterals (32-bit) ... ok [time:0] - Assign1 ... ok [time:0] - Assign2 ... ok [time:0] - Assign3 ... ok [time:0] - Assign4 ... ok [time:0] + Check Compiler sources for tabs ... equation mismatch [time:1] ==== Log /tmp/omc-rtest-adrpo/parser/log-CheckSourcesForTabs.mos 0 "Found tabs in the source: Compiler/{BackEnd,FrontEnd,Main,Script,Util}/*.mo" bash: -c: line 0: unexpected EOF while looking for matching ``' bash: -c: line 1: syntax error: unexpected end of file 0 "Found tabs in the source: ../../Compiler/modpar/*.{cpp,hpp} ../../Compiler/runtime/*.{cpp,c,h,hpp} c_runtime/{*/,}*.{cpp,c,h}" 0 "Found tabs in the source: OMShell/*.{cpp,h} OMNotebook/*/*.{cpp,h,hpp} OMEdit/OMEditGUI/*.{cpp,h}" Equation mismatch: diff says: --- /tmp/omc-rtest-adrpo/parser/equations-expected 2011-09-24 04:06:40 +0200 +++ /tmp/omc-rtest-adrpo/parser/equations-got 2011-09-24 04:06:41 +0200 @@ -1,6 +1,8 @@ 0 -"OK" +"Found tabs in the source: Compiler/{BackEnd,FrontEnd,Main,Script,Util}/*.mo" +bash: -c: line 0: unexpected EOF while looking for matching ``' +bash: -c: line 1: syntax error: unexpected end of file 0 -"OK" +"Found tabs in the source: ../../Compiler/modpar/*.{cpp,hpp} ../../Compiler/runtime/*.{cpp,c,h,hpp} c_runtime/{*/,}*.{cpp,c,h}" 0 -"OK" +"Found tabs in the source: OMShell/*.{cpp,h} OMNotebook/*/*.{cpp,h,hpp} OMEdit/OMEditGUI/*.{cpp,h}" Equation mismatch: omc-diff says: Line 2: Text differs: expected: "OK" got: "Found tabs in the source: Compiler/{BackEnd,FrontEnd,Main,Script,Util}/*.mo" - Class3 ... ok [time:0] - Class4 ... ok [time:0] + Code (3.2) ... ok [time:0] - ConstructParameters1 ... ok [time:0] - Declaration1 ... ok [time:0] - Declaration2 ... ok [time:0] - Declaration3 ... ok [time:0] + DocumentationBackslash ... ok [time:0] + DotName ... ok [time:0] + EmptyWithin ... ok [time:0] - Identifier ... ok [time:0] - IfElseIf ... ok [time:0] + MetaModelicaMatchElse ... ok [time:0] - MetaModelicaStringOpModelicaLexer ... ok [time:0] - MissingSemicolon ... ok [time:0] - ModifyConstant3 ... ok [time:0] + OptionalOutput ... ok [time:0] + ParseCompiler/Sources ... ok [time:23] + ParseElementReplaceable ... ok [time:0] - ParseError1 ... ok [time:0] - ParseError2 ... ok [time:0] - ParseError3 ... ok [time:0] + ParseFullModelica1.6 ... ok [time:1] + ParseFullModelica2.2.1 ... ok [time:2] + ParseFullModelica3.1 ... ok [time:4] + ParseFullModelica3.2 ... ok [time:6] + ParseString ... ok [time:0] - RealOpLexerModelica ... ok [time:0] + RealOpLexerMetaModelica ... ok [time:0] + Redeclare ... ok [time:1] - SimpleIntegrator4 ... ok [time:0] + WildLexerModelica ... ok [time:0] - WildLexerMetaModelica ... ok [time:0] + ParseModel-WriteModel-ParseModel ... ok [time:0] == 1 out of 40 tests failed [parser, time: 42] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/parser' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/records' Running tests... OPENMODELICAHOME= C:\bin\cygwin\home\adrpo\dev\OpenModelica/build + Record Derived 1 ... ok [time:0] + Record Derived 2 ... ok [time:0] + Empty Record Constructor ... ok [time:1] + Empty Record Input ... ok [time:0] + Simple Record Constructor ... ok [time:1] + Simple Record Input ... ok [time:0] + Record-in-Record Constructor ... ok [time:2] + Record-in-Record Input ... ok [time:1] + Record Modifications ... ok [time:0] + Record Constructor with Parameters ... ok [time:0] + Record Variability ... ok [time:0] + RecordFuncParam ... ok [time:0] + RecordFuncParam ... ok [time:1] == 0 out of 13 tests failed [records, time: 7] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/records' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/redeclare' Running tests... + ClassExtends1 ... ok [time:0] + ClassExtends2 ... ok [time:0] + ClassExtends3 ... ok [time:0] + ClassExtends4 ... ok [time:0] + ClassExtends4 ... ok [time:0] - ClassExtendsInvalid1 ... ok [time:0] - ClassExtendsInvalid2 ... ok [time:0] - ConstantRedeclareModifier ... ok [time:0] - DuplicateRedeclares1 ... ok [time:0] - DuplicateRedeclares2 ... ok [time:0] - FinalRedeclareModifier ... ok [time:1] + FinalRedeclareModifier2 ... ok [time:0] + Redeclare1 ... ok [time:0] + Redeclare2 ... ok [time:0] + Redeclare3 ... ok [time:0] + Redeclare4 ... ok [time:0] + Redeclare5 ... ok [time:0] + RedeclareBaseClass1 ... ok [time:0] - RedeclareFlowEffort ... ok [time:0] + RedeclareFunction (Bug1432) ... execution failed ==== Log /tmp/omc-rtest-adrpo/redeclare/log-RedeclareFunction.mo Error processing file: RedeclareFunction.mo Error: Variable RedeclareFunction.b in package RedeclareFunction is not constant [RedeclareFunction.mo:16:13-16:27:writable] Error: Variable RedeclareFunction.b not found in scope RedeclareFunction.B.A2.f # Error encountered! Exiting... # Please check the error message and the flags. Execution failed! + RedeclareFunction1 ... ok [time:0] - RedeclareModifierInvalid1 ... ok [time:0] - RedeclareModifierInvalid2 ... ok [time:0] - RedeclareVisibility ... ok [time:0] - RedeclareVisibility2 ... ok [time:0] == 1 out of 25 tests failed [redeclare, time: 3] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/redeclare' make[2]: Entering directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/streams' Running tests: + ActualStream ... ok [time:1] + InStreamInsideOutside ... ok [time:0] - InStreamInvalidArgument ... ok [time:0] + InStreamTwoInside ... ok [time:0] + InStreamTwoInside ... ok [time:0] + InStreamTwoOutside ... ok [time:0] + InStreamUnconnected ... ok [time:0] + StreamConcept_NoMedium_Total.mo ... ok [time:0] - StreamUnbalancedConnector ... ok [time:1] + ActualStreamCodeGen ... ok [time:1] == 0 out of 10 tests failed [streams, time: 3] make[2]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite/streams' make[1]: Leaving directory `/c/bin/cygwin/home/adrpo/dev/OpenModelica/testsuite' real 33m16.741s user 0m48.143s sys 1m30.051s