Local sim results sometimes appear with error

lesloew commented 6 months ago

I only observed thie following on Alpha 7.5.110 on win: when the local ODE or stochastic non-spatial sims finish and the results appear, I sometimes get the following:

RuntimeException-Failed to determine metadata for data symbols: Cannot assign field "color" because "this.root" is null NullPointerException-Cannot assign field "color" because "this.root" is null

jcschaff commented 6 months ago

please paste in the stack trace from your .vcell/logs/vcell_alpha.log

lesloew commented 6 months ago

Attention: This is an external email. Use caution responding, opening attachments or clicking on links. attached

From: Jim Schaff @.> Sent: Monday, March 11, 2024 12:36 PM To: virtualcell/vcell @.> Cc: Loew,Leslie M. @.>; Author @.> Subject: Re: [virtualcell/vcell] Local sim results sometimes appear with error (Issue #1185)

Attention: This is an external email. Use caution responding, opening attachments or clicking on links.

please paste in the stack trace from your .vcell/logs/vcell_alpha.log

— Reply to this email directly, view it on GitHubhttps://urldefense.com/v3/__https:/github.com/virtualcell/vcell/issues/1185*issuecomment-1988879660__;Iw!!Cn_UX_p3!nK3KJpr0jnDRDHdaXvWx0t0xx2e2hVOD-x5kNYequtLRmLJ9zfh4VlSnJUd4gQZ89v0M0tWHm0v5d4J6Q9O8$, or unsubscribehttps://urldefense.com/v3/__https:/github.com/notifications/unsubscribe-auth/AZNOKMH5KM5LQDUIMDG6X3LYXXTQTAVCNFSM6AAAAABEQOXOV6VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMYTSOBYHA3TSNRWGA__;!!Cn_UX_p3!nK3KJpr0jnDRDHdaXvWx0t0xx2e2hVOD-x5kNYequtLRmLJ9zfh4VlSnJUd4gQZ89v0M0tWHm0v5dx2S-1C0$. You are receiving this because you authored the thread.Message ID: @.**@.>>

lesloew commented 6 months ago

Attention: This is an external email. Use caution responding, opening attachments or clicking on links. After setting, we're using: Windows ERROR: button with actionCommand select not found Down. Factor is -1 Down. Factor is -2 SpeciesContextSpecParameterTableModel: artifically filtering out membrane diffusion parameters and diffusion/bc's that are not applicable SpeciesContextSpecParameterTableModel: artifically filtering out membrane diffusion parameters and diffusion/bc's that are not applicable Down. Factor is -1 Down. Factor is -2 Down. Factor is -3 ReactionCartoonEditorPanel, setViewMode ReactionCartoonMolecule, RefreshAll() ReactionCartoonRule, RefreshAll() Reentrant Reentrant Reentrant ClientDocumentManager.initAllDatabaseInfos() ClientDocumentManager.getPreferences() Reentrant Reentrant Reentrant

4.5E-4 10.0 4.5E-4 10.0 4.4931658939495066E-4 10.0 4.4931658939495066E-4 10.0 1000.0 10.0 1000.0 0.0 1000.0 10.0 1000.0 0.0 4.493165893949507E-4 0.0 4.493165893949507E-4 0.0

ClientDocumentManager.cacheSimulations() has been disabled until needed ReactionCartoonMolecule, RefreshAll() ReactionCartoonRule, RefreshAll() ReactionCartoonEditorPanel, setViewMode ReactionCartoonMolecule, RefreshAll() ReactionCartoonMolecule, RefreshAll() ReactionCartoonRule, RefreshAll() Reentrant AnnotationsPanel: class: SimulationContext, selected object: Non-spatial Deterministic SimulationListPanel.canQuickRun(): solver CombinedSundials supported for local computation AnnotationsPanel: class: Simulation, selected object: ODE Parent Found Clean NetworkFreePanel: @.([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Task started NetworkFreePanel: @.([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Convert to bngl, execute BNG, retrieve the results. key: unique_id_used_as_fake_parameter_Ran_C_nuc, species: Ran_C_nuc, initial: 4.493165893949507E-4 key: unique_id_used_as_fake_parameter_RCC1, species: RCC1, initial: 4.493165893949507E-4 nuc 3 1 cyt 3 1 EC 3 1 pm 2 1 nm 2 1 NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_5376115664490876928\Bng_working_5376115664490876928.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 3 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_18407909851511456371\Bng_working_18407909851511456371.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 6 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_9581586754515873602\Bng_working_9581586754515873602.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 9 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_12364585623310449837\Bng_working_12364585623310449837.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 10 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_3218583832400407861\Bng_working_3218583832400407861.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 5 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_8411231256626290262\Bng_working_8411231256626290262.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 1 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_1519316956017175658\Bng_working_1519316956017175658.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 0 new species NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_14665095278566362425\Bng_working_14665095278566362425.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Done 6 Iterations in 6 s.

in BioNetGen: 5
in DoWork : 0
in Isomorph : 0
in Observ : 0
in rest : 0 TaskEndNotificationOnly TaskEndAdjustSimulationContextFlagsOnly BNGOutputSpec : Parameters :

1: vcellReservedParameter_speciesLimit; 800.0 2: vcellReservedParameter_reactionsLimit; 2500.0 3: ruleParameter_MassActionForwardRate_f5f0c_Transport; 1.0 4: ruleParameter_MassActionReverseRate_f5f0c_Transport; 1.0 5: ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt; 1.0 6: ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt; 1.0 7: ruleParameter_MassActionForwardRate_40a23_C_p1; 1.0 8: ruleParameter_MassActionReverseRate_40a23_C_p1; 1.0 9: ruleParameter_MassActionForwardRate_a6c72_C_p2; 1.0 10: ruleParameter_MassActionReverseRate_a6c72_C_p2; 1.0 11: ruleParameter_MassActionForwardRate_e52b6_C_p3; 1.0 12: ruleParameter_MassActionReverseRate_e52b6_C_p3; 1.0 13: ruleParameter_MassActionForwardRate_28bbb_Ran_RCC1_bind; 1.0 14: ruleParameter_MassActionReverseRate_28bbb_Ran_RCC1_bind; 1.0 15: ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc; 1.0 16: ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc; 1.0 17: unique_id_used_as_fake_parameter_Ran_C_nuc; 1.0 18: unique_id_used_as_fake_parameter_RCC1; 1.0

Molecules :

Species :

1: 1; 2: 2; 3: 3; 4: 4; 5: 5; 6: 6; 7: 7; 8: 8; 9: 9; 10: 10; 11: 11; 12: 12; 13: 13; 14: 14; 15: 15; 16: 16; 17: 17; 18: 18; 19: 19; 20: 20; 21: 21; 22: 22; 23: 23; 24: 24; 25: 25; 26: 26; 27: 27; 28: 28; 29: 29; 30: 30; 31: 31; 32: 32; 33: 33; 34: 34; 35: 35; 36: 36; @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1); unique_id_used_as_fake_parameter_Ran_C_nuc @nuc:RCC1(site); unique_id_used_as_fake_parameter_RCC1 @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 @nuc:Ran(cargo); 0.0 @nuc:C(Y1~u,Y2~u,Y3~u,site); 0.0 @cyt:Ran(cargo); 0.0 @cyt:C(Y1~u,Y2~u,Y3~u,site); 0.0 @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 @nuc:RCC1(site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~u,Y2~u,Y3~p,site); 0.0 @cyt:C(Y1~u,Y2~p,Y3~u,site); 0.0 @cyt:C(Y1~p,Y2~u,Y3~u,site); 0.0 @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~u,Y2~p,Y3~p,site); 0.0 @cyt:C(Y1~p,Y2~u,Y3~p,site); 0.0 @cyt:C(Y1~p,Y2~p,Y3~u,site); 0.0 @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 @nuc:C(Y1~u,Y2~u,Y3~p,site); 0.0 @nuc:C(Y1~u,Y2~p,Y3~u,site); 0.0 @nuc:C(Y1~p,Y2~u,Y3~u,site); 0.0 @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 @cyt:C(Y1~p,Y2~p,Y3~p,site); 0.0 @nuc:C(Y1~u,Y2~p,Y3~p,site); 0.0 @nuc:C(Y1~p,Y2~u,Y3~p,site); 0.0 @nuc:C(Y1~p,Y2~p,Y3~u,site); 0.0 @nuc:C(Y1~p,Y2~p,Y3~p,site); 0.0

Reactions :

1: @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 2: @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 3: @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 4: @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 5: @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 6: @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 7: @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 8: @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 9: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 10: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 11: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 12: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 13: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 14: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 15: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 16: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 17: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 18: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 19: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 20: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 21: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 22: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 23: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 24: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 25: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 26: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 27: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 28: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 29: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 30: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 31: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 32: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 33: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 34: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 35: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 36: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 37: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 38: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 39: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 40: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 41: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 42: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 43: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 44: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 45: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 46: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 47: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 48: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 49: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 50: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 51: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 52: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 53: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 54: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 55: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 56: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 57: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 58: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 59: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 60: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 61: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 62: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 63: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 64: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 65: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 66: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 67: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 68: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 69: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 70: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 71: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 72: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 73: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 74: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 75: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 76: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 77: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 78: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 79: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 80: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 81: @nuc:RCC1(site) + @nuc:Ran(cargo) -> @nuc:RCC1(site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_28bbb_Ran_RCC1_bind 82: @nuc:RCC1(site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:RCC1(site) ruleParameter_MassActionReverseRate_28bbb_Ran_RCC1_bind 83: @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 84: @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 85: @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 86: @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 87: @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 88: @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 89: @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 90: @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 91: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~u,site) -> @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 92: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~p,site) -> @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 93: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~u,site) -> @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 94: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~u,site) -> @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 95: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~p,site) -> @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 96: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~p,site) -> @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 97: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~u,site) -> @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 98: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~p,site) -> @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc

Observable Groups :

1: Ran_cyt; 3,6,8,9,10,18,19,20,27 2: Cargo_cyt; 3,7,8,9,10,15,16,17,18,19,20,24,25,26,27,32 3: RCC1_nuc; 2,11 4: Cargo_phosp_cyt_total; 12,13,14,221,222,223,28,29,30,331,233,234,235,336 5: Cargo_nuc; 1,5,12,13,14,21,22,23,28,29,30,31,33,34,35,36 6: Cargo_phosp_cyt; 27,32 7: Ran_bound_cyt; 3,8,9,10,18,19,20,27

Done :

saving hash and output spec NetworkFreePanel: @.***([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), bngOutputChanged 6237 milliseconds found NetworkConstraints seciesLimit parameter. found NetworkConstraints reactionsLimit parameter. found fakeKineticParam ruleParameter_MassActionForwardRate_f5f0c_Transport found fakeKineticParam ruleParameter_MassActionReverseRate_f5f0c_Transport found fakeKineticParam ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt found fakeKineticParam ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt found fakeKineticParam ruleParameter_MassActionForwardRate_40a23_C_p1 found fakeKineticParam ruleParameter_MassActionReverseRate_40a23_C_p1 found fakeKineticParam ruleParameter_MassActionForwardRate_a6c72_C_p2 found fakeKineticParam ruleParameter_MassActionReverseRate_a6c72_C_p2 found fakeKineticParam ruleParameter_MassActionForwardRate_e52b6_C_p3 found fakeKineticParam ruleParameter_MassActionReverseRate_e52b6_C_p3 found fakeKineticParam ruleParameter_MassActionForwardRate_28bbb_Ran_RCC1_bind found fakeKineticParam ruleParameter_MassActionReverseRate_28bbb_Ran_RCC1_bind found fakeKineticParam ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc found fakeKineticParam ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc Adding 18 parameters to model, 3 ms

Species : Adding 36 species to model, 5 ms

Reactions : @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Transport' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'Ran_C_bind_cyt' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p1' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p2' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'C_p3' @.**@.>: 'Ran_RCC1_bind' @.**@.>: 'Ran_RCC1_bind' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' @.**@.>: 'Ran_C_bind_nuc' Adding 98 reactions to model, 65 ms

Observables : Adding 7 observables to model, 69 ms Done transforming Generating math... NetworkFreePanel: @.([Name(Non-spatial Deterministic), key(230017872), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665942), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=65)]), mathDescription solver initializing solver generating input file... solver starting Reentrant Conditions not met table is empty Reentrant AnnotationsPanel: class: SimulationContext, selected object: Non-spatial Stochastic SimulationListPanel.canQuickRun(): solver StochGibson supported for local computation AnnotationsPanel: class: Simulation, selected object: Stochastic Parent Found Clean NetworkFreePanel: @.([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Task started NetworkFreePanel: @.([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Convert to bngl, execute BNG, retrieve the results. key: unique_id_used_as_fake_parameter_Ran_C_nuc, species: Ran_C_nuc, initial: 1000.0 key: unique_id_used_as_fake_parameter_RCC1, species: RCC1, initial: 1000.0 nuc 3 1 cyt 3 1 EC 3 1 pm 2 1 nm 2 1 NetworkFreePanel: @.([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_613911602234502122\Bng_working_613911602234502122.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 3 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_7972939574635151512\Bng_working_7972939574635151512.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 6 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_16607956752894333649\Bng_working_16607956752894333649.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 9 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_12235003794957529379\Bng_working_12235003794957529379.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 10 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_786696607732572354\Bng_working_786696607732572354.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 5 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_16798878334269864203\Bng_working_16798878334269864203.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 1 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_8258671134603577431\Bng_working_8258671134603577431.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Added 0 new species NetworkFreePanel: @.***([Name(Non-spatial Stochastic), key(230017854), Owner(tutorial(2088465)), GroupAccess(Private), BranchPointRef(null), BranchID(222665922), Flag(Current), Date(29-Mar-2022 14:48:19), Annot(Length=418)]), appendToConsole Input file is: C:\Users\les\AppData\Local\Temp\Bng_working_7547723726278222408\Bng_working_7547723726278222408.bngl BNGExecutorService.executeBNG() 64bit as standalone executable

Done 6 Iterations in 6 s.

in BioNetGen: 5
in DoWork : 0
in Isomorph : 0
in Observ : 0
in rest : 0 TaskEndNotificationOnly TaskEndAdjustSimulationContextFlagsOnly BNGOutputSpec : Parameters :

1: vcellReservedParameter_speciesLimit; 800.0 2: vcellReservedParameter_reactionsLimit; 2500.0 3: ruleParameter_MassActionForwardRate_f5f0c_Transport; 1.0 4: ruleParameter_MassActionReverseRate_f5f0c_Transport; 1.0 5: ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt; 1.0 6: ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt; 1.0 7: ruleParameter_MassActionForwardRate_40a23_C_p1; 1.0 8: ruleParameter_MassActionReverseRate_40a23_C_p1; 1.0 9: ruleParameter_MassActionForwardRate_a6c72_C_p2; 1.0 10: ruleParameter_MassActionReverseRate_a6c72_C_p2; 1.0 11: ruleParameter_MassActionForwardRate_e52b6_C_p3; 1.0 12: ruleParameter_MassActionReverseRate_e52b6_C_p3; 1.0 13: ruleParameter_MassActionForwardRate_28bbb_Ran_RCC1_bind; 1.0 14: ruleParameter_MassActionReverseRate_28bbb_Ran_RCC1_bind; 1.0 15: ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc; 1.0 16: ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc; 1.0 17: unique_id_used_as_fake_parameter_Ran_C_nuc; 1.0 18: unique_id_used_as_fake_parameter_RCC1; 1.0

Molecules :

Species :

1: 1; @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1); unique_id_used_as_fake_parameter_Ran_C_nuc 2: 2; @nuc:RCC1(site); unique_id_used_as_fake_parameter_RCC1 3: 3; @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 4: 4; @nuc:Ran(cargo); 0.0 5: 5; @nuc:C(Y1~u,Y2~u,Y3~u,site); 0.0 6: 6; @cyt:Ran(cargo); 0.0 7: 7; @cyt:C(Y1~u,Y2~u,Y3~u,site); 0.0 8: 8; @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 9: 9; @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 10: 10; @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 11: 11; @nuc:RCC1(site!1).Ran(cargo!1); 0.0 12: 12; @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 13: 13; @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 14: 14; @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1); 0.0 15: 15; @cyt:C(Y1~u,Y2~u,Y3~p,site); 0.0 16: 16; @cyt:C(Y1~u,Y2~p,Y3~u,site); 0.0 17: 17; @cyt:C(Y1~p,Y2~u,Y3~u,site); 0.0 18: 18; @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 19: 19; @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 20: 20; @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 21: 21; @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 22: 22; @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1); 0.0 23: 23; @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1); 0.0 24: 24; @cyt:C(Y1~u,Y2~p,Y3~p,site); 0.0 25: 25; @cyt:C(Y1~p,Y2~u,Y3~p,site); 0.0 26: 26; @cyt:C(Y1~p,Y2~p,Y3~u,site); 0.0 27: 27; @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 28: 28; @nuc:C(Y1~u,Y2~u,Y3~p,site); 0.0 29: 29; @nuc:C(Y1~u,Y2~p,Y3~u,site); 0.0 30: 30; @nuc:C(Y1~p,Y2~u,Y3~u,site); 0.0 31: 31; @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1); 0.0 32: 32; @cyt:C(Y1~p,Y2~p,Y3~p,site); 0.0 33: 33; @nuc:C(Y1~u,Y2~p,Y3~p,site); 0.0 34: 34; @nuc:C(Y1~p,Y2~u,Y3~p,site); 0.0 35: 35; @nuc:C(Y1~p,Y2~p,Y3~u,site); 0.0 36: 36; @nuc:C(Y1~p,Y2~p,Y3~p,site); 0.0

Reactions :

1: @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 2: @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 3: @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 4: @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 5: @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 6: @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 7: @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 8: @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_f5f0c_Transport 9: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 10: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 11: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 12: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 13: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 14: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 15: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 16: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_f5f0c_Transport 17: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 18: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 19: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 20: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 21: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 22: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 23: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 24: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_6904a_Ran_C_bind_cyt 25: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 26: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 27: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 28: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 29: @cyt:Ran(cargo) + @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 30: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 31: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 32: @cyt:Ran(cargo) + @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_6904a_Ran_C_bind_cyt 33: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 34: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 35: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 36: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 37: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 38: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 39: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_40a23_C_p1 40: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_40a23_C_p1 41: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 42: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 43: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 44: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 45: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 46: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 47: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_40a23_C_p1 48: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_40a23_C_p1 49: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 50: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 51: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 52: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 53: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 54: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 55: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_a6c72_C_p2 56: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_a6c72_C_p2 57: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 58: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 59: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 60: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 61: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 62: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 63: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_a6c72_C_p2 64: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_a6c72_C_p2 65: @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 66: @cyt:C(Y1~u,Y2~u,Y3~u,site) -> @cyt:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 67: @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 68: @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 69: @cyt:C(Y1~u,Y2~u,Y3~p,site) -> @cyt:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 70: @cyt:C(Y1~u,Y2~p,Y3~u,site) -> @cyt:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 71: @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_e52b6_C_p3 72: @cyt:C(Y1~u,Y2~p,Y3~p,site) -> @cyt:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_e52b6_C_p3 73: @cyt:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 74: @cyt:C(Y1~p,Y2~u,Y3~u,site) -> @cyt:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 75: @cyt:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 76: @cyt:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 77: @cyt:C(Y1~p,Y2~u,Y3~p,site) -> @cyt:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 78: @cyt:C(Y1~p,Y2~p,Y3~u,site) -> @cyt:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 79: @cyt:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @cyt:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_e52b6_C_p3 80: @cyt:C(Y1~p,Y2~p,Y3~p,site) -> @cyt:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionReverseRate_e52b6_C_p3 81: @nuc:RCC1(site) + @nuc:Ran(cargo) -> @nuc:RCC1(site!1).Ran(cargo!1) ruleParameter_MassActionForwardRate_28bbb_Ran_RCC1_bind 82: @nuc:RCC1(site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:RCC1(site) ruleParameter_MassActionReverseRate_28bbb_Ran_RCC1_bind 83: @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 84: @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 85: @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 86: @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 87: @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 88: @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 89: @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~u,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 90: @nuc:C(Y1~p,Y2~p,Y3~p,site!1).Ran(cargo!1) -> @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~p,site) ruleParameter_MassActionForwardRate_80746_Ran_C_bind_nuc 91: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~u,site) -> @nuc:C(Y1~u,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 92: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~u,Y3~p,site) -> @nuc:C(Y1~u,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 93: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~u,site) -> @nuc:C(Y1~u,Y2~p,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 94: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~u,site) -> @nuc:C(Y1~p,Y2~u,Y3~u,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 95: @nuc:Ran(cargo) + @nuc:C(Y1~u,Y2~p,Y3~p,site) -> @nuc:C(Y1~u,Y2~p,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 96: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~u,Y3~p,site) -> @nuc:C(Y1~p,Y2~u,Y3~p,site!1).Ran(cargo!1) ruleParameter_MassActionReverseRate_80746_Ran_C_bind_nuc 97: @nuc:Ran(cargo) + @nuc:C(Y1~p,Y2~p,Y3~u,site) -> @nuc:C(Y1~p,Y2~p,Y3~u,site!1).Ran(cargo!1)

virtualcell / vcell

Local sim results sometimes appear with error #1185