{"status":"SUCCEEDED","exception":null,"skipReason":null,"output":"\u001b[0;36mThank you for using runBioSimulations!\u001b[0m\n\n\u001b[0;36m================================================ Loading Singularity ================================================\u001b[0m\n\n\u001b[0;36m=================================================== Set up storage ==================================================\u001b[0m\n\n\u001b[0;36m========================================== Downloading COMBINE/OMEX archive =========================================\u001b[0m\n  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current\n                                 Dload  Upload   Total   Spent    Left  Speed\n\r  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0\r100   139  100   139    0     0    406      0 --:--:-- --:--:-- --:--:--   406\r100   139  100   139    0     0    401      0 --:--:-- --:--:-- --:--:--   401\n\r100  130k  100  130k    0     0   268k      0 --:--:-- --:--:-- --:--:--  268k\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\n15:45:52 [main] WARN  cbit.vcell.resource.PropertyLoader - Can't read propertyFile /usr/lib/jvm/java-8-openjdk-amd64/jre/vcell.properties specified by java home directory\nServerID=7.3.0.16, SoftwareVersion=unknown\nVCell CLI input archive /root/archive.omex\n-----------------------------------------------------------------------------------------------------\nTempPath Created: /tmp/vcell_temp_aafb2f0d-8364-4832-8482-2f84ffef86d12761914240793218294\nPython 3.8.10\nutilPath: /usr/local/app/vcell/installDir/python/vcell_cli_utils\ncliUtilPath: /usr/local/app/vcell/installDir/python/vcell_cli_utils/vcell_cli_utils\ncliPath: /usr/local/app/vcell/installDir/python/vcell_cli_utils/vcell_cli_utils/cli.py\nstatusPath: /usr/local/app/vcell/installDir/python/vcell_cli_utils/vcell_cli_utils/status.py\nFound 1 SED-ML document(s) with 1 model(s), 1 simulation(s), 1 task(s), 1  report(s),  1 plot2D(s), and 0 plot3D(s)\n\nSuccessful translation of SED-ML file : biomodel_176334674.sedml\n-----------------------------------------------------------------------------------------------------\nname:  biomodel_176334674\nsedml_name:  biomodel_176334674\ncontent.location:  ./biomodel_176334674.sedml\ncontent_filename:  /root/outputs/temp/./biomodel_176334674.sedml\nStarting simulate all tasks... \nModel [id=Application1, name=Application1, language=urn:sedml:language:sbml, src=biomodel_176334674_Application1.xml]\nThere are 0 changes.\nUniformTimeCourse [initialTime=0.0, numberOfPoints=100, outputEndTime=3000.0, outputStartTime=0.0, Algorithm [kisaoID=KISAO:0000019 AlgorithmParameter [kisaoID=KISAO:0000211 value=1.0E-9]  AlgorithmParameter [kisaoID=KISAO:0000209 value=1.0E-9]  AlgorithmParameter [kisaoID=KISAO:0000467 value=10.0] ], getId()=Simulation_1]\nTask [modelReference=Application1, name=Simulation 1, simulationReference=Simulation_1, getId()=tsk_0_0]\nDataGenerator [math=org.jmathml.ASTRootNode@34f22f9d, name=time_tsk_0_0, getId()=time_tsk_0_0]\nDataGenerator [math=org.jmathml.ASTRootNode@3d1848cc, name=dataGen_tsk_0_0_Gaq_act, getId()=dataGen_tsk_0_0_Gaq_act]\nDataGenerator [math=org.jmathml.ASTRootNode@7dda48d9, name=dataGen_tsk_0_0_H1HR_act, getId()=dataGen_tsk_0_0_H1HR_act]\nDataGenerator [math=org.jmathml.ASTRootNode@6e4566f1, name=dataGen_tsk_0_0_Histamine, getId()=dataGen_tsk_0_0_Histamine]\nDataGenerator [math=org.jmathml.ASTRootNode@4b6e2263, name=dataGen_tsk_0_0_p63_act, getId()=dataGen_tsk_0_0_p63_act]\nDataGenerator [math=org.jmathml.ASTRootNode@344f4dea, name=dataGen_tsk_0_0_PLC_act, getId()=dataGen_tsk_0_0_PLC_act]\nDataGenerator [math=org.jmathml.ASTRootNode@1b7c473a, name=dataGen_tsk_0_0_PIP2, getId()=dataGen_tsk_0_0_PIP2]\nDataGenerator [math=org.jmathml.ASTRootNode@5e4bd84a, name=dataGen_tsk_0_0_DAG, getId()=dataGen_tsk_0_0_DAG]\nDataGenerator [math=org.jmathml.ASTRootNode@648c94da, name=dataGen_tsk_0_0_IP3, getId()=dataGen_tsk_0_0_IP3]\nDataGenerator [math=org.jmathml.ASTRootNode@2a62b5bc, name=dataGen_tsk_0_0_RhoA_act, getId()=dataGen_tsk_0_0_RhoA_act]\nDataGenerator [math=org.jmathml.ASTRootNode@53de625d, name=dataGen_tsk_0_0_Ca_cyto, getId()=dataGen_tsk_0_0_Ca_cyto]\nDataGenerator [math=org.jmathml.ASTRootNode@535779e4, name=dataGen_tsk_0_0_PKC_act, getId()=dataGen_tsk_0_0_PKC_act]\nDataGenerator [math=org.jmathml.ASTRootNode@53fd0d10, name=dataGen_tsk_0_0_p115_act, getId()=dataGen_tsk_0_0_p115_act]\nDataGenerator [math=org.jmathml.ASTRootNode@6c0d9d86, name=dataGen_tsk_0_0_RhoA_inact, getId()=dataGen_tsk_0_0_RhoA_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@4ce1d6d0, name=dataGen_tsk_0_0_H1HR_inact, getId()=dataGen_tsk_0_0_H1HR_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@24111ef1, name=dataGen_tsk_0_0_Gaq_inact, getId()=dataGen_tsk_0_0_Gaq_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@1f3f02ee, name=dataGen_tsk_0_0_p63_inact, getId()=dataGen_tsk_0_0_p63_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@1fde5d22, name=dataGen_tsk_0_0_p115_inact, getId()=dataGen_tsk_0_0_p115_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@5dcb4f5f, name=dataGen_tsk_0_0_PKC_inact, getId()=dataGen_tsk_0_0_PKC_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@71812481, name=dataGen_tsk_0_0_Ca_ER, getId()=dataGen_tsk_0_0_Ca_ER]\nDataGenerator [math=org.jmathml.ASTRootNode@16ce702d, name=dataGen_tsk_0_0_PLC_inact, getId()=dataGen_tsk_0_0_PLC_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@7b94089b, name=dataGen_tsk_0_0_Ca_miscbound, getId()=dataGen_tsk_0_0_Ca_miscbound]\nDataGenerator [math=org.jmathml.ASTRootNode@7ca20101, name=dataGen_tsk_0_0_Ca_mito, getId()=dataGen_tsk_0_0_Ca_mito]\nDataGenerator [math=org.jmathml.ASTRootNode@47f9738, name=dataGen_tsk_0_0_Ca_Ex, getId()=dataGen_tsk_0_0_Ca_Ex]\nDataGenerator [math=org.jmathml.ASTRootNode@6155d082, name=dataGen_tsk_0_0_phosphatase, getId()=dataGen_tsk_0_0_phosphatase]\nDataGenerator [math=org.jmathml.ASTRootNode@3a5ecce3, name=dataGen_tsk_0_0_GAP_act, getId()=dataGen_tsk_0_0_GAP_act]\nDataGenerator [math=org.jmathml.ASTRootNode@561868a0, name=dataGen_tsk_0_0_SERCA, getId()=dataGen_tsk_0_0_SERCA]\nDataGenerator [math=org.jmathml.ASTRootNode@2ea6e30c, name=dataGen_tsk_0_0_PKC_Ca, getId()=dataGen_tsk_0_0_PKC_Ca]\nDataGenerator [math=org.jmathml.ASTRootNode@6138e79a, name=dataGen_tsk_0_0_Expumps_out, getId()=dataGen_tsk_0_0_Expumps_out]\nDataGenerator [math=org.jmathml.ASTRootNode@2dcd168a, name=dataGen_tsk_0_0_Expumps_in, getId()=dataGen_tsk_0_0_Expumps_in]\nDataGenerator [math=org.jmathml.ASTRootNode@388526fb, name=dataGen_tsk_0_0_Pyrilamine, getId()=dataGen_tsk_0_0_Pyrilamine]\nDataGenerator [math=org.jmathml.ASTRootNode@21a21c64, name=dataGen_tsk_0_0_PKC_act_translocate, getId()=dataGen_tsk_0_0_PKC_act_translocate]\nDataGenerator [math=org.jmathml.ASTRootNode@7803bfd, name=dataGen_tsk_0_0_GDI_act, getId()=dataGen_tsk_0_0_GDI_act]\nDataGenerator [math=org.jmathml.ASTRootNode@42bc14c1, name=dataGen_tsk_0_0_GDI_inact, getId()=dataGen_tsk_0_0_GDI_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@531f4093, name=dataGen_tsk_0_0_GAP_inact, getId()=dataGen_tsk_0_0_GAP_inact]\nDataGenerator [math=org.jmathml.ASTRootNode@62ef27a8, name=dataGen_tsk_0_0_DAG_deg, getId()=dataGen_tsk_0_0_DAG_deg]\nPlot2D [listOfCurves=[Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Gaq_act, logX=false, logY=false, name=dataGen_tsk_0_0_Gaq_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Gaq_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_H1HR_act, logX=false, logY=false, name=dataGen_tsk_0_0_H1HR_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_H1HR_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Histamine, logX=false, logY=false, name=dataGen_tsk_0_0_Histamine, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Histamine], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_p63_act, logX=false, logY=false, name=dataGen_tsk_0_0_p63_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_p63_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PLC_act, logX=false, logY=false, name=dataGen_tsk_0_0_PLC_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PLC_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PIP2, logX=false, logY=false, name=dataGen_tsk_0_0_PIP2, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PIP2], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_DAG, logX=false, logY=false, name=dataGen_tsk_0_0_DAG, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_DAG], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_IP3, logX=false, logY=false, name=dataGen_tsk_0_0_IP3, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_IP3], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_RhoA_act, logX=false, logY=false, name=dataGen_tsk_0_0_RhoA_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_RhoA_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_cyto, logX=false, logY=false, name=dataGen_tsk_0_0_Ca_cyto, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Ca_cyto], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_act, logX=false, logY=false, name=dataGen_tsk_0_0_PKC_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PKC_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_p115_act, logX=false, logY=false, name=dataGen_tsk_0_0_p115_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_p115_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_RhoA_inact, logX=false, logY=false, name=dataGen_tsk_0_0_RhoA_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_RhoA_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_H1HR_inact, logX=false, logY=false, name=dataGen_tsk_0_0_H1HR_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_H1HR_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Gaq_inact, logX=false, logY=false, name=dataGen_tsk_0_0_Gaq_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Gaq_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_p63_inact, logX=false, logY=false, name=dataGen_tsk_0_0_p63_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_p63_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_p115_inact, logX=false, logY=false, name=dataGen_tsk_0_0_p115_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_p115_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_inact, logX=false, logY=false, name=dataGen_tsk_0_0_PKC_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PKC_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_ER, logX=false, logY=false, name=dataGen_tsk_0_0_Ca_ER, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Ca_ER], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PLC_inact, logX=false, logY=false, name=dataGen_tsk_0_0_PLC_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PLC_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_miscbound, logX=false, logY=false, name=dataGen_tsk_0_0_Ca_miscbound, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Ca_miscbound], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_mito, logX=false, logY=false, name=dataGen_tsk_0_0_Ca_mito, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Ca_mito], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_Ex, logX=false, logY=false, name=dataGen_tsk_0_0_Ca_Ex, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Ca_Ex], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_phosphatase, logX=false, logY=false, name=dataGen_tsk_0_0_phosphatase, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_phosphatase], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_GAP_act, logX=false, logY=false, name=dataGen_tsk_0_0_GAP_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_GAP_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_SERCA, logX=false, logY=false, name=dataGen_tsk_0_0_SERCA, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_SERCA], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_Ca, logX=false, logY=false, name=dataGen_tsk_0_0_PKC_Ca, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PKC_Ca], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Expumps_out, logX=false, logY=false, name=dataGen_tsk_0_0_Expumps_out, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Expumps_out], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Expumps_in, logX=false, logY=false, name=dataGen_tsk_0_0_Expumps_in, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Expumps_in], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_Pyrilamine, logX=false, logY=false, name=dataGen_tsk_0_0_Pyrilamine, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_Pyrilamine], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_act_translocate, logX=false, logY=false, name=dataGen_tsk_0_0_PKC_act_translocate, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_PKC_act_translocate], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_GDI_act, logX=false, logY=false, name=dataGen_tsk_0_0_GDI_act, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_GDI_act], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_GDI_inact, logX=false, logY=false, name=dataGen_tsk_0_0_GDI_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_GDI_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_GAP_inact, logX=false, logY=false, name=dataGen_tsk_0_0_GAP_inact, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_GAP_inact], Curve [id=curve_plot2d_Simulation_1_dataGen_tsk_0_0_DAG_deg, logX=false, logY=false, name=dataGen_tsk_0_0_DAG_deg, xDataReference=time_tsk_0_0, yDataReference=dataGen_tsk_0_0_DAG_deg]], name=Application1_Simulation 1_plot]\norg.jlibsedml.Report@1bed4963\norg.jlibsedml.Report@3f7eb3e3\nTask (id='tsk_0_0') is compatible, solver match found in ontology: 'KISAO:0000019' matched to CVODE\nnew symbol is uM,   old symbol is umol.l-1\nnew symbol is uM.s-1,   old symbol is umol.l-1.s-1\n<BioEvents><BioEvent Name=\"event0\" TriggerType=\"GeneralTrigger\" UseValuesFromTriggerTime=\"true\"><Parameter Name=\"delay\" Role=\"TriggerDelay\" Unit=\"s\">0.0</Parameter><Parameter Name=\"triggerFunction\" Role=\"GeneralTriggerFunction\" Unit=\"1\">(t &gt;= 1200.0)</Parameter><EventAssignment Variable=\"Pyrilamine\">100.0</EventAssignment></BioEvent></BioEvents>\nSuccesful model import: SBML file /tmp/temp8903177607006714812.xml\n/root/outputs/biomodel_176334674.sedml\nfalse\ncbit.vcell.solver.ode.CVodeSolverStandalone@111d5c97\nFinished: SOLVER_FINISHED:completed\nSuccesful execution: Model 'archive__Application1' Task 'Simulation 1'.\nRunning simulation tsk_0_0_Simulation 1, 638 ms\n-----------------------------------------------------------------------------------------------------\nRan 1 simulations for 1 biomodels.\nIgnoring unsupported output `plot2d_Simulation_1` while CSV generation.\nGenerating report `report_Simulation_1`.\nGenerating report `__plot__plot2d_Simulation_1`.\n15:46:39 [VCellExecutorService-thread-1] WARN  cbit.vcell.mongodb.VCMongoDbDriver - VCMongoMessage failedToSend : Timed out after 30000 ms while waiting for a server that matches WritableServerSelector. Client view of cluster state is {type=UNKNOWN, servers=[{address=localhost:27017, type=UNKNOWN, state=CONNECTING, exception={com.mongodb.MongoSocketOpenException: Exception opening socket}, caused by {java.net.ConnectException: Connection refused (Connection refused)}}]\nIgnoring unsupported output `plot2d_Simulation_1` while generating idNamePlotsMap.\n{'report_Simulation_1': 'Application1_Simulation 1_plot', '__plot__plot2d_Simulation_1': 'Application1_Simulation 1_plot', 'plot2d_Simulation_1': 'Application1_Simulation 1_plot'}\nreport   :  /root/outputs/./biomodel_176334674.sedml/report_Simulation_1.csv\nreport_Simulation_1\n__plot__plot2d_Simulation_1\nHDF conversion successful\nArchiving resultant PDF files to `plots.zip`.\nArchiving resultant CSV files to `reports.zip`.\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 15.8 KiB/15.8 KiB (139.6 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/rawLog.txt\nCompleted 7.0 KiB/7.0 KiB (42.3 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 89%)\n  adding: outputs/reports.zip (stored 0%)\n  adding: outputs/log.json (deflated 94%)\n  adding: outputs/fullSuccessLog.txt (stored 0%)\n  adding: outputs/reports.h5 (deflated 37%)\n  adding: outputs/biomodel_176334674.sedml/ (stored 0%)\n  adding: outputs/biomodel_176334674.sedml/idNamePlotsMap.txt (deflated 68%)\n  adding: outputs/biomodel_176334674.sedml/report_Simulation_1.csv (deflated 56%)\n  adding: outputs/biomodel_176334674.sedml/plot2d_Simulation_1.csv (deflated 56%)\n  adding: outputs/biomodel_176334674.sedml/plot2d_Simulation_1.pdf (deflated 14%)\n  adding: outputs/detailedResultLog.txt (deflated 9%)\n  adding: rawLog.txt (deflated 80%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 84.1 KiB/84.1 KiB (669.4 KiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/reports.h5\nCompleted 212.1 KiB/513.2 KiB (1.4 MiB/s) with 13 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/output.zip\nCompleted 212.1 KiB/513.2 KiB (1.4 MiB/s) with 12 file(s) remaining\rCompleted 212.3 KiB/513.2 KiB (1.2 MiB/s) with 12 file(s) remaining\rupload: outputs/biomodel_176334674.sedml/idNamePlotsMap.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/biomodel_176334674.sedml/idNamePlotsMap.txt\nCompleted 212.3 KiB/513.2 KiB (1.2 MiB/s) with 11 file(s) remaining\rCompleted 227.4 KiB/513.2 KiB (1.2 MiB/s) with 11 file(s) remaining\rupload: outputs/log.json to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/log.json\nCompleted 227.4 KiB/513.2 KiB (1.2 MiB/s) with 10 file(s) remaining\rCompleted 227.7 KiB/513.2 KiB (1.1 MiB/s) with 10 file(s) remaining\rupload: ./stdOut.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/stdOut.txt\nCompleted 227.7 KiB/513.2 KiB (1.1 MiB/s) with 9 file(s) remaining\rCompleted 294.8 KiB/513.2 KiB (1.4 MiB/s) with 9 file(s) remaining\rupload: outputs/biomodel_176334674.sedml/plot2d_Simulation_1.csv to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/biomodel_176334674.sedml/plot2d_Simulation_1.csv\nCompleted 294.8 KiB/513.2 KiB (1.4 MiB/s) with 8 file(s) remaining\rCompleted 355.0 KiB/513.2 KiB (1.6 MiB/s) with 8 file(s) remaining\rupload: outputs/reports.zip to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/reports.zip\nCompleted 355.0 KiB/513.2 KiB (1.6 MiB/s) with 7 file(s) remaining\rCompleted 372.2 KiB/513.2 KiB (1.6 MiB/s) with 7 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/rawLog.txt\nCompleted 372.2 KiB/513.2 KiB (1.6 MiB/s) with 6 file(s) remaining\rCompleted 404.3 KiB/513.2 KiB (1.6 MiB/s) with 6 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/plots.zip\nCompleted 404.3 KiB/513.2 KiB (1.6 MiB/s) with 5 file(s) remaining\rCompleted 441.3 KiB/513.2 KiB (1.7 MiB/s) with 5 file(s) remaining\rupload: outputs/biomodel_176334674.sedml/plot2d_Simulation_1.pdf to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/biomodel_176334674.sedml/plot2d_Simulation_1.pdf\nCompleted 441.3 KiB/513.2 KiB (1.7 MiB/s) with 4 file(s) remaining\rCompleted 444.9 KiB/513.2 KiB (1.6 MiB/s) with 4 file(s) remaining\rupload: ./temp16548255528469308861804289383.tmp to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/temp16548255528469308861804289383.tmp\nCompleted 444.9 KiB/513.2 KiB (1.6 MiB/s) with 3 file(s) remaining\rCompleted 445.0 KiB/513.2 KiB (1.6 MiB/s) with 3 file(s) remaining\rupload: outputs/detailedResultLog.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/detailedResultLog.txt\nCompleted 445.0 KiB/513.2 KiB (1.6 MiB/s) with 2 file(s) remaining\rCompleted 445.0 KiB/513.2 KiB (1.5 MiB/s) with 2 file(s) remaining\rupload: outputs/fullSuccessLog.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/fullSuccessLog.txt\nCompleted 445.0 KiB/513.2 KiB (1.5 MiB/s) with 1 file(s) remaining\rCompleted 513.2 KiB/513.2 KiB (1.5 MiB/s) with 1 file(s) remaining\rupload: outputs/biomodel_176334674.sedml/report_Simulation_1.csv to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/outputs/biomodel_176334674.sedml/report_Simulation_1.csv\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/diagram.png    \n  inflating: contents/biomodel_176334674_Application1.xml  \n  inflating: contents/metadata.rdf   \n  inflating: contents/biomodel_176334674.sedml  \n  inflating: contents/biomodel_176334674.vcml  \n  inflating: contents/manifest.xml   \nCompleted 29.8 KiB/283.0 KiB (265.8 KiB/s) with 6 file(s) remaining\rupload: contents/biomodel_176334674.sedml to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/biomodel_176334674.sedml\nCompleted 29.8 KiB/283.0 KiB (265.8 KiB/s) with 5 file(s) remaining\rCompleted 87.1 KiB/283.0 KiB (518.3 KiB/s) with 5 file(s) remaining\rupload: contents/biomodel_176334674_Application1.xml to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/biomodel_176334674_Application1.xml\nCompleted 87.1 KiB/283.0 KiB (518.3 KiB/s) with 4 file(s) remaining\rCompleted 87.8 KiB/283.0 KiB (485.1 KiB/s) with 4 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/manifest.xml\nCompleted 87.8 KiB/283.0 KiB (485.1 KiB/s) with 3 file(s) remaining\rCompleted 201.8 KiB/283.0 KiB (1.1 MiB/s) with 3 file(s) remaining \rupload: contents/diagram.png to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/diagram.png\nCompleted 201.8 KiB/283.0 KiB (1.1 MiB/s) with 2 file(s) remaining\rCompleted 279.4 KiB/283.0 KiB (1.4 MiB/s) with 2 file(s) remaining\rupload: contents/biomodel_176334674.vcml to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/biomodel_176334674.vcml\nCompleted 279.4 KiB/283.0 KiB (1.4 MiB/s) with 1 file(s) remaining\rCompleted 283.0 KiB/283.0 KiB (1.4 MiB/s) with 1 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/contents/metadata.rdf\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 22.8 KiB/22.8 KiB (186.2 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/62a25bfa1493b6b631702213/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /biomodel_176334674.sedml\ncreating dataset /biomodel_176334674.sedml/plot2d_Simulation_1, shape: (36, 101), type: float64\ndataset created, uuid: d-8e37a0f4-9e8e7b43-9746-24135b-04f706, chunk_size: (36, 101)\ncreating dataset /biomodel_176334674.sedml/report_Simulation_1, shape: (36, 101), type: float64\ndataset created, uuid: d-8e37a0f4-9e8e7b43-8211-02a34c-3bdf4a, chunk_size: (36, 101)\ncreating attribute combineArchiveLocation in /biomodel_176334674.sedml\ncreating attribute uri in /biomodel_176334674.sedml\ncreating attribute _type in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlDataSetDataTypes in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlDataSetIds in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlDataSetLabels in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlDataSetNames in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlDataSetShapes in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlId in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute sedmlName in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute uri in /biomodel_176334674.sedml/plot2d_Simulation_1\ncreating attribute _type in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlDataSetDataTypes in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlDataSetIds in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlDataSetLabels in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlDataSetNames in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlDataSetShapes in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlId in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute sedmlName in /biomodel_176334674.sedml/report_Simulation_1\ncreating attribute uri in /biomodel_176334674.sedml/report_Simulation_1\ncreate_links: /\ngot link: biomodel_176334674.sedml\ncreate_links: /biomodel_176334674.sedml\ngot link: plot2d_Simulation_1\ngot link: report_Simulation_1\nwrite_dataset src: /biomodel_176334674.sedml/plot2d_Simulation_1 to tgt: /biomodel_176334674.sedml/plot2d_Simulation_1, shape: (36, 101), type: float64\niterating over chunks for /biomodel_176334674.sedml/plot2d_Simulation_1\nwriting dataset data for slice: (slice(0, 36, 1), slice(0, 101, 1))\ndone with dataload for /biomodel_176334674.sedml/plot2d_Simulation_1\nwrite_dataset src: /biomodel_176334674.sedml/report_Simulation_1 to tgt: /biomodel_176334674.sedml/report_Simulation_1, shape: (36, 101), type: float64\niterating over chunks for /biomodel_176334674.sedml/report_Simulation_1\nwriting dataset data for slice: (slice(0, 36, 1), slice(0, 101, 1))\ndone with dataload for /biomodel_176334674.sedml/report_Simulation_1\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/62a25bfa1493b6b631702213\n\n\u001b[0;36m================================================== Saving final log =================================================\u001b[0m\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mRetrieve the logs of the simulation run ... succeeded.\nPost the logs to the API ... succeeded.\nProcess the SED-ML file in the COMBINE archive ... succeeded.\nPost the SED-ML file to the API ... succeeded.\nProcess the metadata in the COMBINE archive ... succeeded.\nPost the metadata to the API ... succeeded.\nProcess and upload the outputs of the simulation run ... succeeded.\nProcess the manifest file in the COMBINE archive ... succeeded.\nRead the manifest and post the files to the API ... succeeded.\nCreate thumbnails from the images specified in the manifest ... succeeded.\nPost thumbnails to the API ... succeeded.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":79,"sedDocuments":[{"location":"biomodel_176334674.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Initializing sedml document... done. Successful translation of SED-ML file. Starting simulate all tasks... Generating outputs... Done. Generating HDF5 file... Done. ","duration":null,"tasks":[{"id":"tsk_0_0","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Initializing simulation... done. Starting simulation... done. ","duration":1,"algorithm":"KISAO_0000019","simulatorDetails":null}],"outputs":[{"id":"plot2d_Simulation_1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":null,"duration":null,"curves":[{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Gaq_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_H1HR_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Histamine","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_p63_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PLC_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PIP2","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_DAG","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_IP3","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_RhoA_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_cyto","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_p115_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_RhoA_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_H1HR_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Gaq_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_p63_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_p115_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_ER","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PLC_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_miscbound","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_mito","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Ca_Ex","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_phosphatase","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_GAP_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_SERCA","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_Ca","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Expumps_out","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Expumps_in","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_Pyrilamine","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_PKC_act_translocate","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_GDI_act","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_GDI_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_GAP_inact","status":"SUCCEEDED"},{"id":"curve_plot2d_Simulation_1_dataGen_tsk_0_0_DAG_deg","status":"SUCCEEDED"}]},{"id":"report_Simulation_1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":null,"duration":null,"dataSets":[{"id":"__data_set__plot2d_Simulation_1time_tsk_0_0","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Gaq_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_H1HR_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Histamine","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_p63_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PLC_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PIP2","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_DAG","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_IP3","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_RhoA_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Ca_cyto","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PKC_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_p115_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_RhoA_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_H1HR_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Gaq_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_p63_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_p115_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PKC_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Ca_ER","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PLC_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Ca_miscbound","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Ca_mito","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Ca_Ex","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_phosphatase","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_GAP_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_SERCA","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PKC_Ca","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Expumps_out","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Expumps_in","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_Pyrilamine","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_PKC_act_translocate","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_GDI_act","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_GDI_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_GAP_inact","status":"SUCCEEDED"},{"id":"__data_set__plot2d_Simulation_1dataGen_tsk_0_0_DAG_deg","status":"SUCCEEDED"}]}]}]}