{"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    422      0 --:--:-- --:--:-- --:--:--   423\n\r 96 52559   96 50682    0     0   113k      0 --:--:-- --:--:-- --:--:--  113k\r100 52559  100 52559    0     0   117k      0 --:--:-- --:--:-- --:--:-- 1833k\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\n \u001b[34msucceeded\u001b[0m\n\n  Executed 1 tasks and 2 outputs:\n    Tasks:\n      Succeeded: 1\n      Skipped: 0\n      Failed: 0\n    Outputs:\n      Succeeded: 2\n      Skipped: 0\n      Failed: 0\n\nBundling outputs ...\nCleaning up ...\n\n============= SUMMARY =============\nExecuted 1 SED documents:\n  SED documents (1):\n    Succeeded: 1\n    Skipped: 0\n    Failed: 0\n  Tasks (1):\n    Succeeded: 1\n    Skipped: 0\n    Failed: 0\n  Outputs (2):\n    Succeeded: 2\n    Skipped: 0\n    Failed: 0\n\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 1.6 KiB/1.6 KiB (23.2 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/rawLog.txt\nCompleted 5.0 KiB/5.0 KiB (67.0 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 82%)\n  adding: outputs/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/ (stored 0%)\n  adding: outputs/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1.pdf (deflated 23%)\n  adding: outputs/reports.h5 (deflated 46%)\n  adding: rawLog.txt (deflated 71%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 59.9 KiB/59.9 KiB (656.7 KiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/outputs/reports.h5\nCompleted 47.1 KiB/76.6 KiB (458.8 KiB/s) with 4 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/output.zip\nCompleted 47.1 KiB/76.6 KiB (458.8 KiB/s) with 3 file(s) remaining\rCompleted 58.6 KiB/76.6 KiB (543.1 KiB/s) with 3 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/outputs/plots.zip\nCompleted 58.6 KiB/76.6 KiB (543.1 KiB/s) with 2 file(s) remaining\rCompleted 73.8 KiB/76.6 KiB (553.2 KiB/s) with 2 file(s) remaining\rupload: outputs/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/outputs/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1.pdf\nCompleted 73.8 KiB/76.6 KiB (553.2 KiB/s) with 1 file(s) remaining\rCompleted 76.6 KiB/76.6 KiB (558.2 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/rawLog.txt\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/Model-biopax2.owl  \n  inflating: contents/Model-biopax3.owl  \n  inflating: contents/Model-matlab.m  \n  inflating: contents/Model-octave.m  \n  inflating: contents/Model.ode      \n  inflating: contents/Model.xml      \n  inflating: contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.cps  \n  inflating: contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml  \n  inflating: contents/curation_image.png  \n  inflating: contents/curation_notes.txt  \n  inflating: contents/metadata.rdf   \n  inflating: contents/manifest.xml   \nCompleted 23.3 KiB/299.5 KiB (320.9 KiB/s) with 12 file(s) remaining\rupload: contents/Model-biopax2.owl to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model-biopax2.owl\nCompleted 23.3 KiB/299.5 KiB (320.9 KiB/s) with 11 file(s) remaining\rCompleted 32.2 KiB/299.5 KiB (275.5 KiB/s) with 11 file(s) remaining\rupload: contents/Model-matlab.m to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model-matlab.m\nCompleted 32.2 KiB/299.5 KiB (275.5 KiB/s) with 10 file(s) remaining\rCompleted 70.7 KiB/299.5 KiB (596.4 KiB/s) with 10 file(s) remaining\rupload: contents/Model-biopax3.owl to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model-biopax3.owl\nCompleted 70.7 KiB/299.5 KiB (596.4 KiB/s) with 9 file(s) remaining\rCompleted 77.3 KiB/299.5 KiB (597.0 KiB/s) with 9 file(s) remaining\rupload: contents/Model.ode to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model.ode\nCompleted 77.3 KiB/299.5 KiB (597.0 KiB/s) with 8 file(s) remaining\rCompleted 104.8 KiB/299.5 KiB (695.2 KiB/s) with 8 file(s) remaining\rupload: contents/curation_image.png to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/curation_image.png\nCompleted 104.8 KiB/299.5 KiB (695.2 KiB/s) with 7 file(s) remaining\rCompleted 113.7 KiB/299.5 KiB (740.7 KiB/s) with 7 file(s) remaining\rupload: contents/Model-octave.m to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model-octave.m\nCompleted 113.7 KiB/299.5 KiB (740.7 KiB/s) with 6 file(s) remaining\rCompleted 114.1 KiB/299.5 KiB (667.9 KiB/s) with 6 file(s) remaining\rupload: contents/curation_notes.txt to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/curation_notes.txt\nCompleted 114.1 KiB/299.5 KiB (667.9 KiB/s) with 5 file(s) remaining\rCompleted 115.5 KiB/299.5 KiB (648.3 KiB/s) with 5 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/manifest.xml\nCompleted 115.5 KiB/299.5 KiB (648.3 KiB/s) with 4 file(s) remaining\rCompleted 116.9 KiB/299.5 KiB (626.7 KiB/s) with 4 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/metadata.rdf\nCompleted 116.9 KiB/299.5 KiB (626.7 KiB/s) with 3 file(s) remaining\rCompleted 144.7 KiB/299.5 KiB (664.2 KiB/s) with 3 file(s) remaining\rupload: contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\nCompleted 144.7 KiB/299.5 KiB (664.2 KiB/s) with 2 file(s) remaining\rCompleted 209.1 KiB/299.5 KiB (944.9 KiB/s) with 2 file(s) remaining\rupload: contents/Model.xml to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Model.xml\nCompleted 209.1 KiB/299.5 KiB (944.9 KiB/s) with 1 file(s) remaining\rCompleted 299.5 KiB/299.5 KiB (1.3 MiB/s) with 1 file(s) remaining  \rupload: contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.cps to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/contents/Modelling the transmission dynamics and control of rabies in china REACTIONS.cps\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 8.0 KiB/8.0 KiB (106.2 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b54195afd5df175efb8/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\ncreating dataset /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1, shape: (50, 101), type: float64\ndataset created, uuid: d-8c6536af-31a6be57-be18-2d7516-46ac4a, chunk_size: (50, 101)\ncreating dataset /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1, shape: (9, 101), type: float64\ndataset created, uuid: d-8c6536af-31a6be57-a589-daf89c-b98cbe, chunk_size: (9, 101)\ncreating attribute combineArchiveLocation in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\ncreating attribute uri in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\ncreating attribute _type in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute uri in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\ncreating attribute _type in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlId in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute sedmlName in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreating attribute uri in /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\ncreate_links: /\ngot link: Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\ncreate_links: /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\nwrite_dataset src: /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1 to tgt: /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1, shape: (50, 101), type: float64\niterating over chunks for /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 50, 1), slice(0, 101, 1))\ndone with dataload for /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/autogen_report_for_task1\nwrite_dataset src: /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1 to tgt: /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1, shape: (9, 101), type: float64\niterating over chunks for /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 9, 1), slice(0, 101, 1))\ndone with dataload for /Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml/plot_1_task1\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/647a4b54195afd5df175efb8\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 metadata in the COMBINE archive ... succeeded.\nPost the metadata 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 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.\nProcess and upload the outputs of the simulation run ... succeeded.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":1.392535,"sedDocuments":[{"location":"Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n  Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 50 data sets\r\n    Plots (1):\r\n      plot_1_task1: 8 curves\r\n\r\nExecuting SED-ML file 1: Modelling the transmission dynamics and control of rabies in china REACTIONS.sedml ...\r\n  Found 1 tasks and 2 outputs:\r\n    Tasks:\r\n      `task1`\r\n    Outputs:\r\n      `autogen_report_for_task1`\r\n      `plot_1_task1`\r\n  Executing task 1: `task1`\r\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n    Generating 2 outputs ...\r\n      Generating output 1: `plot_1_task1` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 2: `autogen_report_for_task1` ...","duration":0.836939,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.17687,"algorithm":"KISAO_0000560","simulatorDetails":[{"key":"methodName","value":"deterministic"},{"key":"methodCode","value":22},{"key":"parameters","value":{"Absolute Tolerance":1e-12,"Integrate Reduced Model":false,"Max Internal Steps":10000,"Relative Tolerance":0.000001}}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.39896,"curves":[{"id":"p1_curve_1_task1","status":"SUCCEEDED"},{"id":"p1_curve_2_task1","status":"SUCCEEDED"},{"id":"p1_curve_3_task1","status":"SUCCEEDED"},{"id":"p1_curve_4_task1","status":"SUCCEEDED"},{"id":"p1_curve_5_task1","status":"SUCCEEDED"},{"id":"p1_curve_6_task1","status":"SUCCEEDED"},{"id":"p1_curve_7_task1","status":"SUCCEEDED"},{"id":"p1_curve_8_task1","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.097185,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_S_d","status":"SUCCEEDED"},{"id":"autogen_task1_E_d","status":"SUCCEEDED"},{"id":"autogen_task1_I_d","status":"SUCCEEDED"},{"id":"autogen_task1_R_d","status":"SUCCEEDED"},{"id":"autogen_task1_S_h","status":"SUCCEEDED"},{"id":"autogen_task1_E_h","status":"SUCCEEDED"},{"id":"autogen_task1_I_h","status":"SUCCEEDED"},{"id":"autogen_task1_R_h","status":"SUCCEEDED"},{"id":"autogen_task1_A","status":"SUCCEEDED"},{"id":"autogen_task1_lambda","status":"SUCCEEDED"},{"id":"autogen_task1_gamma","status":"SUCCEEDED"},{"id":"autogen_task1_sigma","status":"SUCCEEDED"},{"id":"autogen_task1_m","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_k","status":"SUCCEEDED"},{"id":"autogen_task1_mu","status":"SUCCEEDED"},{"id":"autogen_task1_B","status":"SUCCEEDED"},{"id":"autogen_task1_lambda_h","status":"SUCCEEDED"},{"id":"autogen_task1_gamma_h","status":"SUCCEEDED"},{"id":"autogen_task1_sigma_h","status":"SUCCEEDED"},{"id":"autogen_task1_m_h","status":"SUCCEEDED"},{"id":"autogen_task1_beta_dh","status":"SUCCEEDED"},{"id":"autogen_task1_k_h","status":"SUCCEEDED"},{"id":"autogen_task1_mu_h","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","status":"SUCCEEDED"},{"id":"autogen_task1_Human_Population","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_1","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_2","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_3","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_4","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_5","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_6","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_7","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_8","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_9","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_10","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_11","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_12","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_13","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_14","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_15","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_16","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_17","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_18","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_19","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_20","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_21","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_22","status":"SUCCEEDED"},{"id":"autogen_task1_reaction_23","status":"SUCCEEDED"}]}]}]}