{"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\r  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0\r100   139  100   139    0     0    422      0 --:--:-- --:--:-- --:--:--   422\n\r100 83665  100 83665    0     0   186k      0 --:--:-- --:--:-- --:--:--  186k\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 4 SED documents:\n  SED documents (4):\n    Succeeded: 4\n    Skipped: 0\n    Failed: 0\n  Tasks (4):\n    Succeeded: 4\n    Skipped: 0\n    Failed: 0\n  Outputs (8):\n    Succeeded: 8\n    Skipped: 0\n    Failed: 0\n\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 1.6 KiB/1.6 KiB (23.6 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/rawLog.txt\nCompleted 13.9 KiB/13.9 KiB (187.3 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/Jena5258.sedml/ (stored 0%)\n  adding: outputs/Jena5258.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: outputs/log.yml (deflated 92%)\n  adding: outputs/Jena2688.sedml/ (stored 0%)\n  adding: outputs/Jena2688.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: outputs/Bakum1832.sedml/ (stored 0%)\n  adding: outputs/Bakum1832.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: outputs/reports.h5 (deflated 59%)\n  adding: outputs/Jena5555.sedml/ (stored 0%)\n  adding: outputs/Jena5555.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: rawLog.txt (deflated 71%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 131.2 KiB/131.2 KiB (1.3 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/reports.h5\nCompleted 96.1 KiB/189.3 KiB (1.1 MiB/s) with 7 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/output.zip\nCompleted 96.1 KiB/189.3 KiB (1.1 MiB/s) with 6 file(s) remaining\rCompleted 109.3 KiB/189.3 KiB (980.9 KiB/s) with 6 file(s) remaining\rupload: outputs/Bakum1832.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/Bakum1832.sedml/plot_1_task1.pdf\nCompleted 109.3 KiB/189.3 KiB (980.9 KiB/s) with 5 file(s) remaining\rCompleted 122.5 KiB/189.3 KiB (1.1 MiB/s) with 5 file(s) remaining  \rupload: outputs/Jena2688.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/Jena2688.sedml/plot_1_task1.pdf\nCompleted 122.5 KiB/189.3 KiB (1.1 MiB/s) with 4 file(s) remaining\rCompleted 135.7 KiB/189.3 KiB (1.1 MiB/s) with 4 file(s) remaining\rupload: outputs/Jena5258.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/Jena5258.sedml/plot_1_task1.pdf\nCompleted 135.7 KiB/189.3 KiB (1.1 MiB/s) with 3 file(s) remaining\rCompleted 148.9 KiB/189.3 KiB (1.1 MiB/s) with 3 file(s) remaining\rupload: outputs/Jena5555.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/Jena5555.sedml/plot_1_task1.pdf\nCompleted 148.9 KiB/189.3 KiB (1.1 MiB/s) with 2 file(s) remaining\rCompleted 151.9 KiB/189.3 KiB (975.1 KiB/s) with 2 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/rawLog.txt\nCompleted 151.9 KiB/189.3 KiB (975.1 KiB/s) with 1 file(s) remaining\rCompleted 189.3 KiB/189.3 KiB (1.2 MiB/s) with 1 file(s) remaining  \rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/outputs/plots.zip\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/Bakum1832.cps  \n  inflating: contents/Bakum1832.sedml  \n  inflating: contents/Jena2688.cps   \n  inflating: contents/Jena2688.sedml  \n  inflating: contents/Jena5258-biopax2.owl  \n  inflating: contents/Jena5258-biopax3.owl  \n  inflating: contents/Jena5258-matlab.m  \n  inflating: contents/Jena5258-octave.m  \n  inflating: contents/Jena5258.cps   \n  inflating: contents/Jena5258.ode   \n  inflating: contents/Jena5258.sedml  \n  inflating: contents/Jena5258.xml   \n  inflating: contents/Jena5555.cps   \n  inflating: contents/Jena5555.sedml  \n  inflating: contents/curation_image.png  \n  inflating: contents/curation_notes.txt  \n  inflating: contents/metadata.rdf   \n  inflating: contents/manifest.xml   \nCompleted 55.3 KiB/378.9 KiB (646.8 KiB/s) with 18 file(s) remaining\rupload: contents/Bakum1832.cps to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Bakum1832.cps\nCompleted 55.3 KiB/378.9 KiB (646.8 KiB/s) with 17 file(s) remaining\rCompleted 68.6 KiB/378.9 KiB (561.2 KiB/s) with 17 file(s) remaining\rupload: contents/Jena2688.sedml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena2688.sedml\nCompleted 68.6 KiB/378.9 KiB (561.2 KiB/s) with 16 file(s) remaining\rCompleted 73.3 KiB/378.9 KiB (577.5 KiB/s) with 16 file(s) remaining\rupload: contents/Jena5258-octave.m to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258-octave.m\nCompleted 73.3 KiB/378.9 KiB (577.5 KiB/s) with 15 file(s) remaining\rCompleted 76.2 KiB/378.9 KiB (538.2 KiB/s) with 15 file(s) remaining\rupload: contents/Jena5258.ode to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258.ode\nCompleted 76.2 KiB/378.9 KiB (538.2 KiB/s) with 14 file(s) remaining\rCompleted 89.5 KiB/378.9 KiB (588.1 KiB/s) with 14 file(s) remaining\rupload: contents/Jena5258.sedml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258.sedml\nCompleted 89.5 KiB/378.9 KiB (588.1 KiB/s) with 13 file(s) remaining\rCompleted 144.8 KiB/378.9 KiB (896.0 KiB/s) with 13 file(s) remaining\rupload: contents/Jena2688.cps to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena2688.cps\nCompleted 144.8 KiB/378.9 KiB (896.0 KiB/s) with 12 file(s) remaining\rCompleted 200.2 KiB/378.9 KiB (1.2 MiB/s) with 12 file(s) remaining  \rupload: contents/Jena5258.cps to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258.cps\nCompleted 200.2 KiB/378.9 KiB (1.2 MiB/s) with 11 file(s) remaining\rCompleted 229.5 KiB/378.9 KiB (1.3 MiB/s) with 11 file(s) remaining\rupload: contents/Jena5258.xml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258.xml\nCompleted 229.5 KiB/378.9 KiB (1.3 MiB/s) with 10 file(s) remaining\rCompleted 229.8 KiB/378.9 KiB (1.2 MiB/s) with 10 file(s) remaining\rupload: contents/curation_notes.txt to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/curation_notes.txt\nCompleted 229.8 KiB/378.9 KiB (1.2 MiB/s) with 9 file(s) remaining\rCompleted 268.3 KiB/378.9 KiB (1.4 MiB/s) with 9 file(s) remaining\rupload: contents/curation_image.png to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/curation_image.png\nCompleted 268.3 KiB/378.9 KiB (1.4 MiB/s) with 8 file(s) remaining\rCompleted 323.7 KiB/378.9 KiB (1.6 MiB/s) with 8 file(s) remaining\rupload: contents/Jena5555.cps to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5555.cps\nCompleted 323.7 KiB/378.9 KiB (1.6 MiB/s) with 7 file(s) remaining\rCompleted 325.7 KiB/378.9 KiB (1.6 MiB/s) with 7 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/manifest.xml\nCompleted 325.7 KiB/378.9 KiB (1.6 MiB/s) with 6 file(s) remaining\rCompleted 338.9 KiB/378.9 KiB (1.7 MiB/s) with 6 file(s) remaining\rupload: contents/Jena5555.sedml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5555.sedml\nCompleted 338.9 KiB/378.9 KiB (1.7 MiB/s) with 5 file(s) remaining\rCompleted 340.4 KiB/378.9 KiB (1.6 MiB/s) with 5 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/metadata.rdf\nCompleted 340.4 KiB/378.9 KiB (1.6 MiB/s) with 4 file(s) remaining\rCompleted 345.1 KiB/378.9 KiB (1.5 MiB/s) with 4 file(s) remaining\rupload: contents/Jena5258-matlab.m to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258-matlab.m\nCompleted 345.1 KiB/378.9 KiB (1.5 MiB/s) with 3 file(s) remaining\rCompleted 353.8 KiB/378.9 KiB (1.5 MiB/s) with 3 file(s) remaining\rupload: contents/Jena5258-biopax2.owl to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258-biopax2.owl\nCompleted 353.8 KiB/378.9 KiB (1.5 MiB/s) with 2 file(s) remaining\rCompleted 367.0 KiB/378.9 KiB (1.5 MiB/s) with 2 file(s) remaining\rupload: contents/Bakum1832.sedml to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Bakum1832.sedml\nCompleted 367.0 KiB/378.9 KiB (1.5 MiB/s) with 1 file(s) remaining\rCompleted 378.9 KiB/378.9 KiB (1.5 MiB/s) with 1 file(s) remaining\rupload: contents/Jena5258-biopax3.owl to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/contents/Jena5258-biopax3.owl\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 10.3 KiB/10.3 KiB (131.3 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a4b510fb37cdb9ae7348c/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /Bakum1832.sedml\ncreating dataset /Bakum1832.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-63f6-7cabe8-b32a08, chunk_size: (22, 101)\ncreating dataset /Bakum1832.sedml/plot_1_task1, shape: (6, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-e510-3c139f-bf13b3, chunk_size: (6, 101)\ncreating group /Jena2688.sedml\ncreating dataset /Jena2688.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-e485-deee9d-af7ef3, chunk_size: (22, 101)\ncreating dataset /Jena2688.sedml/plot_1_task1, shape: (6, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-8ae8-eb264b-00f9da, chunk_size: (6, 101)\ncreating group /Jena5258.sedml\ncreating dataset /Jena5258.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-ce11-983e0d-fdee13, chunk_size: (22, 101)\ncreating dataset /Jena5258.sedml/plot_1_task1, shape: (6, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-7105-6d6e73-7c015f, chunk_size: (6, 101)\ncreating group /Jena5555.sedml\ncreating dataset /Jena5555.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-65b0-3fb18c-038718, chunk_size: (22, 101)\ncreating dataset /Jena5555.sedml/plot_1_task1, shape: (6, 101), type: float64\ndataset created, uuid: d-fe5a4773-ab3244c1-3c69-1c1cbe-77f6f1, chunk_size: (6, 101)\ncreating attribute combineArchiveLocation in /Bakum1832.sedml\ncreating attribute uri in /Bakum1832.sedml\ncreating attribute _type in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute uri in /Bakum1832.sedml/autogen_report_for_task1\ncreating attribute _type in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlId in /Bakum1832.sedml/plot_1_task1\ncreating attribute sedmlName in /Bakum1832.sedml/plot_1_task1\ncreating attribute uri in /Bakum1832.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /Jena2688.sedml\ncreating attribute uri in /Jena2688.sedml\ncreating attribute _type in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute uri in /Jena2688.sedml/autogen_report_for_task1\ncreating attribute _type in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlId in /Jena2688.sedml/plot_1_task1\ncreating attribute sedmlName in /Jena2688.sedml/plot_1_task1\ncreating attribute uri in /Jena2688.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /Jena5258.sedml\ncreating attribute uri in /Jena5258.sedml\ncreating attribute _type in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute uri in /Jena5258.sedml/autogen_report_for_task1\ncreating attribute _type in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlId in /Jena5258.sedml/plot_1_task1\ncreating attribute sedmlName in /Jena5258.sedml/plot_1_task1\ncreating attribute uri in /Jena5258.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /Jena5555.sedml\ncreating attribute uri in /Jena5555.sedml\ncreating attribute _type in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute uri in /Jena5555.sedml/autogen_report_for_task1\ncreating attribute _type in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlId in /Jena5555.sedml/plot_1_task1\ncreating attribute sedmlName in /Jena5555.sedml/plot_1_task1\ncreating attribute uri in /Jena5555.sedml/plot_1_task1\ncreate_links: /\ngot link: Bakum1832.sedml\ngot link: Jena2688.sedml\ngot link: Jena5258.sedml\ngot link: Jena5555.sedml\ncreate_links: /Bakum1832.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /Jena2688.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /Jena5258.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /Jena5555.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\nwrite_dataset src: /Bakum1832.sedml/autogen_report_for_task1 to tgt: /Bakum1832.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /Bakum1832.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /Bakum1832.sedml/autogen_report_for_task1\nwrite_dataset src: /Bakum1832.sedml/plot_1_task1 to tgt: /Bakum1832.sedml/plot_1_task1, shape: (6, 101), type: float64\niterating over chunks for /Bakum1832.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 6, 1), slice(0, 101, 1))\ndone with dataload for /Bakum1832.sedml/plot_1_task1\nwrite_dataset src: /Jena2688.sedml/autogen_report_for_task1 to tgt: /Jena2688.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /Jena2688.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /Jena2688.sedml/autogen_report_for_task1\nwrite_dataset src: /Jena2688.sedml/plot_1_task1 to tgt: /Jena2688.sedml/plot_1_task1, shape: (6, 101), type: float64\niterating over chunks for /Jena2688.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 6, 1), slice(0, 101, 1))\ndone with dataload for /Jena2688.sedml/plot_1_task1\nwrite_dataset src: /Jena5258.sedml/autogen_report_for_task1 to tgt: /Jena5258.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /Jena5258.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /Jena5258.sedml/autogen_report_for_task1\nwrite_dataset src: /Jena5258.sedml/plot_1_task1 to tgt: /Jena5258.sedml/plot_1_task1, shape: (6, 101), type: float64\niterating over chunks for /Jena5258.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 6, 1), slice(0, 101, 1))\ndone with dataload for /Jena5258.sedml/plot_1_task1\nwrite_dataset src: /Jena5555.sedml/autogen_report_for_task1 to tgt: /Jena5555.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /Jena5555.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /Jena5555.sedml/autogen_report_for_task1\nwrite_dataset src: /Jena5555.sedml/plot_1_task1 to tgt: /Jena5555.sedml/plot_1_task1, shape: (6, 101), type: float64\niterating over chunks for /Jena5555.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 6, 1), slice(0, 101, 1))\ndone with dataload for /Jena5555.sedml/plot_1_task1\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/647a4b510fb37cdb9ae7348c\n\n\u001b[0;36m================================================== Saving final log =================================================\u001b[0m\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mProcess 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 the SED-ML file in the COMBINE archive ... succeeded.\nPost the SED-ML file to the API ... succeeded.\nProcess and upload the outputs of the simulation run ... succeeded.\nProcess the metadata in the COMBINE archive ... succeeded.\nPost the metadata to the API ... succeeded.\nRetrieve the logs of the simulation run ... succeeded.\nPost the logs to the API ... succeeded.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":3.742994,"sedDocuments":[{"location":"Bakum1832.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Archive contains 4 SED-ML documents with 4 models, 4 simulations, 4 tasks, 4 reports, and 4 plots:\r\n  Bakum1832.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 22 data sets\r\n    Plots (1):\r\n      plot_1_task1: 5 curves\r\n  Jena2688.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 22 data sets\r\n    Plots (1):\r\n      plot_1_task1: 5 curves\r\n  Jena5258.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 22 data sets\r\n    Plots (1):\r\n      plot_1_task1: 5 curves\r\n  Jena5555.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 22 data sets\r\n    Plots (1):\r\n      plot_1_task1: 5 curves\r\n\r\nExecuting SED-ML file 1: Bakum1832.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":0.876134,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.223221,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"simulate"},{"key":"solver","value":"cvode"},{"key":"relative_tolerance","value":0.000001},{"key":"absolute_tolerance","value":1e-12},{"key":"stiff","value":true},{"key":"maximum_bdf_order","value":5},{"key":"maximum_adams_order","value":12},{"key":"maximum_num_steps","value":20000},{"key":"maximum_time_step","value":0},{"key":"minimum_time_step","value":0},{"key":"initial_time_step","value":0},{"key":"multiple_steps","value":false},{"key":"variable_step_size","value":false},{"key":"max_output_rows","value":100000}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.386514,"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":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.067721,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_P","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_S","status":"SUCCEEDED"},{"id":"autogen_task1_f_D","status":"SUCCEEDED"},{"id":"autogen_task1_alpha","status":"SUCCEEDED"},{"id":"autogen_task1_k_p","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_gamma","status":"SUCCEEDED"},{"id":"autogen_task1_theta","status":"SUCCEEDED"},{"id":"autogen_task1_epsilon","status":"SUCCEEDED"},{"id":"autogen_task1_delta","status":"SUCCEEDED"},{"id":"autogen_task1_omega","status":"SUCCEEDED"},{"id":"autogen_task1_rho","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","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"}]}]},{"location":"Jena2688.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":" \u001b[34msucceeded\u001b[0m\r\n\r\n  Executed 1 tasks and 2 outputs:\r\n    Tasks:\r\n      Succeeded: 1\r\n      Skipped: 0\r\n      Failed: 0\r\n    Outputs:\r\n      Succeeded: 2\r\n      Skipped: 0\r\n      Failed: 0\r\nExecuting SED-ML file 2: Jena2688.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":0.587445,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.109743,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"simulate"},{"key":"solver","value":"cvode"},{"key":"relative_tolerance","value":0.000001},{"key":"absolute_tolerance","value":1e-12},{"key":"stiff","value":true},{"key":"maximum_bdf_order","value":5},{"key":"maximum_adams_order","value":12},{"key":"maximum_num_steps","value":20000},{"key":"maximum_time_step","value":0},{"key":"minimum_time_step","value":0},{"key":"initial_time_step","value":0},{"key":"multiple_steps","value":false},{"key":"variable_step_size","value":false},{"key":"max_output_rows","value":100000}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.17913,"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":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.07335,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_P","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_S","status":"SUCCEEDED"},{"id":"autogen_task1_f_D","status":"SUCCEEDED"},{"id":"autogen_task1_alpha","status":"SUCCEEDED"},{"id":"autogen_task1_k_p","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_gamma","status":"SUCCEEDED"},{"id":"autogen_task1_theta","status":"SUCCEEDED"},{"id":"autogen_task1_epsilon","status":"SUCCEEDED"},{"id":"autogen_task1_delta","status":"SUCCEEDED"},{"id":"autogen_task1_omega","status":"SUCCEEDED"},{"id":"autogen_task1_rho","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","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"}]}]},{"location":"Jena5258.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":" \u001b[34msucceeded\u001b[0m\r\n\r\n  Executed 1 tasks and 2 outputs:\r\n    Tasks:\r\n      Succeeded: 1\r\n      Skipped: 0\r\n      Failed: 0\r\n    Outputs:\r\n      Succeeded: 2\r\n      Skipped: 0\r\n      Failed: 0\r\nExecuting SED-ML file 3: Jena5258.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":0.610558,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.111181,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"simulate"},{"key":"solver","value":"cvode"},{"key":"relative_tolerance","value":0.000001},{"key":"absolute_tolerance","value":1e-12},{"key":"stiff","value":true},{"key":"maximum_bdf_order","value":5},{"key":"maximum_adams_order","value":12},{"key":"maximum_num_steps","value":20000},{"key":"maximum_time_step","value":0},{"key":"minimum_time_step","value":0},{"key":"initial_time_step","value":0},{"key":"multiple_steps","value":false},{"key":"variable_step_size","value":false},{"key":"max_output_rows","value":100000}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.195087,"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":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.072842,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_P","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_S","status":"SUCCEEDED"},{"id":"autogen_task1_f_D","status":"SUCCEEDED"},{"id":"autogen_task1_alpha","status":"SUCCEEDED"},{"id":"autogen_task1_k_p","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_gamma","status":"SUCCEEDED"},{"id":"autogen_task1_theta","status":"SUCCEEDED"},{"id":"autogen_task1_epsilon","status":"SUCCEEDED"},{"id":"autogen_task1_delta","status":"SUCCEEDED"},{"id":"autogen_task1_omega","status":"SUCCEEDED"},{"id":"autogen_task1_rho","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","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"}]}]},{"location":"Jena5555.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":" \u001b[34msucceeded\u001b[0m\r\n\r\n  Executed 1 tasks and 2 outputs:\r\n    Tasks:\r\n      Succeeded: 1\r\n      Skipped: 0\r\n      Failed: 0\r\n    Outputs:\r\n      Succeeded: 2\r\n      Skipped: 0\r\n      Failed: 0\r\nExecuting SED-ML file 4: Jena5555.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":0.746606,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.111468,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"simulate"},{"key":"solver","value":"cvode"},{"key":"relative_tolerance","value":0.000001},{"key":"absolute_tolerance","value":1e-12},{"key":"stiff","value":true},{"key":"maximum_bdf_order","value":5},{"key":"maximum_adams_order","value":12},{"key":"maximum_num_steps","value":20000},{"key":"maximum_time_step","value":0},{"key":"minimum_time_step","value":0},{"key":"initial_time_step","value":0},{"key":"multiple_steps","value":false},{"key":"variable_step_size","value":false},{"key":"max_output_rows","value":100000}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.321871,"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":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.0741,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_P","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_S","status":"SUCCEEDED"},{"id":"autogen_task1_f_D","status":"SUCCEEDED"},{"id":"autogen_task1_alpha","status":"SUCCEEDED"},{"id":"autogen_task1_k_p","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_gamma","status":"SUCCEEDED"},{"id":"autogen_task1_theta","status":"SUCCEEDED"},{"id":"autogen_task1_epsilon","status":"SUCCEEDED"},{"id":"autogen_task1_delta","status":"SUCCEEDED"},{"id":"autogen_task1_omega","status":"SUCCEEDED"},{"id":"autogen_task1_rho","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","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"}]}]}]}