{"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    486      0 --:--:-- --:--:-- --:--:--   486\n\r100 82240  100 82240    0     0   197k      0 --:--:-- --:--:-- --:--:--  197k\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 (15.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/rawLog.txt\nCompleted 11.7 KiB/11.7 KiB (150.7 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 91%)\n  adding: outputs/Triphasic.sedml/ (stored 0%)\n  adding: outputs/Triphasic.sedml/plot_1_task1.pdf (deflated 34%)\n  adding: outputs/PVR.sedml/ (stored 0%)\n  adding: outputs/PVR.sedml/plot_1_task1.pdf (deflated 28%)\n  adding: outputs/Breakthrough.sedml/ (stored 0%)\n  adding: outputs/Breakthrough.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: outputs/reports.h5 (deflated 63%)\n  adding: outputs/NullResponse.sedml/ (stored 0%)\n  adding: outputs/NullResponse.sedml/plot_1_task1.pdf (deflated 27%)\n  adding: rawLog.txt (deflated 71%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 125.7 KiB/125.7 KiB (1.2 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/reports.h5\nCompleted 11.5 KiB/155.5 KiB (96.1 KiB/s) with 7 file(s) remaining\rupload: outputs/Breakthrough.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/Breakthrough.sedml/plot_1_task1.pdf\nCompleted 11.5 KiB/155.5 KiB (96.1 KiB/s) with 6 file(s) remaining\rCompleted 23.0 KiB/155.5 KiB (179.8 KiB/s) with 6 file(s) remaining\rupload: outputs/NullResponse.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/NullResponse.sedml/plot_1_task1.pdf\nCompleted 23.0 KiB/155.5 KiB (179.8 KiB/s) with 5 file(s) remaining\rCompleted 34.0 KiB/155.5 KiB (259.9 KiB/s) with 5 file(s) remaining\rupload: outputs/PVR.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/PVR.sedml/plot_1_task1.pdf\nCompleted 34.0 KiB/155.5 KiB (259.9 KiB/s) with 4 file(s) remaining\rCompleted 114.6 KiB/155.5 KiB (862.0 KiB/s) with 4 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/output.zip\nCompleted 114.6 KiB/155.5 KiB (862.0 KiB/s) with 3 file(s) remaining\rCompleted 144.0 KiB/155.5 KiB (1.0 MiB/s) with 3 file(s) remaining  \rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/plots.zip\nCompleted 144.0 KiB/155.5 KiB (1.0 MiB/s) with 2 file(s) remaining\rCompleted 147.0 KiB/155.5 KiB (918.8 KiB/s) with 2 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/rawLog.txt\nCompleted 147.0 KiB/155.5 KiB (918.8 KiB/s) with 1 file(s) remaining\rCompleted 155.5 KiB/155.5 KiB (870.9 KiB/s) with 1 file(s) remaining\rupload: outputs/Triphasic.sedml/plot_1_task1.pdf to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/outputs/Triphasic.sedml/plot_1_task1.pdf\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/Breakthrough.cps  \n  inflating: contents/Breakthrough.sedml  \n  inflating: contents/NullResponse.cps  \n  inflating: contents/NullResponse.sedml  \n  inflating: contents/PVR-biopax2.owl  \n  inflating: contents/PVR-biopax3.owl  \n  inflating: contents/PVR-matlab.m   \n  inflating: contents/PVR-octave.m   \n  inflating: contents/PVR.cps        \n  inflating: contents/PVR.ode        \n  inflating: contents/PVR.sedml      \n  inflating: contents/PVR.xml        \n  inflating: contents/Triphasic.cps  \n  inflating: contents/Triphasic.sedml  \n  inflating: contents/curation_image.png  \n  inflating: contents/curation_notes.txt  \n  inflating: contents/metadata.rdf   \n  inflating: contents/manifest.xml   \nCompleted 13.0 KiB/419.4 KiB (176.4 KiB/s) with 18 file(s) remaining\rupload: contents/Breakthrough.sedml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/Breakthrough.sedml\nCompleted 13.0 KiB/419.4 KiB (176.4 KiB/s) with 17 file(s) remaining\rCompleted 25.9 KiB/419.4 KiB (203.2 KiB/s) with 17 file(s) remaining\rupload: contents/NullResponse.sedml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/NullResponse.sedml\nCompleted 25.9 KiB/419.4 KiB (203.2 KiB/s) with 16 file(s) remaining\rCompleted 62.9 KiB/419.4 KiB (427.5 KiB/s) with 16 file(s) remaining\rupload: contents/curation_image.png to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/curation_image.png\nCompleted 62.9 KiB/419.4 KiB (427.5 KiB/s) with 15 file(s) remaining\rCompleted 125.0 KiB/419.4 KiB (833.0 KiB/s) with 15 file(s) remaining\rupload: contents/PVR.cps to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR.cps\nCompleted 125.0 KiB/419.4 KiB (833.0 KiB/s) with 14 file(s) remaining\rCompleted 138.0 KiB/419.4 KiB (896.0 KiB/s) with 14 file(s) remaining\rupload: contents/PVR.sedml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR.sedml\nCompleted 138.0 KiB/419.4 KiB (896.0 KiB/s) with 13 file(s) remaining\rCompleted 200.3 KiB/419.4 KiB (1.2 MiB/s) with 13 file(s) remaining  \rupload: contents/NullResponse.cps to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/NullResponse.cps\nCompleted 200.3 KiB/419.4 KiB (1.2 MiB/s) with 12 file(s) remaining\rCompleted 236.3 KiB/419.4 KiB (1.4 MiB/s) with 12 file(s) remaining\rupload: contents/PVR.xml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR.xml\nCompleted 236.3 KiB/419.4 KiB (1.4 MiB/s) with 11 file(s) remaining\rCompleted 298.7 KiB/419.4 KiB (1.7 MiB/s) with 11 file(s) remaining\rupload: contents/Breakthrough.cps to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/Breakthrough.cps\nCompleted 298.7 KiB/419.4 KiB (1.7 MiB/s) with 10 file(s) remaining\rCompleted 311.7 KiB/419.4 KiB (1.7 MiB/s) with 10 file(s) remaining\rupload: contents/Triphasic.sedml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/Triphasic.sedml\nCompleted 311.7 KiB/419.4 KiB (1.7 MiB/s) with 9 file(s) remaining\rCompleted 315.2 KiB/419.4 KiB (1.6 MiB/s) with 9 file(s) remaining\rupload: contents/PVR.ode to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR.ode\nCompleted 315.2 KiB/419.4 KiB (1.6 MiB/s) with 8 file(s) remaining\rCompleted 377.4 KiB/419.4 KiB (1.8 MiB/s) with 8 file(s) remaining\rupload: contents/Triphasic.cps to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/Triphasic.cps\nCompleted 377.4 KiB/419.4 KiB (1.8 MiB/s) with 7 file(s) remaining\rCompleted 377.7 KiB/419.4 KiB (1.8 MiB/s) with 7 file(s) remaining\rupload: contents/curation_notes.txt to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/curation_notes.txt\nCompleted 377.7 KiB/419.4 KiB (1.8 MiB/s) with 6 file(s) remaining\rCompleted 382.9 KiB/419.4 KiB (1.7 MiB/s) with 6 file(s) remaining\rupload: contents/PVR-octave.m to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR-octave.m\nCompleted 382.9 KiB/419.4 KiB (1.7 MiB/s) with 5 file(s) remaining\rCompleted 384.9 KiB/419.4 KiB (1.7 MiB/s) with 5 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/manifest.xml\nCompleted 384.9 KiB/419.4 KiB (1.7 MiB/s) with 4 file(s) remaining\rCompleted 396.3 KiB/419.4 KiB (1.6 MiB/s) with 4 file(s) remaining\rCompleted 412.9 KiB/419.4 KiB (1.7 MiB/s) with 4 file(s) remaining\rupload: contents/PVR-biopax3.owl to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR-biopax3.owl\nCompleted 412.9 KiB/419.4 KiB (1.7 MiB/s) with 3 file(s) remaining\rCompleted 414.2 KiB/419.4 KiB (1.7 MiB/s) with 3 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/metadata.rdf\nCompleted 414.2 KiB/419.4 KiB (1.7 MiB/s) with 2 file(s) remaining\rupload: contents/PVR-biopax2.owl to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR-biopax2.owl\nCompleted 414.2 KiB/419.4 KiB (1.7 MiB/s) with 1 file(s) remaining\rCompleted 419.4 KiB/419.4 KiB (1.6 MiB/s) with 1 file(s) remaining\rupload: contents/PVR-matlab.m to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/contents/PVR-matlab.m\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 10.3 KiB/10.3 KiB (138.7 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/647a618577b6669655064b2f/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /Breakthrough.sedml\ncreating dataset /Breakthrough.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-a62c-1cd260-c5eed4, chunk_size: (22, 101)\ncreating dataset /Breakthrough.sedml/plot_1_task1, shape: (4, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-1a2a-eaed86-01d054, chunk_size: (4, 101)\ncreating group /NullResponse.sedml\ncreating dataset /NullResponse.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-ab59-43d53d-3e55ce, chunk_size: (22, 101)\ncreating dataset /NullResponse.sedml/plot_1_task1, shape: (4, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-9664-8558a1-d116bd, chunk_size: (4, 101)\ncreating group /PVR.sedml\ncreating dataset /PVR.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-60d4-630be6-a2cd6d, chunk_size: (22, 101)\ncreating dataset /PVR.sedml/plot_1_task1, shape: (4, 101), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-960b-1aede0-0b63b7, chunk_size: (4, 101)\ncreating group /Triphasic.sedml\ncreating dataset /Triphasic.sedml/autogen_report_for_task1, shape: (22, 20), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-a96c-9188c5-5cb41a, chunk_size: (22, 20)\ncreating dataset /Triphasic.sedml/plot_1_task1, shape: (4, 20), type: float64\ndataset created, uuid: d-2d42b38d-e9a77dbf-3b41-fbfaba-04ae23, chunk_size: (4, 20)\ncreating attribute combineArchiveLocation in /Breakthrough.sedml\ncreating attribute uri in /Breakthrough.sedml\ncreating attribute _type in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute uri in /Breakthrough.sedml/autogen_report_for_task1\ncreating attribute _type in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlId in /Breakthrough.sedml/plot_1_task1\ncreating attribute sedmlName in /Breakthrough.sedml/plot_1_task1\ncreating attribute uri in /Breakthrough.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /NullResponse.sedml\ncreating attribute uri in /NullResponse.sedml\ncreating attribute _type in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute uri in /NullResponse.sedml/autogen_report_for_task1\ncreating attribute _type in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlId in /NullResponse.sedml/plot_1_task1\ncreating attribute sedmlName in /NullResponse.sedml/plot_1_task1\ncreating attribute uri in /NullResponse.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /PVR.sedml\ncreating attribute uri in /PVR.sedml\ncreating attribute _type in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /PVR.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /PVR.sedml/autogen_report_for_task1\ncreating attribute uri in /PVR.sedml/autogen_report_for_task1\ncreating attribute _type in /PVR.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /PVR.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /PVR.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /PVR.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /PVR.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /PVR.sedml/plot_1_task1\ncreating attribute sedmlId in /PVR.sedml/plot_1_task1\ncreating attribute sedmlName in /PVR.sedml/plot_1_task1\ncreating attribute uri in /PVR.sedml/plot_1_task1\ncreating attribute combineArchiveLocation in /Triphasic.sedml\ncreating attribute uri in /Triphasic.sedml\ncreating attribute _type in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute uri in /Triphasic.sedml/autogen_report_for_task1\ncreating attribute _type in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlDataSetDataTypes in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlDataSetIds in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlDataSetLabels in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlDataSetNames in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlDataSetShapes in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlId in /Triphasic.sedml/plot_1_task1\ncreating attribute sedmlName in /Triphasic.sedml/plot_1_task1\ncreating attribute uri in /Triphasic.sedml/plot_1_task1\ncreate_links: /\ngot link: Breakthrough.sedml\ngot link: NullResponse.sedml\ngot link: PVR.sedml\ngot link: Triphasic.sedml\ncreate_links: /Breakthrough.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /NullResponse.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /PVR.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\ncreate_links: /Triphasic.sedml\ngot link: autogen_report_for_task1\ngot link: plot_1_task1\nwrite_dataset src: /Breakthrough.sedml/autogen_report_for_task1 to tgt: /Breakthrough.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /Breakthrough.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /Breakthrough.sedml/autogen_report_for_task1\nwrite_dataset src: /Breakthrough.sedml/plot_1_task1 to tgt: /Breakthrough.sedml/plot_1_task1, shape: (4, 101), type: float64\niterating over chunks for /Breakthrough.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 4, 1), slice(0, 101, 1))\ndone with dataload for /Breakthrough.sedml/plot_1_task1\nwrite_dataset src: /NullResponse.sedml/autogen_report_for_task1 to tgt: /NullResponse.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /NullResponse.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /NullResponse.sedml/autogen_report_for_task1\nwrite_dataset src: /NullResponse.sedml/plot_1_task1 to tgt: /NullResponse.sedml/plot_1_task1, shape: (4, 101), type: float64\niterating over chunks for /NullResponse.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 4, 1), slice(0, 101, 1))\ndone with dataload for /NullResponse.sedml/plot_1_task1\nwrite_dataset src: /PVR.sedml/autogen_report_for_task1 to tgt: /PVR.sedml/autogen_report_for_task1, shape: (22, 101), type: float64\niterating over chunks for /PVR.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 101, 1))\ndone with dataload for /PVR.sedml/autogen_report_for_task1\nwrite_dataset src: /PVR.sedml/plot_1_task1 to tgt: /PVR.sedml/plot_1_task1, shape: (4, 101), type: float64\niterating over chunks for /PVR.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 4, 1), slice(0, 101, 1))\ndone with dataload for /PVR.sedml/plot_1_task1\nwrite_dataset src: /Triphasic.sedml/autogen_report_for_task1 to tgt: /Triphasic.sedml/autogen_report_for_task1, shape: (22, 20), type: float64\niterating over chunks for /Triphasic.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 22, 1), slice(0, 20, 1))\ndone with dataload for /Triphasic.sedml/autogen_report_for_task1\nwrite_dataset src: /Triphasic.sedml/plot_1_task1 to tgt: /Triphasic.sedml/plot_1_task1, shape: (4, 20), type: float64\niterating over chunks for /Triphasic.sedml/plot_1_task1\nwriting dataset data for slice: (slice(0, 4, 1), slice(0, 20, 1))\ndone with dataload for /Triphasic.sedml/plot_1_task1\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/647a618577b6669655064b2f\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 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 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 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":51.58837,"sedDocuments":[{"location":"Breakthrough.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  Breakthrough.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: 3 curves\r\n  NullResponse.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: 3 curves\r\n  PVR.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: 3 curves\r\n  Triphasic.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: 3 curves\r\n\r\nExecuting SED-ML file 1: Breakthrough.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":13.804268,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":13.290851,"algorithm":"KISAO_0000496","simulatorDetails":[{"key":"solver","value":"amici.amici.CVodeSolver"},{"key":"method","value":"amici.runAmiciSimulation"},{"key":"arguments"}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.27766,"curves":[{"id":"p1_curve_1_task1","status":"SUCCEEDED"},{"id":"p1_curve_2_task1","status":"SUCCEEDED"},{"id":"p1_curve_3_task1","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.062237,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_T","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_V","status":"SUCCEEDED"},{"id":"autogen_task1_s","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_Tmax","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_d","status":"SUCCEEDED"},{"id":"autogen_task1_R","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_pstar","status":"SUCCEEDED"},{"id":"autogen_task1_c","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"},{"id":"autogen_task1_Reaction_7","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_8","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_9","status":"SUCCEEDED"}]}]},{"location":"NullResponse.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: NullResponse.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":12.297602,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":11.912145,"algorithm":"KISAO_0000496","simulatorDetails":[{"key":"solver","value":"amici.amici.CVodeSolver"},{"key":"method","value":"amici.runAmiciSimulation"},{"key":"arguments"}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.14258,"curves":[{"id":"p1_curve_1_task1","status":"SUCCEEDED"},{"id":"p1_curve_2_task1","status":"SUCCEEDED"},{"id":"p1_curve_3_task1","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.065055,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_T","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_V","status":"SUCCEEDED"},{"id":"autogen_task1_s","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_Tmax","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_d","status":"SUCCEEDED"},{"id":"autogen_task1_R","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_pstar","status":"SUCCEEDED"},{"id":"autogen_task1_c","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"},{"id":"autogen_task1_Reaction_7","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_8","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_9","status":"SUCCEEDED"}]}]},{"location":"PVR.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: PVR.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":12.436407,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":12.009896,"algorithm":"KISAO_0000496","simulatorDetails":[{"key":"solver","value":"amici.amici.CVodeSolver"},{"key":"method","value":"amici.runAmiciSimulation"},{"key":"arguments"}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.159825,"curves":[{"id":"p1_curve_1_task1","status":"SUCCEEDED"},{"id":"p1_curve_2_task1","status":"SUCCEEDED"},{"id":"p1_curve_3_task1","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.067663,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_T","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_V","status":"SUCCEEDED"},{"id":"autogen_task1_s","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_Tmax","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_d","status":"SUCCEEDED"},{"id":"autogen_task1_R","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_pstar","status":"SUCCEEDED"},{"id":"autogen_task1_c","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"},{"id":"autogen_task1_Reaction_7","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_8","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_9","status":"SUCCEEDED"}]}]},{"location":"Triphasic.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: Triphasic.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":12.413405,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":12.053833,"algorithm":"KISAO_0000496","simulatorDetails":[{"key":"solver","value":"amici.amici.CVodeSolver"},{"key":"method","value":"amici.runAmiciSimulation"},{"key":"arguments"}]}],"outputs":[{"id":"plot_1_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.119401,"curves":[{"id":"p1_curve_1_task1","status":"SUCCEEDED"},{"id":"p1_curve_2_task1","status":"SUCCEEDED"},{"id":"p1_curve_3_task1","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.054952,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_T","status":"SUCCEEDED"},{"id":"autogen_task1_I","status":"SUCCEEDED"},{"id":"autogen_task1_V","status":"SUCCEEDED"},{"id":"autogen_task1_s","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_Tmax","status":"SUCCEEDED"},{"id":"autogen_task1_r_T_d","status":"SUCCEEDED"},{"id":"autogen_task1_R","status":"SUCCEEDED"},{"id":"autogen_task1_D","status":"SUCCEEDED"},{"id":"autogen_task1_beta","status":"SUCCEEDED"},{"id":"autogen_task1_pstar","status":"SUCCEEDED"},{"id":"autogen_task1_c","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"},{"id":"autogen_task1_Reaction_7","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_8","status":"SUCCEEDED"},{"id":"autogen_task1_Reaction_9","status":"SUCCEEDED"}]}]}]}