{"sedDocuments":[{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_C0"},{"status":"SUCCEEDED","id":"data_set_C1"},{"status":"SUCCEEDED","id":"data_set_C2"},{"status":"SUCCEEDED","id":"data_set_C3"},{"status":"SUCCEEDED","id":"data_set_C4"},{"status":"SUCCEEDED","id":"data_set_IK"},{"status":"SUCCEEDED","id":"data_set_O0"},{"status":"SUCCEEDED","id":"data_set_O1"},{"status":"SUCCEEDED","id":"data_set_O2"},{"status":"SUCCEEDED","id":"data_set_O3"},{"status":"SUCCEEDED","id":"data_set_O4"}],"duration":0.131275,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"}],"duration":0.179763,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"euler","key":"meth"},{"value":"50.0","key":"total"},{"value":"0.01","key":"dt"},{"value":"0.0","key":"t0"},{"value":"5","key":"njmp"}],"algorithm":"KISAO_0000030","duration":0.093347,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":0.509612,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n  IKCa_HCA.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 12 data sets\r\n    Plots (1):\r\n      plot: 1 curves\r\n\r\nExecuting SED-ML file 1: IKCa_HCA.sedml ...\r\n  Found 1 tasks and 2 outputs:\r\n    Tasks:\r\n      `task`\r\n    Outputs:\r\n      `plot`\r\n      `report`\r\n  Executing task 1: `task`\r\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n    Generating 2 outputs ...\r\n      Generating output 1: `report` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 2: `plot` ...","skipReason":null,"exception":null,"status":"SUCCEEDED","location":"IKCa_HCA.sedml"}],"duration":0.844512,"output":"\u001b[0;36mThank you for using runBioSimulations!\u001b[0m\n\n\u001b[0;36m================================================ Loading Singularity ================================================\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    451      0 --:--:-- --:--:-- --:--:--   452\n\r  0 1601k    0   483    0     0   1138      0  0:24:01 --:--:--  0:24:01  1138\r100 1601k  100 1601k    0     0  3433k      0 --:--:-- --:--:-- --:--:-- 37.2M\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\n/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mCOMBINE/OMEX archive has warnings.\r\n  - The manifest does not include its parent COMBINE/OMEX archive. Manifests should include their parent COMBINE/OMEX archives.\u001b[0m\r\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\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 contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/readme.html    \n  inflating: contents/IKCa_HCA.ode   \n  inflating: contents/IKCa_HCA.sedml  \n  inflating: contents/metadata.rdf   \n  inflating: contents/article-figures/PMC2230643/JGP7962.s1.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s2.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s3.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s4.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s5.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s6.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s7.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s8.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.s9.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f1.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f2.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f3.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f4.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f5.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f6.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f11.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f7.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f8.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f9.jpg  \n  inflating: contents/article-figures/PMC2230643/JGP7962.f10.jpg  \n  inflating: contents/IKCa_HCA.JPG   \n  inflating: contents/manifest.xml   \nCompleted 7.8 KiB/1.7 MiB (47.5 KiB/s) with 26 file(s) remaining\rupload: contents/IKCa_HCA.sedml to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/IKCa_HCA.sedml\nCompleted 7.8 KiB/1.7 MiB (47.5 KiB/s) with 25 file(s) remaining\rCompleted 9.4 KiB/1.7 MiB (54.7 KiB/s) with 25 file(s) remaining\rupload: contents/IKCa_HCA.ode to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/IKCa_HCA.ode\nCompleted 9.4 KiB/1.7 MiB (54.7 KiB/s) with 24 file(s) remaining\rCompleted 118.7 KiB/1.7 MiB (611.7 KiB/s) with 24 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f11.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f11.jpg\nCompleted 118.7 KiB/1.7 MiB (611.7 KiB/s) with 23 file(s) remaining\rCompleted 278.1 KiB/1.7 MiB (1.3 MiB/s) with 23 file(s) remaining  \rupload: contents/article-figures/PMC2230643/JGP7962.f6.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f6.jpg\nCompleted 278.1 KiB/1.7 MiB (1.3 MiB/s) with 22 file(s) remaining\rCompleted 400.8 KiB/1.7 MiB (1.9 MiB/s) with 22 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f10.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f10.jpg\nCompleted 400.8 KiB/1.7 MiB (1.9 MiB/s) with 21 file(s) remaining\rCompleted 505.0 KiB/1.7 MiB (2.2 MiB/s) with 21 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f1.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f1.jpg\nCompleted 505.0 KiB/1.7 MiB (2.2 MiB/s) with 20 file(s) remaining\rCompleted 599.8 KiB/1.7 MiB (2.5 MiB/s) with 20 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f8.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f8.jpg\nCompleted 599.8 KiB/1.7 MiB (2.5 MiB/s) with 19 file(s) remaining\rCompleted 650.5 KiB/1.7 MiB (2.6 MiB/s) with 19 file(s) remaining\rCompleted 734.6 KiB/1.7 MiB (2.9 MiB/s) with 19 file(s) remaining\rupload: contents/IKCa_HCA.JPG to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/IKCa_HCA.JPG\nCompleted 734.6 KiB/1.7 MiB (2.9 MiB/s) with 18 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f9.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f9.jpg\nCompleted 734.6 KiB/1.7 MiB (2.9 MiB/s) with 17 file(s) remaining\rCompleted 809.1 KiB/1.7 MiB (3.0 MiB/s) with 17 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s2.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s2.jpg\nCompleted 809.1 KiB/1.7 MiB (3.0 MiB/s) with 16 file(s) remaining\rCompleted 860.1 KiB/1.7 MiB (3.1 MiB/s) with 16 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s1.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s1.jpg\nCompleted 860.1 KiB/1.7 MiB (3.1 MiB/s) with 15 file(s) remaining\rCompleted 929.3 KiB/1.7 MiB (3.3 MiB/s) with 15 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f7.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f7.jpg\nCompleted 929.3 KiB/1.7 MiB (3.3 MiB/s) with 14 file(s) remaining\rCompleted 951.6 KiB/1.7 MiB (2.9 MiB/s) with 14 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s5.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s5.jpg\nCompleted 951.6 KiB/1.7 MiB (2.9 MiB/s) with 13 file(s) remaining\rCompleted 975.0 KiB/1.7 MiB (2.8 MiB/s) with 13 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s3.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s3.jpg\nCompleted 975.0 KiB/1.7 MiB (2.8 MiB/s) with 12 file(s) remaining\rCompleted 1021.4 KiB/1.7 MiB (2.8 MiB/s) with 12 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s9.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s9.jpg\nCompleted 1021.4 KiB/1.7 MiB (2.8 MiB/s) with 11 file(s) remaining\rCompleted 1.0 MiB/1.7 MiB (2.9 MiB/s) with 11 file(s) remaining   \rupload: contents/article-figures/PMC2230643/JGP7962.s8.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s8.jpg\nCompleted 1.0 MiB/1.7 MiB (2.9 MiB/s) with 10 file(s) remaining\rCompleted 1.1 MiB/1.7 MiB (2.9 MiB/s) with 10 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s6.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s6.jpg\nCompleted 1.1 MiB/1.7 MiB (2.9 MiB/s) with 9 file(s) remaining\rCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 9 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s4.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s4.jpg\nCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 8 file(s) remaining\rCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 8 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/manifest.xml\nCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 7 file(s) remaining\rCompleted 1.1 MiB/1.7 MiB (3.1 MiB/s) with 7 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.s7.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.s7.jpg\nCompleted 1.1 MiB/1.7 MiB (3.1 MiB/s) with 6 file(s) remaining\rCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 6 file(s) remaining\rupload: contents/readme.html to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/readme.html\nCompleted 1.1 MiB/1.7 MiB (3.0 MiB/s) with 5 file(s) remaining\rCompleted 1.3 MiB/1.7 MiB (3.2 MiB/s) with 5 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/metadata.rdf\nCompleted 1.3 MiB/1.7 MiB (3.2 MiB/s) with 4 file(s) remaining\rCompleted 1.4 MiB/1.7 MiB (3.0 MiB/s) with 4 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f2.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f2.jpg\nCompleted 1.4 MiB/1.7 MiB (3.0 MiB/s) with 3 file(s) remaining\rCompleted 1.5 MiB/1.7 MiB (2.9 MiB/s) with 3 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f4.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f4.jpg\nCompleted 1.5 MiB/1.7 MiB (2.9 MiB/s) with 2 file(s) remaining\rCompleted 1.5 MiB/1.7 MiB (3.0 MiB/s) with 2 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f3.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f3.jpg\nCompleted 1.5 MiB/1.7 MiB (3.0 MiB/s) with 1 file(s) remaining\rCompleted 1.7 MiB/1.7 MiB (3.2 MiB/s) with 1 file(s) remaining\rupload: contents/article-figures/PMC2230643/JGP7962.f5.jpg to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/contents/article-figures/PMC2230643/JGP7962.f5.jpg\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /IKCa_HCA.sedml\ncreating dataset /IKCa_HCA.sedml/plot, shape: (2, 1001), type: float64\ndataset created, uuid: d-83cdbece-70b53e1b-5c8c-e09ce9-8313cf, chunk_size: (2, 1001)\ncreating dataset /IKCa_HCA.sedml/report, shape: (12, 1001), type: float64\ndataset created, uuid: d-83cdbece-70b53e1b-00c0-f43077-417876, chunk_size: (12, 1001)\ncreating attribute combineArchiveLocation in /IKCa_HCA.sedml\ncreating attribute uri in /IKCa_HCA.sedml\ncreating attribute _type in /IKCa_HCA.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /IKCa_HCA.sedml/plot\ncreating attribute sedmlDataSetIds in /IKCa_HCA.sedml/plot\ncreating attribute sedmlDataSetLabels in /IKCa_HCA.sedml/plot\ncreating attribute sedmlDataSetNames in /IKCa_HCA.sedml/plot\ncreating attribute sedmlDataSetShapes in /IKCa_HCA.sedml/plot\ncreating attribute sedmlId in /IKCa_HCA.sedml/plot\ncreating attribute uri in /IKCa_HCA.sedml/plot\ncreating attribute _type in /IKCa_HCA.sedml/report\ncreating attribute sedmlDataSetDataTypes in /IKCa_HCA.sedml/report\ncreating attribute sedmlDataSetIds in /IKCa_HCA.sedml/report\ncreating attribute sedmlDataSetLabels in /IKCa_HCA.sedml/report\ncreating attribute sedmlDataSetNames in /IKCa_HCA.sedml/report\ncreating attribute sedmlDataSetShapes in /IKCa_HCA.sedml/report\ncreating attribute sedmlId in /IKCa_HCA.sedml/report\ncreating attribute sedmlName in /IKCa_HCA.sedml/report\ncreating attribute uri in /IKCa_HCA.sedml/report\ncreate_links: /\ngot link: IKCa_HCA.sedml\ncreate_links: /IKCa_HCA.sedml\ngot link: plot\ngot link: report\nwrite_dataset src: /IKCa_HCA.sedml/plot to tgt: /IKCa_HCA.sedml/plot, shape: (2, 1001), type: float64\niterating over chunks for /IKCa_HCA.sedml/plot\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1001, 1))\ndone with dataload for /IKCa_HCA.sedml/plot\nwrite_dataset src: /IKCa_HCA.sedml/report to tgt: /IKCa_HCA.sedml/report, shape: (12, 1001), type: float64\niterating over chunks for /IKCa_HCA.sedml/report\nwriting dataset data for slice: (slice(0, 12, 1), slice(0, 1001, 1))\ndone with dataload for /IKCa_HCA.sedml/report\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/621d429987550e369891ba3c\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 68%)\n  adding: outputs/IKCa_HCA.sedml/ (stored 0%)\n  adding: outputs/IKCa_HCA.sedml/plot.pdf (deflated 35%)\n  adding: outputs/reports.h5 (deflated 21%)\n  adding: rawLog.txt (deflated 85%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 13.6 KiB/117.0 KiB (125.6 KiB/s) with 4 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/rawLog.txt\nCompleted 13.6 KiB/117.0 KiB (125.6 KiB/s) with 3 file(s) remaining\rCompleted 106.6 KiB/117.0 KiB (818.5 KiB/s) with 3 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/output.zip\nCompleted 106.6 KiB/117.0 KiB (818.5 KiB/s) with 2 file(s) remaining\rCompleted 113.0 KiB/117.0 KiB (714.4 KiB/s) with 2 file(s) remaining\rupload: outputs/IKCa_HCA.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/outputs/IKCa_HCA.sedml/plot.pdf\nCompleted 113.0 KiB/117.0 KiB (714.4 KiB/s) with 1 file(s) remaining\rCompleted 117.0 KiB/117.0 KiB (537.7 KiB/s) with 1 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/outputs/plots.zip\nCompleted 107.8 KiB/107.8 KiB (1.1 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/outputs/reports.h5\nCompleted 2.4 KiB/2.4 KiB (25.6 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/621d429987550e369891ba3c/outputs/log.yml\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mProcess 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.\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.\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","skipReason":null,"exception":null,"status":"SUCCEEDED"}