{"sedDocuments":[{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_GABA"},{"status":"SUCCEEDED","id":"data_set_H"},{"status":"SUCCEEDED","id":"data_set_HG"},{"status":"SUCCEEDED","id":"data_set_N"},{"status":"SUCCEEDED","id":"data_set_NG"},{"status":"SUCCEEDED","id":"data_set_NMDA"},{"status":"SUCCEEDED","id":"data_set_Q"},{"status":"SUCCEEDED","id":"data_set_U"},{"status":"SUCCEEDED","id":"data_set_V"},{"status":"SUCCEEDED","id":"data_set_VGABA"}],"duration":0.136243,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"}],"duration":0.197063,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"1000.0","key":"total"},{"value":"stiff","key":"meth"},{"value":"0.0","key":"t0"},{"value":"1","key":"dt"},{"value":"1","key":"njmp"}],"algorithm":"KISAO_0000668","duration":0.365872,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":0.808543,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n  DAandGABAneurons.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 11 data sets\r\n    Plots (1):\r\n      plot: 1 curves\r\n\r\nExecuting SED-ML file 1: DAandGABAneurons.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":"DAandGABAneurons.sedml"}],"duration":1.166401,"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    483      0 --:--:-- --:--:-- --:--:--   484\n\r100  315k  100  315k    0     0   759k      0 --:--:-- --:--:-- --:--:--  759k\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/DAneuronGABApopulationDB.mexmaci64  \n  inflating: contents/DAandGABAneurons.ode  \n  inflating: contents/DAneuronDB.mexmaci64  \n  inflating: contents/DAneuronGABApopulationDB.mexw64  \n  inflating: contents/DAneuronGABApopulationDB.mexa64  \n  inflating: contents/Glu_raster.m   \n  inflating: contents/Readme.html    \n  inflating: contents/DAneuronDB.cpp  \n  inflating: contents/mainDAneuron.m  \n  inflating: contents/DAneuronGABApopulationDB.cpp  \n  inflating: contents/DAneuronDB.mexa64  \n  inflating: contents/DAneuronDB.mexw64  \n  inflating: contents/DAandGABAneurons.sedml  \n  inflating: contents/metadata.rdf   \n  inflating: contents/screenshot1.png  \n  inflating: contents/screenshot2.png  \n  inflating: contents/screenshot3.png  \n  inflating: contents/manifest.xml   \nCompleted 8.9 KiB/472.2 KiB (134.4 KiB/s) with 18 file(s) remaining\rupload: contents/DAandGABAneurons.sedml to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAandGABAneurons.sedml\nCompleted 8.9 KiB/472.2 KiB (134.4 KiB/s) with 17 file(s) remaining\rCompleted 12.5 KiB/472.2 KiB (121.4 KiB/s) with 17 file(s) remaining\rupload: contents/DAandGABAneurons.ode to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAandGABAneurons.ode\nCompleted 12.5 KiB/472.2 KiB (121.4 KiB/s) with 16 file(s) remaining\rCompleted 27.2 KiB/472.2 KiB (229.4 KiB/s) with 16 file(s) remaining\rupload: contents/DAneuronDB.mexa64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronDB.mexa64\nCompleted 27.2 KiB/472.2 KiB (229.4 KiB/s) with 15 file(s) remaining\rCompleted 32.0 KiB/472.2 KiB (234.7 KiB/s) with 15 file(s) remaining\rupload: contents/DAneuronDB.cpp to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronDB.cpp\nCompleted 32.0 KiB/472.2 KiB (234.7 KiB/s) with 14 file(s) remaining\rCompleted 33.0 KiB/472.2 KiB (238.1 KiB/s) with 14 file(s) remaining\rupload: contents/Glu_raster.m to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/Glu_raster.m\nCompleted 33.0 KiB/472.2 KiB (238.1 KiB/s) with 13 file(s) remaining\rCompleted 47.3 KiB/472.2 KiB (330.3 KiB/s) with 13 file(s) remaining\rupload: contents/DAneuronGABApopulationDB.mexmaci64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronGABApopulationDB.mexmaci64\nCompleted 47.3 KiB/472.2 KiB (330.3 KiB/s) with 12 file(s) remaining\rCompleted 257.2 KiB/472.2 KiB (1.7 MiB/s) with 12 file(s) remaining \rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/metadata.rdf\nCompleted 257.2 KiB/472.2 KiB (1.7 MiB/s) with 11 file(s) remaining\rCompleted 269.2 KiB/472.2 KiB (1.8 MiB/s) with 11 file(s) remaining\rupload: contents/DAneuronGABApopulationDB.mexw64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronGABApopulationDB.mexw64\nCompleted 269.2 KiB/472.2 KiB (1.8 MiB/s) with 10 file(s) remaining\rCompleted 271.2 KiB/472.2 KiB (1.7 MiB/s) with 10 file(s) remaining\rupload: contents/Readme.html to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/Readme.html\nCompleted 271.2 KiB/472.2 KiB (1.7 MiB/s) with 9 file(s) remaining\rCompleted 307.3 KiB/472.2 KiB (1.9 MiB/s) with 9 file(s) remaining\rupload: contents/screenshot1.png to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/screenshot1.png\nCompleted 307.3 KiB/472.2 KiB (1.9 MiB/s) with 8 file(s) remaining\rCompleted 309.3 KiB/472.2 KiB (1.8 MiB/s) with 8 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/manifest.xml\nCompleted 309.3 KiB/472.2 KiB (1.8 MiB/s) with 7 file(s) remaining\rCompleted 314.9 KiB/472.2 KiB (1.7 MiB/s) with 7 file(s) remaining\rupload: contents/mainDAneuron.m to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/mainDAneuron.m\nCompleted 314.9 KiB/472.2 KiB (1.7 MiB/s) with 6 file(s) remaining\rCompleted 341.9 KiB/472.2 KiB (1.8 MiB/s) with 6 file(s) remaining\rupload: contents/screenshot2.png to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/screenshot2.png\nCompleted 341.9 KiB/472.2 KiB (1.8 MiB/s) with 5 file(s) remaining\rCompleted 348.1 KiB/472.2 KiB (1.7 MiB/s) with 5 file(s) remaining\rCompleted 362.0 KiB/472.2 KiB (1.8 MiB/s) with 5 file(s) remaining\rupload: contents/DAneuronDB.mexmaci64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronDB.mexmaci64\nCompleted 362.0 KiB/472.2 KiB (1.8 MiB/s) with 4 file(s) remaining\rupload: contents/DAneuronGABApopulationDB.cpp to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronGABApopulationDB.cpp\nCompleted 362.0 KiB/472.2 KiB (1.8 MiB/s) with 3 file(s) remaining\rCompleted 443.0 KiB/472.2 KiB (2.1 MiB/s) with 3 file(s) remaining\rupload: contents/screenshot3.png to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/screenshot3.png\nCompleted 443.0 KiB/472.2 KiB (2.1 MiB/s) with 2 file(s) remaining\rCompleted 462.2 KiB/472.2 KiB (2.2 MiB/s) with 2 file(s) remaining\rupload: contents/DAneuronGABApopulationDB.mexa64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronGABApopulationDB.mexa64\nCompleted 462.2 KiB/472.2 KiB (2.2 MiB/s) with 1 file(s) remaining\rCompleted 472.2 KiB/472.2 KiB (1.7 MiB/s) with 1 file(s) remaining\rupload: contents/DAneuronDB.mexw64 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/contents/DAneuronDB.mexw64\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /DAandGABAneurons.sedml\ncreating dataset /DAandGABAneurons.sedml/plot, shape: (2, 1001), type: float64\ndataset created, uuid: d-1b920bf0-70cb1e8d-2a28-1de6fb-23d5ef, chunk_size: (2, 1001)\ncreating dataset /DAandGABAneurons.sedml/report, shape: (11, 1001), type: float64\ndataset created, uuid: d-1b920bf0-70cb1e8d-ff66-55191b-10c7f0, chunk_size: (11, 1001)\ncreating attribute combineArchiveLocation in /DAandGABAneurons.sedml\ncreating attribute uri in /DAandGABAneurons.sedml\ncreating attribute _type in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlDataSetIds in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlDataSetLabels in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlDataSetNames in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlDataSetShapes in /DAandGABAneurons.sedml/plot\ncreating attribute sedmlId in /DAandGABAneurons.sedml/plot\ncreating attribute uri in /DAandGABAneurons.sedml/plot\ncreating attribute _type in /DAandGABAneurons.sedml/report\ncreating attribute sedmlDataSetDataTypes in /DAandGABAneurons.sedml/report\ncreating attribute sedmlDataSetIds in /DAandGABAneurons.sedml/report\ncreating attribute sedmlDataSetLabels in /DAandGABAneurons.sedml/report\ncreating attribute sedmlDataSetNames in /DAandGABAneurons.sedml/report\ncreating attribute sedmlDataSetShapes in /DAandGABAneurons.sedml/report\ncreating attribute sedmlId in /DAandGABAneurons.sedml/report\ncreating attribute sedmlName in /DAandGABAneurons.sedml/report\ncreating attribute uri in /DAandGABAneurons.sedml/report\ncreate_links: /\ngot link: DAandGABAneurons.sedml\ncreate_links: /DAandGABAneurons.sedml\ngot link: plot\ngot link: report\nwrite_dataset src: /DAandGABAneurons.sedml/plot to tgt: /DAandGABAneurons.sedml/plot, shape: (2, 1001), type: float64\niterating over chunks for /DAandGABAneurons.sedml/plot\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1001, 1))\ndone with dataload for /DAandGABAneurons.sedml/plot\nwrite_dataset src: /DAandGABAneurons.sedml/report to tgt: /DAandGABAneurons.sedml/report, shape: (11, 1001), type: float64\niterating over chunks for /DAandGABAneurons.sedml/report\nwriting dataset data for slice: (slice(0, 11, 1), slice(0, 1001, 1))\ndone with dataload for /DAandGABAneurons.sedml/report\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/621d42ba87550e369891bb99\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 67%)\n  adding: outputs/DAandGABAneurons.sedml/ (stored 0%)\n  adding: outputs/DAandGABAneurons.sedml/plot.pdf (deflated 30%)\n  adding: outputs/reports.h5 (deflated 20%)\n  adding: rawLog.txt (deflated 83%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 8.4 KiB/115.3 KiB (85.6 KiB/s) with 4 file(s) remaining\rupload: outputs/DAandGABAneurons.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/outputs/DAandGABAneurons.sedml/plot.pdf\nCompleted 8.4 KiB/115.3 KiB (85.6 KiB/s) with 3 file(s) remaining\rCompleted 18.7 KiB/115.3 KiB (183.6 KiB/s) with 3 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/rawLog.txt\nCompleted 18.7 KiB/115.3 KiB (183.6 KiB/s) with 2 file(s) remaining\rCompleted 109.5 KiB/115.3 KiB (946.3 KiB/s) with 2 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/output.zip\nCompleted 109.5 KiB/115.3 KiB (946.3 KiB/s) with 1 file(s) remaining\rCompleted 115.3 KiB/115.3 KiB (979.0 KiB/s) with 1 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/outputs/plots.zip\nCompleted 101.9 KiB/101.9 KiB (1.3 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/outputs/reports.h5\nCompleted 2.4 KiB/2.4 KiB (26.1 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/621d42ba87550e369891bb99/outputs/log.yml\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mRetrieve the logs of the simulation run ... succeeded.\nPost the logs to the API ... succeeded.\nProcess the SED-ML file in the COMBINE archive ... succeeded.\nPost the SED-ML file to the API ... succeeded.\nProcess the metadata in the COMBINE archive ... succeeded.\nPost the metadata to the API ... succeeded.\nProcess 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","skipReason":null,"exception":null,"status":"SUCCEEDED"}