{"sedDocuments":[{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_DCAL"},{"status":"SUCCEEDED","id":"data_set_IINJ"},{"status":"SUCCEEDED","id":"data_set_VCLAMP"},{"status":"SUCCEEDED","id":"data_set_VD"}],"duration":0.081009,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"},{"status":"SUCCEEDED","id":"curve_2"}],"duration":0.186788,"output":"/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"20000.0","key":"total"},{"value":"gear","key":"meth"},{"value":"0.009","key":"toler"},{"value":"0.5","key":"dtmax"},{"value":"0.0","key":"t0"},{"value":"20","key":"dt"},{"value":"1","key":"njmp"}],"algorithm":"KISAO_0000288","duration":0.086713,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":0.493065,"output":"Archive contains 4 SED-ML documents with 4 models, 4 simulations, 4 tasks, 4 reports, and 4 plots:\r\n  fig3a.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 5 data sets\r\n    Plots (1):\r\n      plot: 2 curves\r\n  fig3b.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 13 data sets\r\n    Plots (1):\r\n      plot: 2 curves\r\n  fig3c.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 13 data sets\r\n    Plots (1):\r\n      plot: 2 curves\r\n  fig3d.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (1):\r\n      report: 13 data sets\r\n    Plots (1):\r\n      plot: 2 curves\r\n\r\nExecuting SED-ML file 1: fig3a.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":"fig3a.sedml"},{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_DCAL"},{"status":"SUCCEEDED","id":"data_set_IAPP"},{"status":"SUCCEEDED","id":"data_set_SCA"},{"status":"SUCCEEDED","id":"data_set_SCAH"},{"status":"SUCCEEDED","id":"data_set_SCAM"},{"status":"SUCCEEDED","id":"data_set_SKDR"},{"status":"SUCCEEDED","id":"data_set_SNAH"},{"status":"SUCCEEDED","id":"data_set_SNAM"},{"status":"SUCCEEDED","id":"data_set_SNAPM"},{"status":"SUCCEEDED","id":"data_set_VD"},{"status":"SUCCEEDED","id":"data_set_VS"},{"status":"SUCCEEDED","id":"data_set_VSOMA"}],"duration":0.121583,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"},{"status":"SUCCEEDED","id":"curve_2"}],"duration":0.147279,"output":"/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"10000.0","key":"total"},{"value":"gear","key":"meth"},{"value":"0.009","key":"toler"},{"value":"0.5","key":"dtmax"},{"value":"0.0","key":"t0"},{"value":"10","key":"dt"},{"value":"1","key":"njmp"}],"algorithm":"KISAO_0000288","duration":0.321943,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":0.741707,"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: fig3b.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":"fig3b.sedml"},{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_DCAL"},{"status":"SUCCEEDED","id":"data_set_IAPP"},{"status":"SUCCEEDED","id":"data_set_SCA"},{"status":"SUCCEEDED","id":"data_set_SCAH"},{"status":"SUCCEEDED","id":"data_set_SCAM"},{"status":"SUCCEEDED","id":"data_set_SKDR"},{"status":"SUCCEEDED","id":"data_set_SNAH"},{"status":"SUCCEEDED","id":"data_set_SNAM"},{"status":"SUCCEEDED","id":"data_set_SNAPM"},{"status":"SUCCEEDED","id":"data_set_VD"},{"status":"SUCCEEDED","id":"data_set_VS"},{"status":"SUCCEEDED","id":"data_set_VSOMA"}],"duration":0.122009,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"},{"status":"SUCCEEDED","id":"curve_2"}],"duration":0.149512,"output":"/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"10000.0","key":"total"},{"value":"gear","key":"meth"},{"value":"0.009","key":"toler"},{"value":"0.5","key":"dtmax"},{"value":"0.0","key":"t0"},{"value":"10","key":"dt"},{"value":"1","key":"njmp"}],"algorithm":"KISAO_0000288","duration":0.374172,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":0.800179,"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: fig3c.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":"fig3c.sedml"},{"outputs":[{"dataSets":[{"status":"SUCCEEDED","id":"data_set_T"},{"status":"SUCCEEDED","id":"data_set_DCAL"},{"status":"SUCCEEDED","id":"data_set_GSYN"},{"status":"SUCCEEDED","id":"data_set_SCA"},{"status":"SUCCEEDED","id":"data_set_SCAH"},{"status":"SUCCEEDED","id":"data_set_SCAM"},{"status":"SUCCEEDED","id":"data_set_SKDR"},{"status":"SUCCEEDED","id":"data_set_SNAH"},{"status":"SUCCEEDED","id":"data_set_SNAM"},{"status":"SUCCEEDED","id":"data_set_SNAPM"},{"status":"SUCCEEDED","id":"data_set_VD"},{"status":"SUCCEEDED","id":"data_set_VS"},{"status":"SUCCEEDED","id":"data_set_VSOMA"}],"duration":0.123144,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"report"},{"curves":[{"status":"SUCCEEDED","id":"curve_1"},{"status":"SUCCEEDED","id":"curve_2"}],"duration":0.173455,"output":"/usr/local/lib/python3.9/site-packages/biosimulators_utils/warnings.py:31: IllogicalVizWarning: \u001b[33mA title could not be inferred for the Y axis because the Y data generators have inconsistent names.\u001b[0m\r\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\r\n","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"plot"}],"tasks":[{"simulatorDetails":[{"value":"20000.0","key":"total"},{"value":"gear","key":"meth"},{"value":"0.009","key":"toler"},{"value":"0.5","key":"dtmax"},{"value":"0.0","key":"t0"},{"value":"20","key":"dt"},{"value":"1","key":"njmp"}],"algorithm":"KISAO_0000288","duration":0.818115,"output":"","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":1.282457,"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: fig3d.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":"fig3d.sedml"}],"duration":3.945196,"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    480      0 --:--:-- --:--:-- --:--:--   480\n\r100  860k  100  860k    0     0  2036k      0 --:--:-- --:--:-- --:--:-- 2036k\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 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 contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/fig3b.ode      \n  inflating: contents/fig3a.ode      \n  inflating: contents/fig3d.ode      \n  inflating: contents/fig3c.ode      \n  inflating: contents/Table1.xls     \n  inflating: contents/README.html    \n  inflating: contents/fig3a.sedml    \n  inflating: contents/fig3b.sedml    \n  inflating: contents/fig3c.sedml    \n  inflating: contents/fig3d.sedml    \n  inflating: contents/metadata.rdf   \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g001.jpg  \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g002.jpg  \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g003.jpg  \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g004.jpg  \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g005.jpg  \n  inflating: contents/article-figures/PMC4118843/pone.0095454.g006.jpg  \n  inflating: contents/screenshot1.png  \n  inflating: contents/screenshot2.png  \n  inflating: contents/screenshot3.png  \n  inflating: contents/screenshot4.png  \n  inflating: contents/manifest.xml   \nCompleted 49.5 KiB/1.0 MiB (544.9 KiB/s) with 22 file(s) remaining\rupload: contents/Table1.xls to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/Table1.xls\nCompleted 49.5 KiB/1.0 MiB (544.9 KiB/s) with 21 file(s) remaining\rCompleted 52.7 KiB/1.0 MiB (528.9 KiB/s) with 21 file(s) remaining\rupload: contents/README.html to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/README.html\nCompleted 52.7 KiB/1.0 MiB (528.9 KiB/s) with 20 file(s) remaining\rCompleted 53.8 KiB/1.0 MiB (465.9 KiB/s) with 20 file(s) remaining\rupload: contents/fig3a.ode to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3a.ode\nCompleted 53.8 KiB/1.0 MiB (465.9 KiB/s) with 19 file(s) remaining\rCompleted 58.4 KiB/1.0 MiB (499.4 KiB/s) with 19 file(s) remaining\rupload: contents/fig3a.sedml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3a.sedml\nCompleted 58.4 KiB/1.0 MiB (499.4 KiB/s) with 18 file(s) remaining\rCompleted 198.2 KiB/1.0 MiB (1.6 MiB/s) with 18 file(s) remaining \rupload: contents/article-figures/PMC4118843/pone.0095454.g001.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g001.jpg\nCompleted 198.2 KiB/1.0 MiB (1.6 MiB/s) with 17 file(s) remaining\rCompleted 201.8 KiB/1.0 MiB (1.5 MiB/s) with 17 file(s) remaining\rupload: contents/fig3b.ode to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3b.ode\nCompleted 201.8 KiB/1.0 MiB (1.5 MiB/s) with 16 file(s) remaining\rCompleted 347.6 KiB/1.0 MiB (2.4 MiB/s) with 16 file(s) remaining\rupload: contents/article-figures/PMC4118843/pone.0095454.g002.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g002.jpg\nCompleted 347.6 KiB/1.0 MiB (2.4 MiB/s) with 15 file(s) remaining\rCompleted 351.1 KiB/1.0 MiB (2.3 MiB/s) with 15 file(s) remaining\rupload: contents/fig3d.ode to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3d.ode\nCompleted 351.1 KiB/1.0 MiB (2.3 MiB/s) with 14 file(s) remaining\rCompleted 354.4 KiB/1.0 MiB (2.3 MiB/s) with 14 file(s) remaining\rupload: contents/fig3c.ode to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3c.ode\nCompleted 354.4 KiB/1.0 MiB (2.3 MiB/s) with 13 file(s) remaining\rCompleted 365.6 KiB/1.0 MiB (2.3 MiB/s) with 13 file(s) remaining\rupload: contents/fig3d.sedml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3d.sedml\nCompleted 365.6 KiB/1.0 MiB (2.3 MiB/s) with 12 file(s) remaining\rCompleted 376.6 KiB/1.0 MiB (2.3 MiB/s) with 12 file(s) remaining\rupload: contents/fig3c.sedml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3c.sedml\nCompleted 376.6 KiB/1.0 MiB (2.3 MiB/s) with 11 file(s) remaining\rCompleted 379.1 KiB/1.0 MiB (2.1 MiB/s) with 11 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/manifest.xml\nCompleted 379.1 KiB/1.0 MiB (2.1 MiB/s) with 10 file(s) remaining\rCompleted 401.0 KiB/1.0 MiB (2.1 MiB/s) with 10 file(s) remaining\rupload: contents/screenshot2.png to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/screenshot2.png\nCompleted 401.0 KiB/1.0 MiB (2.1 MiB/s) with 9 file(s) remaining\rCompleted 423.4 KiB/1.0 MiB (2.2 MiB/s) with 9 file(s) remaining\rupload: contents/screenshot1.png to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/screenshot1.png\nCompleted 423.4 KiB/1.0 MiB (2.2 MiB/s) with 8 file(s) remaining\rCompleted 557.2 KiB/1.0 MiB (2.8 MiB/s) with 8 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/metadata.rdf\nCompleted 557.2 KiB/1.0 MiB (2.8 MiB/s) with 7 file(s) remaining\rCompleted 578.5 KiB/1.0 MiB (2.7 MiB/s) with 7 file(s) remaining\rupload: contents/screenshot4.png to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/screenshot4.png\nCompleted 578.5 KiB/1.0 MiB (2.7 MiB/s) with 6 file(s) remaining\rCompleted 601.1 KiB/1.0 MiB (2.7 MiB/s) with 6 file(s) remaining\rupload: contents/screenshot3.png to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/screenshot3.png\nCompleted 601.1 KiB/1.0 MiB (2.7 MiB/s) with 5 file(s) remaining\rCompleted 642.3 KiB/1.0 MiB (2.8 MiB/s) with 5 file(s) remaining\rupload: contents/article-figures/PMC4118843/pone.0095454.g006.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g006.jpg\nCompleted 642.3 KiB/1.0 MiB (2.8 MiB/s) with 4 file(s) remaining\rCompleted 768.0 KiB/1.0 MiB (3.3 MiB/s) with 4 file(s) remaining\rupload: contents/article-figures/PMC4118843/pone.0095454.g005.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g005.jpg\nCompleted 768.0 KiB/1.0 MiB (3.3 MiB/s) with 3 file(s) remaining\rCompleted 922.8 KiB/1.0 MiB (3.9 MiB/s) with 3 file(s) remaining\rupload: contents/article-figures/PMC4118843/pone.0095454.g003.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g003.jpg\nCompleted 922.8 KiB/1.0 MiB (3.9 MiB/s) with 2 file(s) remaining\rCompleted 934.6 KiB/1.0 MiB (3.8 MiB/s) with 2 file(s) remaining\rupload: contents/fig3b.sedml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/fig3b.sedml\nCompleted 934.6 KiB/1.0 MiB (3.8 MiB/s) with 1 file(s) remaining\rCompleted 1.0 MiB/1.0 MiB (4.1 MiB/s) with 1 file(s) remaining  \rupload: contents/article-figures/PMC4118843/pone.0095454.g004.jpg to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/contents/article-figures/PMC4118843/pone.0095454.g004.jpg\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /fig3a.sedml\ncreating dataset /fig3a.sedml/plot, shape: (3, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-52f5-3e7333-891198, chunk_size: (3, 1001)\ncreating dataset /fig3a.sedml/report, shape: (5, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-93fe-6b0a81-88ff1f, chunk_size: (5, 1001)\ncreating group /fig3b.sedml\ncreating dataset /fig3b.sedml/plot, shape: (3, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-2320-d0dca0-904fa9, chunk_size: (3, 1001)\ncreating dataset /fig3b.sedml/report, shape: (13, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-8214-4e7148-96b8a2, chunk_size: (13, 1001)\ncreating group /fig3c.sedml\ncreating dataset /fig3c.sedml/plot, shape: (3, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-d767-4f3dfe-f2232f, chunk_size: (3, 1001)\ncreating dataset /fig3c.sedml/report, shape: (13, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-5b58-601591-9045b1, chunk_size: (13, 1001)\ncreating group /fig3d.sedml\ncreating dataset /fig3d.sedml/plot, shape: (3, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-2a85-703830-b87552, chunk_size: (3, 1001)\ncreating dataset /fig3d.sedml/report, shape: (13, 1001), type: float64\ndataset created, uuid: d-7d9aa966-e92baeb0-a334-7f14f2-664725, chunk_size: (13, 1001)\ncreating attribute combineArchiveLocation in /fig3a.sedml\ncreating attribute uri in /fig3a.sedml\ncreating attribute _type in /fig3a.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /fig3a.sedml/plot\ncreating attribute sedmlDataSetIds in /fig3a.sedml/plot\ncreating attribute sedmlDataSetLabels in /fig3a.sedml/plot\ncreating attribute sedmlDataSetNames in /fig3a.sedml/plot\ncreating attribute sedmlDataSetShapes in /fig3a.sedml/plot\ncreating attribute sedmlId in /fig3a.sedml/plot\ncreating attribute uri in /fig3a.sedml/plot\ncreating attribute _type in /fig3a.sedml/report\ncreating attribute sedmlDataSetDataTypes in /fig3a.sedml/report\ncreating attribute sedmlDataSetIds in /fig3a.sedml/report\ncreating attribute sedmlDataSetLabels in /fig3a.sedml/report\ncreating attribute sedmlDataSetNames in /fig3a.sedml/report\ncreating attribute sedmlDataSetShapes in /fig3a.sedml/report\ncreating attribute sedmlId in /fig3a.sedml/report\ncreating attribute sedmlName in /fig3a.sedml/report\ncreating attribute uri in /fig3a.sedml/report\ncreating attribute combineArchiveLocation in /fig3b.sedml\ncreating attribute uri in /fig3b.sedml\ncreating attribute _type in /fig3b.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /fig3b.sedml/plot\ncreating attribute sedmlDataSetIds in /fig3b.sedml/plot\ncreating attribute sedmlDataSetLabels in /fig3b.sedml/plot\ncreating attribute sedmlDataSetNames in /fig3b.sedml/plot\ncreating attribute sedmlDataSetShapes in /fig3b.sedml/plot\ncreating attribute sedmlId in /fig3b.sedml/plot\ncreating attribute uri in /fig3b.sedml/plot\ncreating attribute _type in /fig3b.sedml/report\ncreating attribute sedmlDataSetDataTypes in /fig3b.sedml/report\ncreating attribute sedmlDataSetIds in /fig3b.sedml/report\ncreating attribute sedmlDataSetLabels in /fig3b.sedml/report\ncreating attribute sedmlDataSetNames in /fig3b.sedml/report\ncreating attribute sedmlDataSetShapes in /fig3b.sedml/report\ncreating attribute sedmlId in /fig3b.sedml/report\ncreating attribute sedmlName in /fig3b.sedml/report\ncreating attribute uri in /fig3b.sedml/report\ncreating attribute combineArchiveLocation in /fig3c.sedml\ncreating attribute uri in /fig3c.sedml\ncreating attribute _type in /fig3c.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /fig3c.sedml/plot\ncreating attribute sedmlDataSetIds in /fig3c.sedml/plot\ncreating attribute sedmlDataSetLabels in /fig3c.sedml/plot\ncreating attribute sedmlDataSetNames in /fig3c.sedml/plot\ncreating attribute sedmlDataSetShapes in /fig3c.sedml/plot\ncreating attribute sedmlId in /fig3c.sedml/plot\ncreating attribute uri in /fig3c.sedml/plot\ncreating attribute _type in /fig3c.sedml/report\ncreating attribute sedmlDataSetDataTypes in /fig3c.sedml/report\ncreating attribute sedmlDataSetIds in /fig3c.sedml/report\ncreating attribute sedmlDataSetLabels in /fig3c.sedml/report\ncreating attribute sedmlDataSetNames in /fig3c.sedml/report\ncreating attribute sedmlDataSetShapes in /fig3c.sedml/report\ncreating attribute sedmlId in /fig3c.sedml/report\ncreating attribute sedmlName in /fig3c.sedml/report\ncreating attribute uri in /fig3c.sedml/report\ncreating attribute combineArchiveLocation in /fig3d.sedml\ncreating attribute uri in /fig3d.sedml\ncreating attribute _type in /fig3d.sedml/plot\ncreating attribute sedmlDataSetDataTypes in /fig3d.sedml/plot\ncreating attribute sedmlDataSetIds in /fig3d.sedml/plot\ncreating attribute sedmlDataSetLabels in /fig3d.sedml/plot\ncreating attribute sedmlDataSetNames in /fig3d.sedml/plot\ncreating attribute sedmlDataSetShapes in /fig3d.sedml/plot\ncreating attribute sedmlId in /fig3d.sedml/plot\ncreating attribute uri in /fig3d.sedml/plot\ncreating attribute _type in /fig3d.sedml/report\ncreating attribute sedmlDataSetDataTypes in /fig3d.sedml/report\ncreating attribute sedmlDataSetIds in /fig3d.sedml/report\ncreating attribute sedmlDataSetLabels in /fig3d.sedml/report\ncreating attribute sedmlDataSetNames in /fig3d.sedml/report\ncreating attribute sedmlDataSetShapes in /fig3d.sedml/report\ncreating attribute sedmlId in /fig3d.sedml/report\ncreating attribute sedmlName in /fig3d.sedml/report\ncreating attribute uri in /fig3d.sedml/report\ncreate_links: /\ngot link: fig3a.sedml\ngot link: fig3b.sedml\ngot link: fig3c.sedml\ngot link: fig3d.sedml\ncreate_links: /fig3a.sedml\ngot link: plot\ngot link: report\ncreate_links: /fig3b.sedml\ngot link: plot\ngot link: report\ncreate_links: /fig3c.sedml\ngot link: plot\ngot link: report\ncreate_links: /fig3d.sedml\ngot link: plot\ngot link: report\nwrite_dataset src: /fig3a.sedml/plot to tgt: /fig3a.sedml/plot, shape: (3, 1001), type: float64\niterating over chunks for /fig3a.sedml/plot\nwriting dataset data for slice: (slice(0, 3, 1), slice(0, 1001, 1))\ndone with dataload for /fig3a.sedml/plot\nwrite_dataset src: /fig3a.sedml/report to tgt: /fig3a.sedml/report, shape: (5, 1001), type: float64\niterating over chunks for /fig3a.sedml/report\nwriting dataset data for slice: (slice(0, 5, 1), slice(0, 1001, 1))\ndone with dataload for /fig3a.sedml/report\nwrite_dataset src: /fig3b.sedml/plot to tgt: /fig3b.sedml/plot, shape: (3, 1001), type: float64\niterating over chunks for /fig3b.sedml/plot\nwriting dataset data for slice: (slice(0, 3, 1), slice(0, 1001, 1))\ndone with dataload for /fig3b.sedml/plot\nwrite_dataset src: /fig3b.sedml/report to tgt: /fig3b.sedml/report, shape: (13, 1001), type: float64\niterating over chunks for /fig3b.sedml/report\nwriting dataset data for slice: (slice(0, 13, 1), slice(0, 1001, 1))\ndone with dataload for /fig3b.sedml/report\nwrite_dataset src: /fig3c.sedml/plot to tgt: /fig3c.sedml/plot, shape: (3, 1001), type: float64\niterating over chunks for /fig3c.sedml/plot\nwriting dataset data for slice: (slice(0, 3, 1), slice(0, 1001, 1))\ndone with dataload for /fig3c.sedml/plot\nwrite_dataset src: /fig3c.sedml/report to tgt: /fig3c.sedml/report, shape: (13, 1001), type: float64\niterating over chunks for /fig3c.sedml/report\nwriting dataset data for slice: (slice(0, 13, 1), slice(0, 1001, 1))\ndone with dataload for /fig3c.sedml/report\nwrite_dataset src: /fig3d.sedml/plot to tgt: /fig3d.sedml/plot, shape: (3, 1001), type: float64\niterating over chunks for /fig3d.sedml/plot\nwriting dataset data for slice: (slice(0, 3, 1), slice(0, 1001, 1))\ndone with dataload for /fig3d.sedml/plot\nwrite_dataset src: /fig3d.sedml/report to tgt: /fig3d.sedml/report, shape: (13, 1001), type: float64\niterating over chunks for /fig3d.sedml/report\nwriting dataset data for slice: (slice(0, 13, 1), slice(0, 1001, 1))\ndone with dataload for /fig3d.sedml/report\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/621d42beb50991044c79ae3e\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 88%)\n  adding: outputs/fig3a.sedml/ (stored 0%)\n  adding: outputs/fig3a.sedml/plot.pdf (deflated 33%)\n  adding: outputs/fig3d.sedml/ (stored 0%)\n  adding: outputs/fig3d.sedml/plot.pdf (deflated 20%)\n  adding: outputs/fig3b.sedml/ (stored 0%)\n  adding: outputs/fig3b.sedml/plot.pdf (deflated 21%)\n  adding: outputs/fig3c.sedml/ (stored 0%)\n  adding: outputs/fig3c.sedml/plot.pdf (deflated 20%)\n  adding: outputs/reports.h5 (deflated 21%)\n  adding: rawLog.txt (deflated 86%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 256.0 KiB/515.5 KiB (6.2 MiB/s) with 7 file(s) remaining\rCompleted 399.2 KiB/515.5 KiB (4.2 MiB/s) with 7 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/output.zip\nCompleted 399.2 KiB/515.5 KiB (4.2 MiB/s) with 6 file(s) remaining\rCompleted 409.9 KiB/515.5 KiB (3.9 MiB/s) with 6 file(s) remaining\rupload: outputs/fig3a.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/fig3a.sedml/plot.pdf\nCompleted 409.9 KiB/515.5 KiB (3.9 MiB/s) with 5 file(s) remaining\rCompleted 425.1 KiB/515.5 KiB (3.8 MiB/s) with 5 file(s) remaining\rupload: outputs/fig3c.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/fig3c.sedml/plot.pdf\nCompleted 425.1 KiB/515.5 KiB (3.8 MiB/s) with 4 file(s) remaining\rCompleted 440.8 KiB/515.5 KiB (3.8 MiB/s) with 4 file(s) remaining\rupload: outputs/fig3d.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/fig3d.sedml/plot.pdf\nCompleted 440.8 KiB/515.5 KiB (3.8 MiB/s) with 3 file(s) remaining\rCompleted 455.7 KiB/515.5 KiB (3.8 MiB/s) with 3 file(s) remaining\rupload: outputs/fig3b.sedml/plot.pdf to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/fig3b.sedml/plot.pdf\nCompleted 455.7 KiB/515.5 KiB (3.8 MiB/s) with 2 file(s) remaining\rCompleted 498.2 KiB/515.5 KiB (3.8 MiB/s) with 2 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/plots.zip\nCompleted 498.2 KiB/515.5 KiB (3.8 MiB/s) with 1 file(s) remaining\rCompleted 515.5 KiB/515.5 KiB (3.9 MiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/rawLog.txt\nCompleted 256.0 KiB/443.5 KiB (6.9 MiB/s) with 1 file(s) remaining\rCompleted 443.5 KiB/443.5 KiB (4.4 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/reports.h5\nCompleted 10.2 KiB/10.2 KiB (149.6 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/621d42beb50991044c79ae3e/outputs/log.yml\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mProcess and upload the outputs of the simulation run ... 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.\nRetrieve 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.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","skipReason":null,"exception":null,"status":"SUCCEEDED"}