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1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\nSet parameter FeasibilityTol to value 1e-09\r\nSet parameter OptimalityTol to value 1e-09\r\nSet parameter MarkowitzTol to value 0.1\r\nSet parameter ScaleFlag to value 3\r\n","skipReason":null,"exception":null,"status":"SUCCEEDED","id":"task"}],"duration":141.537818,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 2 reports, and 0 plots:\r\n  simulation.sedml:\r\n    Tasks (1):\r\n      task\r\n    Reports (2):\r\n      objective_value: 1 data sets\r\n      reaction_fluxes: 3926 data sets\r\n\r\nExecuting SED-ML file 1: simulation.sedml ...\r\n  Found 1 tasks and 2 outputs:\r\n    Tasks:\r\n      `task`\r\n    Outputs:\r\n      `objective_value`\r\n      `reaction_fluxes`\r\n  Executing task 1: `task`\r\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n    Generating 2 outputs ...\r\n      Generating output 1: `objective_value` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 2: `reaction_fluxes` ...","skipReason":null,"exception":null,"status":"SUCCEEDED","location":"simulation.sedml"}],"duration":151.47298,"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 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   138  100   138    0     0    460      0 --:--:-- --:--:-- --:--:--   461\n\r100 7158k  100 7158k    0     0  15.8M      0 --:--:-- --:--:-- --:--:-- 15.8M\n\n\u001b[0;36m============================================= Executing COMBINE 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 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 results ==================================================\u001b[0m\ncreating group /simulation.sedml\ncreating dataset /simulation.sedml/objective_value, shape: (1, 1), type: float64\ndataset created, uuid: d-896aa5d2-7f47a7ce-edd6-561cab-13aff4, chunk_size: (1, 1)\ncreating dataset /simulation.sedml/reaction_fluxes, shape: (3926, 1), type: float64\ndataset created, uuid: d-896aa5d2-7f47a7ce-b400-8ec1dc-420d92, chunk_size: (3926, 1)\ncreating attribute combineArchiveLocation in /simulation.sedml\ncreating attribute uri in /simulation.sedml\ncreating attribute _type in /simulation.sedml/objective_value\ncreating attribute sedmlDataSetDataTypes in /simulation.sedml/objective_value\ncreating attribute sedmlDataSetIds in /simulation.sedml/objective_value\ncreating attribute sedmlDataSetLabels in /simulation.sedml/objective_value\ncreating attribute sedmlDataSetNames in /simulation.sedml/objective_value\ncreating attribute sedmlDataSetShapes in /simulation.sedml/objective_value\ncreating attribute sedmlId in /simulation.sedml/objective_value\ncreating attribute sedmlName in /simulation.sedml/objective_value\ncreating attribute uri in /simulation.sedml/objective_value\ncreating attribute _type in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlDataSetDataTypes in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlDataSetIds in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlDataSetLabels in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlDataSetNames in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlDataSetShapes in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlId in /simulation.sedml/reaction_fluxes\ncreating attribute sedmlName in /simulation.sedml/reaction_fluxes\ncreating attribute uri in /simulation.sedml/reaction_fluxes\ncreate_links: /\ngot link: simulation.sedml\ncreate_links: /simulation.sedml\ngot link: objective_value\ngot link: reaction_fluxes\nwrite_dataset src: /simulation.sedml/objective_value to tgt: /simulation.sedml/objective_value, shape: (1, 1), type: float64\niterating over chunks for /simulation.sedml/objective_value\nwriting dataset data for slice: (slice(0, 1, 1), slice(0, 1, 1))\ndone with dataload for /simulation.sedml/objective_value\nwrite_dataset src: /simulation.sedml/reaction_fluxes to tgt: /simulation.sedml/reaction_fluxes, shape: (3926, 1), type: float64\niterating over chunks for /simulation.sedml/reaction_fluxes\nwriting dataset data for slice: (slice(0, 3926, 1), slice(0, 1, 1))\ndone with dataload for /simulation.sedml/reaction_fluxes\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/61fea4888c1e3dc95a798006\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 93%)\n  adding: outputs/reports.h5 (deflated 84%)\n  adding: rawLog.txt (deflated 77%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 4.3 KiB/167.1 KiB (63.9 KiB/s) with 2 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/61fea4888c1e3dc95a798006/rawLog.txt\nCompleted 4.3 KiB/167.1 KiB (63.9 KiB/s) with 1 file(s) remaining\rCompleted 167.1 KiB/167.1 KiB (1.2 MiB/s) with 1 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/61fea4888c1e3dc95a798006/output.zip\nCompleted 256.0 KiB/882.4 KiB (5.4 MiB/s) with 1 file(s) remaining\rCompleted 512.0 KiB/882.4 KiB (9.5 MiB/s) with 1 file(s) remaining\rCompleted 768.0 KiB/882.4 KiB (12.8 MiB/s) with 1 file(s) remaining\rCompleted 882.4 KiB/882.4 KiB (6.9 MiB/s) with 1 file(s) remaining \rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/61fea4888c1e3dc95a798006/outputs/reports.h5\nCompleted 226.3 KiB/226.3 KiB (2.4 MiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/61fea4888c1e3dc95a798006/outputs/log.yml\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\n\u001b[0;32mPost the Metadata to the API.....Succeeded\nProcess the Metadata in the combine archive.....Succeeded\nProcess and upload the outputs of the simulation run.....Succeeded\nPost the SED-ML file to the API.....Succeeded\nProcess the SED-ML file in the combine archive.....Succeeded\nPost thumbnails to the API.....Succeeded\nCreate thumbnails from the images specified in the manifest.....Succeeded\nRead the manifest and post the files to the API.....Succeeded\nExtract the files in the combine archive.....Succeeded\nProcess the manifest file in the combine archive.....Succeeded\nPost the logs to the API.....Succeeded\nRetrieve the logs 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"}