{"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\r100   139  100   139    0     0    468      0 --:--:-- --:--:-- --:--:--   469\n\r100  4094  100  4094    0     0  10243      0 --:--:-- --:--:-- --:--:-- 10243\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\nTraceback (most recent call last):\n  File \"/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py\", line 247, in <module>\n    if not update_paths(args.path, args.scripts_dir, args.clear_args, args.extra_args):\n  File \"/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py\", line 213, in update_paths\n    update_scripts(scripts_dir, new_path, clear_args, extra_args)\n  File \"/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py\", line 125, in update_scripts\n    update_script(os.path.join(bin_dir, fn), new_path, clear_args, extra_args)\n  File \"/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py\", line 118, in update_script\n    with open(script_filename, 'w') as f:\nOSError: [Errno 30] Read-only file system: '/home/opencor/OpenCOR/bin/../python/bin/biosimulators-utils'\n/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mCOMBINE/OMEX archive may be invalid.\n  - The manifest does not include its parent COMBINE/OMEX archive. Manifests should include their parent COMBINE/OMEX archives.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\n  - Model `model` may be invalid.\n    - The model file `BG tutorial model solid mechanics 4 Lorenz s-domain.cellml` may be invalid.\n      - Validation is not available for CellML 1.1 files.\n  - Output `plot1` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot2` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot3` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot4` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot5` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe COMBINE/OMEX archive may be invalid.\n  - The SED-ML file at location `BG tutorial model solid mechanics 4 Lorenz s-domain.sedml` may be invalid.\n    - Model `model` may be invalid.\n      - The model file `BG tutorial model solid mechanics 4 Lorenz s-domain.cellml` may be invalid.\n        - Validation is not available for CellML 1.1 files.\n    - Output `plot1` may be invalid.\n      - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n    - Output `plot2` may be invalid.\n      - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n    - Output `plot3` may be invalid.\n      - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n    - Output `plot4` may be invalid.\n      - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n    - Output `plot5` may be invalid.\n      - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\n  - Output `plot1` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot2` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot3` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot4` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\n  - Output `plot5` may be invalid.\n    - Some simulation tools will not be able to generate this output because it uses data from repeated tasks. Output for repeated tasks is an experimental feature of SED-ML, which is not officially supported.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\nArchive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 0 reports, and 5 plots:\n  BG tutorial model solid mechanics 4 Lorenz s-domain.sedml:\n    Tasks (2):\n      repeatedTask\n      task1\n    Plots (5):\n      plot1: 1 curves\n      plot2: 1 curves\n      plot3: 1 curves\n      plot4: 1 curves\n      plot5: 1 curves\n\nExecuting SED-ML file 1: BG tutorial model solid mechanics 4 Lorenz s-domain.sedml ...\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 (2):\n    Succeeded: 2\n    Skipped: 0\n    Failed: 0\n  Outputs (5):\n    Succeeded: 5\n    Skipped: 0\n    Failed: 0\n\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 7.7 KiB/7.7 KiB (73.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/rawLog.txt\nCompleted 11.6 KiB/11.6 KiB (143.1 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 85%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/ (stored 0%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3.pdf (deflated 33%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4.pdf (deflated 32%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5.pdf (deflated 31%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2.pdf (deflated 30%)\n  adding: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1.pdf (deflated 32%)\n  adding: outputs/reports.h5 (deflated 63%)\n  adding: rawLog.txt (deflated 83%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 124.7 KiB/124.7 KiB (777.6 KiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/reports.h5\nCompleted 84.5 KiB/174.3 KiB (702.4 KiB/s) with 8 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/output.zip\nCompleted 84.5 KiB/174.3 KiB (702.4 KiB/s) with 7 file(s) remaining\rCompleted 94.3 KiB/174.3 KiB (761.7 KiB/s) with 7 file(s) remaining\rupload: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1.pdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1.pdf\nCompleted 94.3 KiB/174.3 KiB (761.7 KiB/s) with 6 file(s) remaining\rCompleted 105.0 KiB/174.3 KiB (833.5 KiB/s) with 6 file(s) remaining\rupload: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2.pdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2.pdf\nCompleted 105.0 KiB/174.3 KiB (833.5 KiB/s) with 5 file(s) remaining\rCompleted 114.1 KiB/174.3 KiB (725.6 KiB/s) with 5 file(s) remaining\rupload: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3.pdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3.pdf\nCompleted 114.1 KiB/174.3 KiB (725.6 KiB/s) with 4 file(s) remaining\rCompleted 123.2 KiB/174.3 KiB (753.0 KiB/s) with 4 file(s) remaining\rupload: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5.pdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5.pdf\nCompleted 123.2 KiB/174.3 KiB (753.0 KiB/s) with 3 file(s) remaining\rCompleted 155.5 KiB/174.3 KiB (897.4 KiB/s) with 3 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/plots.zip\nCompleted 155.5 KiB/174.3 KiB (897.4 KiB/s) with 2 file(s) remaining\rCompleted 165.1 KiB/174.3 KiB (938.6 KiB/s) with 2 file(s) remaining\rupload: outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4.pdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/outputs/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4.pdf\nCompleted 165.1 KiB/174.3 KiB (938.6 KiB/s) with 1 file(s) remaining\rCompleted 174.3 KiB/174.3 KiB (844.9 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/rawLog.txt\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/BG tutorial model solid mechanics 4 Lorenz s-domain.cellml  \n  inflating: contents/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml  \n  inflating: contents/metadata.rdf   \n  inflating: contents/manifest.xml   \nCompleted 10.2 KiB/23.4 KiB (102.0 KiB/s) with 4 file(s) remaining\rupload: contents/BG tutorial model solid mechanics 4 Lorenz s-domain.cellml to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/contents/BG tutorial model solid mechanics 4 Lorenz s-domain.cellml\nCompleted 10.2 KiB/23.4 KiB (102.0 KiB/s) with 3 file(s) remaining\rCompleted 15.4 KiB/23.4 KiB (124.4 KiB/s) with 3 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/contents/metadata.rdf\nCompleted 15.4 KiB/23.4 KiB (124.4 KiB/s) with 2 file(s) remaining\rCompleted 22.8 KiB/23.4 KiB (145.1 KiB/s) with 2 file(s) remaining\rupload: contents/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/contents/BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\nCompleted 22.8 KiB/23.4 KiB (145.1 KiB/s) with 1 file(s) remaining\rCompleted 23.4 KiB/23.4 KiB (143.9 KiB/s) with 1 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/contents/manifest.xml\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 13.3 KiB/13.3 KiB (136.0 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/626173dcabe612c540c67a0d/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\ncreating dataset /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1, shape: (2, 1, 1, 1001), type: float64\ndataset created, uuid: d-f57c2852-8bfa1f52-c034-f7ab21-1855a3, chunk_size: (2, 1, 1, 1001)\ncreating dataset /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2, shape: (2, 1, 1, 1001), type: float64\ndataset created, uuid: d-f57c2852-8bfa1f52-9b29-015772-e273ef, chunk_size: (2, 1, 1, 1001)\ncreating dataset /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3, shape: (2, 1, 1, 1001), type: float64\ndataset created, uuid: d-f57c2852-8bfa1f52-ca56-08b51f-898fff, chunk_size: (2, 1, 1, 1001)\ncreating dataset /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4, shape: (2, 1, 1, 1001), type: float64\ndataset created, uuid: d-f57c2852-8bfa1f52-8fdb-74f4c0-0b32ab, chunk_size: (2, 1, 1, 1001)\ncreating dataset /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5, shape: (2, 1, 1, 1001), type: float64\ndataset created, uuid: d-f57c2852-8bfa1f52-642f-3688e0-031d60, chunk_size: (2, 1, 1, 1001)\ncreating attribute combineArchiveLocation in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\ncreating attribute _type in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlDataSetDataTypes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlDataSetIds in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlDataSetLabels in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlDataSetNames in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlDataSetShapes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute sedmlId in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\ncreating attribute _type in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlDataSetDataTypes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlDataSetIds in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlDataSetLabels in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlDataSetNames in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlDataSetShapes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute sedmlId in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\ncreating attribute _type in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlDataSetDataTypes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlDataSetIds in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlDataSetLabels in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlDataSetNames in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlDataSetShapes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute sedmlId in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\ncreating attribute _type in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlDataSetDataTypes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlDataSetIds in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlDataSetLabels in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlDataSetNames in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlDataSetShapes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute sedmlId in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\ncreating attribute _type in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlDataSetDataTypes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlDataSetIds in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlDataSetLabels in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlDataSetNames in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlDataSetShapes in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute sedmlId in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreating attribute uri in /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\ncreate_links: /\ngot link: BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\ncreate_links: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml\ngot link: plot1\ngot link: plot2\ngot link: plot3\ngot link: plot4\ngot link: plot5\nwrite_dataset src: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1 to tgt: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1, shape: (2, 1, 1, 1001), type: float64\niterating over chunks for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1, 1), slice(0, 1, 1), slice(0, 1001, 1))\ndone with dataload for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot1\nwrite_dataset src: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2 to tgt: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2, shape: (2, 1, 1, 1001), type: float64\niterating over chunks for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1, 1), slice(0, 1, 1), slice(0, 1001, 1))\ndone with dataload for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot2\nwrite_dataset src: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3 to tgt: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3, shape: (2, 1, 1, 1001), type: float64\niterating over chunks for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1, 1), slice(0, 1, 1), slice(0, 1001, 1))\ndone with dataload for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot3\nwrite_dataset src: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4 to tgt: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4, shape: (2, 1, 1, 1001), type: float64\niterating over chunks for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1, 1), slice(0, 1, 1), slice(0, 1001, 1))\ndone with dataload for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot4\nwrite_dataset src: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5 to tgt: /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5, shape: (2, 1, 1, 1001), type: float64\niterating over chunks for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\nwriting dataset data for slice: (slice(0, 2, 1), slice(0, 1, 1), slice(0, 1, 1), slice(0, 1001, 1))\ndone with dataload for /BG tutorial model solid mechanics 4 Lorenz s-domain.sedml/plot5\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/626173dcabe612c540c67a0d\n\n\u001b[0;36m================================================== Saving final log =================================================\u001b[0m\n\n\u001b[0;36m=========================================== Post-processing simulation run ==========================================\u001b[0m\n\u001b[0;32mProcess 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 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","duration":2.493149,"sedDocuments":[{"location":"BG tutorial model solid mechanics 4 Lorenz s-domain.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"  Found 2 tasks and 5 outputs:\n    Tasks:\n      `repeatedTask`\n      `task1`\n    Outputs:\n      `plot1`\n      `plot2`\n      `plot3`\n      `plot4`\n      `plot5`\n  Executing task 1: `repeatedTask`\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\n    Generating 5 outputs ...\n      Generating output 1: `plot1` ... \u001b[34msucceeded\u001b[0m\n      Generating output 2: `plot2` ... \u001b[34msucceeded\u001b[0m\n      Generating output 3: `plot3` ... \u001b[34msucceeded\u001b[0m\n      Generating output 4: `plot4` ... \u001b[34msucceeded\u001b[0m\n      Generating output 5: `plot5` ... \u001b[34msucceeded\u001b[0m\n  Executing task 2: `task1`\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\n    Generating 5 outputs ...\n      Generating output 1: `plot1` ...      Generating output 2: `plot2` ...      Generating output 3: `plot3` ...      Generating output 4: `plot4` ...      Generating output 5: `plot5` .../home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: NoOutputsWarning: \u001b[33mTask task1 does not contribute to any outputs.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n\n  Executed 2 tasks and 5 outputs:\n    Tasks:\n      Succeeded: 2\n      Skipped: 0\n      Failed: 0\n    Outputs:\n      Succeeded: 5\n      Skipped: 0\n      Failed: 0\n","duration":1.945668,"tasks":[{"id":"repeatedTask","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33m- Variable `yVariable1_1` may be invalid.\n  - XPath could not be validated.\n- Variable `xVariable2_1` may be invalid.\n  - XPath could not be validated.\n- Variable `xVariable4_1` may be invalid.\n  - XPath could not be validated.\n- Variable `yVariable2_1` may be invalid.\n  - XPath could not be validated.\n- Variable `xVariable3_1` may be invalid.\n  - XPath could not be validated.\n- Variable `yVariable5_1` may be invalid.\n  - XPath could not be validated.\n- Variable `yVariable4_1` may be invalid.\n  - XPath could not be validated.\n- Variable `xVariable1_1` may be invalid.\n  - XPath could not be validated.\n- Variable `xVariable5_1` may be invalid.\n  - XPath could not be validated.\n- Variable `yVariable3_1` may be invalid.\n  - XPath could not be validated.\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\n  - The following tasks do not contribute to outputs:\n    - `repeatedTask`\n    - `task1`\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n","duration":0.68766,"algorithm":null,"simulatorDetails":null},{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: \u001b[33mThe SED document is potentially incorrect.\n  - The following tasks do not contribute to outputs:\n    - `repeatedTask`\n    - `task1`\u001b[0m\n  warnings.warn(termcolor.colored(message, Colors.warning.value), category)\n","duration":0.375113,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"OpenCOR.SimulationSupport.Simulation.run"},{"key":"algorithmParameters","value":[{"kisaoID":"KISAO_0000211","value":"9.9999999999999995e-08"},{"kisaoID":"KISAO_0000475","value":"BDF"},{"kisaoID":"KISAO_0000481","value":"true"},{"kisaoID":"KISAO_0000476","value":"Newton"},{"kisaoID":"KISAO_0000477","value":"Dense"},{"kisaoID":"KISAO_0000480","value":"0"},{"kisaoID":"KISAO_0000415","value":"500"},{"kisaoID":"KISAO_0000467","value":"0"},{"kisaoID":"KISAO_0000478","value":"Banded"},{"kisaoID":"KISAO_0000209","value":"9.9999999999999995e-08"},{"kisaoID":"KISAO_0000479","value":"0"}]}]}],"outputs":[{"id":"plot1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.182161,"curves":[{"id":"curve1_1","status":"SUCCEEDED"}]},{"id":"plot2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.135081,"curves":[{"id":"curve2_1","status":"SUCCEEDED"}]},{"id":"plot3","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.129905,"curves":[{"id":"curve3_1","status":"SUCCEEDED"}]},{"id":"plot4","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.127635,"curves":[{"id":"curve4_1","status":"SUCCEEDED"}]},{"id":"plot5","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.122034,"curves":[{"id":"curve5_1","status":"SUCCEEDED"}]}]}]}