{"status":"FAILED","exception":{"type":"CombineArchiveExecutionError","message":"The COMBINE/OMEX did not execute successfully:\n\n  The SED document did not execute successfully:\n  \n    Unable to support delay differential equations.  The function 'delay(x, tau)' is not supported., at llvm::Value* rrllvm::ASTNodeCodeGen::delayExprCodeGen(const libsbml::ASTNode*)"},"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    452      0 --:--:-- --:--:-- --:--:--   452\n\r 14  4201   14   603    0     0   1460      0  0:00:02 --:--:--  0:00:02  1460\r100  4201  100  4201    0     0  10058      0 --:--:-- --:--:-- --:--:--  878k\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\n \u001b[36mqueued\u001b[0m\n\n  Executed 1 tasks and 2 outputs:\n    Tasks:\n      Succeeded: 0\n      Skipped: 0\n      Failed: 1\n    Outputs:\n      Succeeded: 0\n      Skipped: 2\n      Failed: 0\n\nBundling outputs ...\nCleaning up ...\n\n============= SUMMARY =============\nExecuted 1 SED documents:\n  SED documents (1):\n    Succeeded: 0\n    Skipped: 0\n    Failed: 1\n  Tasks (1):\n    Succeeded: 0\n    Skipped: 0\n    Failed: 1\n  Outputs (2):\n    Succeeded: 0\n    Skipped: 2\n    Failed: 0\n\nThe COMBINE/OMEX did not execute successfully:\n\n  The SED document did not execute successfully:\n  \n    Unable to support delay differential equations.  The function 'delay(x, tau)' is not supported., at llvm::Value* rrllvm::ASTNodeCodeGen::delayExprCodeGen(const libsbml::ASTNode*)\nsrun: error: xanadu-55: task 0: Exited with exit code 1\nsrun: Terminating job step 8682377.1\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 2.0 KiB/2.0 KiB (2.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/rawLog.txt\n\n\u001b[0;36m===================================================== Saving Structured log ==========================================\u001b[0m\nCompleted 3.2 KiB/3.2 KiB (43.5 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 73%)\n  adding: outputs/BIOMD0000000154_url.sedml/ (stored 0%)\n  adding: outputs/BIOMD0000000154_url.sedml/autogen_plot_for_task1.pdf (deflated 39%)\n  adding: outputs/reports.h5 (deflated 92%)\n  adding: rawLog.txt (deflated 68%)\n\n\u001b[0;36m=================================================== Saving HDF5 outputs ==================================================\u001b[0m\nCompleted 20.8 KiB/20.8 KiB (263.6 KiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/outputs/reports.h5\n\n\u001b[0;36m=================================================== Saving non-HDF5 outputs ==================================================\u001b[0m\nCompleted 8.0 KiB/20.6 KiB (104.2 KiB/s) with 4 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/output.zip\nCompleted 8.0 KiB/20.6 KiB (104.2 KiB/s) with 3 file(s) remaining\rCompleted 11.3 KiB/20.6 KiB (94.6 KiB/s) with 3 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/rawLog.txt\nCompleted 11.3 KiB/20.6 KiB (94.6 KiB/s) with 2 file(s) remaining\rCompleted 14.8 KiB/20.6 KiB (102.5 KiB/s) with 2 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/outputs/plots.zip\nCompleted 14.8 KiB/20.6 KiB (102.5 KiB/s) with 1 file(s) remaining\rCompleted 20.6 KiB/20.6 KiB (18.3 KiB/s) with 1 file(s) remaining \rupload: outputs/BIOMD0000000154_url.sedml/autogen_plot_for_task1.pdf to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/outputs/BIOMD0000000154_url.sedml/autogen_plot_for_task1.pdf\n\n\u001b[0;36m====================================== Unzip contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/manifest.xml   \n  inflating: contents/BIOMD0000000154_url.sedml  \n  inflating: contents/BIOMD0000000154_url.xml  \n\n\u001b[0;36m====================================== Save contents of COMBINE/OMEX archive ======================================\u001b[0m\nCompleted 9.3 KiB/22.3 KiB (125.0 KiB/s) with 3 file(s) remaining\rupload: contents/BIOMD0000000154_url.sedml to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/contents/BIOMD0000000154_url.sedml\nCompleted 9.3 KiB/22.3 KiB (125.0 KiB/s) with 2 file(s) remaining\rCompleted 21.7 KiB/22.3 KiB (203.3 KiB/s) with 2 file(s) remaining\rupload: contents/BIOMD0000000154_url.xml to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/contents/BIOMD0000000154_url.xml\nCompleted 21.7 KiB/22.3 KiB (203.3 KiB/s) with 1 file(s) remaining\rCompleted 22.3 KiB/22.3 KiB (186.6 KiB/s) with 1 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/contents/manifest.xml\n\n\u001b[0;36m==================================================== Updating log (2) ===============================================\u001b[0m\nCompleted 5.5 KiB/5.5 KiB (62.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6752d7e8707aa641045ea63f/rawLog.txt\n\n\u001b[0;36m================================================== Saving final log =================================================\u001b[0m\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 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.\u001b[0m\n\u001b[1;33mProcess the metadata in the COMBINE archive ... failed due to: The metadata of the file could not be found:\nThere was an error in processing the metadata file. More information is available at https://docs.biosimulations.org/concepts/conventions/simulation-project-metadata/. A validation tool is available at https://run.biosimulations.org/utils/validate-metadata.\nPost the metadata to the API ... failed due to: Metadata not found due to a dependent step failing.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":0.885843,"sedDocuments":[{"location":"BIOMD0000000154_url.sedml","status":"FAILED","exception":{"type":"SedmlExecutionError","message":"The SED document did not execute successfully:\n\n  Unable to support delay differential equations.  The function 'delay(x, tau)' is not supported., at llvm::Value* rrllvm::ASTNodeCodeGen::delayExprCodeGen(const libsbml::ASTNode*)"},"skipReason":null,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 1 tasks, 1 reports, and 1 plots:\r\n  BIOMD0000000154_url.sedml:\r\n    Tasks (1):\r\n      task1\r\n    Reports (1):\r\n      autogen_report_for_task1: 16 data sets\r\n    Plots (1):\r\n      autogen_plot_for_task1: 2 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000154_url.sedml ...\r\n  Found 1 tasks and 2 outputs:\r\n    Tasks:\r\n      `task1`\r\n    Outputs:\r\n      `autogen_plot_for_task1`\r\n      `autogen_report_for_task1`\r\n  Executing task 1: `task1`\r\n    Executing simulation ... \u001b[31mfailed\u001b[0m\r\n    Generating 2 outputs ...\r\n      Generating output 1: `autogen_report_for_task1` ... \u001b[36mqueued\u001b[0m\r\n      Generating output 2: `autogen_plot_for_task1` ...","duration":0.531107,"tasks":[{"id":"task1","status":"FAILED","exception":{"type":"RuntimeError","message":"Unable to support delay differential equations.  The function 'delay(x, tau)' is not supported., at llvm::Value* rrllvm::ASTNodeCodeGen::delayExprCodeGen(const libsbml::ASTNode*)"},"skipReason":null,"output":"","duration":0.074702,"algorithm":null,"simulatorDetails":null}],"outputs":[{"id":"autogen_report_for_task1","status":"SKIPPED","exception":null,"skipReason":null,"output":"","duration":0.051537,"dataSets":[{"id":"autogen_time_for_task1","status":"SKIPPED"},{"id":"autogen_task1_x","status":"SKIPPED"},{"id":"autogen_task1_y","status":"SKIPPED"},{"id":"autogen_task1_beta_x","status":"SKIPPED"},{"id":"autogen_task1_psi","status":"SKIPPED"},{"id":"autogen_task1_alpha_x","status":"SKIPPED"},{"id":"autogen_task1_alpha_xy","status":"SKIPPED"},{"id":"autogen_task1_beta_y","status":"SKIPPED"},{"id":"autogen_task1_alpha_y","status":"SKIPPED"},{"id":"autogen_task1_tau","status":"SKIPPED"},{"id":"autogen_task1_compartment","status":"SKIPPED"},{"id":"autogen_task1_R1","status":"SKIPPED"},{"id":"autogen_task1_R2","status":"SKIPPED"},{"id":"autogen_task1_R3","status":"SKIPPED"},{"id":"autogen_task1_R4","status":"SKIPPED"},{"id":"autogen_task1_R5","status":"SKIPPED"}]},{"id":"autogen_plot_for_task1","status":"SKIPPED","exception":null,"skipReason":null,"output":"","duration":0.291588,"curves":[{"id":"autogen_curve_task1_x","status":"SKIPPED"},{"id":"autogen_curve_task1_y","status":"SKIPPED"}]}]}]}