{"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\r  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0\r100   139  100   139    0     0    478      0 --:--:-- --:--:-- --:--:--   477\n\r100  184k  100  184k    0     0   458k      0 --:--:-- --:--:-- --:--:--  458k\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================\u001b[0m\nINFO:    Using cached SIF image\nCould not find GLIMDA.\nlibtk8.6.so: cannot open shared object file: No such file or directory\r\n\r\nPySCeS defaults to matplotlib's TKagg backend if not specified                          in the user configuration file, set \"matplotlib_backend = <backend>\" \r\nMatplotlib interface loaded (pysces.plt.m)\r\nPitcon routines available\r\nNLEQ2 routines available\r\nSBML support available\r\nYou are using NumPy (1.21.4) with SciPy (1.7.3)\r\nAssimulo CVode available\r\nRateChar is available\r\nParallel scanner is available\r\n\r\nPySCeS environment\r\n******************\r\npysces.model_dir = /home/FCAM/crbmapi/Pysces/psc\r\npysces.output_dir = /home/FCAM/crbmapi/Pysces\r\n\r\n\r\n***********************************************************************\r\n* Welcome to PySCeS (1.0.0) - Python Simulator for Cellular Systems   *\r\n*                http://pysces.sourceforge.net                        *\r\n* Copyright(C) B.G. Olivier, J.M. Rohwer, J.-H.S. Hofmeyr, 2004-2022  *\r\n* Triple-J Group for Molecular Cell Physiology                        *\r\n* Stellenbosch University, ZA and VU University Amsterdam, NL         *\r\n* PySCeS is distributed under the PySCeS (BSD style) licence, see     *\r\n* LICENCE.txt (supplied with this release) for details                *\r\n* Please cite PySCeS with: doi:10.1093/bioinformatics/bti046          *\r\n***********************************************************************\r\n \u001b[34msucceeded\u001b[0m\n\n  Executed 3 tasks and 4 outputs:\n    Tasks:\n      Succeeded: 3\n      Skipped: 0\n      Failed: 0\n    Outputs:\n      Succeeded: 4\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 (3):\n    Succeeded: 3\n    Skipped: 0\n    Failed: 0\n  Outputs (4):\n    Succeeded: 4\n    Skipped: 0\n    Failed: 0\n\n\n\u001b[0;36m===================================================== Saving log ====================================================\u001b[0m\nCompleted 3.0 KiB/3.0 KiB (45.3 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/rawLog.txt\nCompleted 10.2 KiB/10.2 KiB (44.4 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 80%)\n  adding: outputs/BIOMD0000000461.sedml/ (stored 0%)\n  adding: outputs/BIOMD0000000461.sedml/plot1.pdf (deflated 30%)\n  adding: outputs/reports.h5 (deflated 36%)\n  adding: rawLog.txt (deflated 64%)\n\n\u001b[0;36m=================================================== Saving outputs ==================================================\u001b[0m\nCompleted 187.0 KiB/187.0 KiB (1.9 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/outputs/reports.h5\nCompleted 22.6 KiB/220.9 KiB (301.3 KiB/s) with 7 file(s) remaining\rupload: ./_pystmptmp1thi5fc_parsetab.py to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/_pystmptmp1thi5fc_parsetab.py\nCompleted 22.6 KiB/220.9 KiB (301.3 KiB/s) with 6 file(s) remaining\rCompleted 32.9 KiB/220.9 KiB (281.9 KiB/s) with 6 file(s) remaining\rupload: outputs/BIOMD0000000461.sedml/plot1.pdf to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/outputs/BIOMD0000000461.sedml/plot1.pdf\nCompleted 32.9 KiB/220.9 KiB (281.9 KiB/s) with 5 file(s) remaining\rCompleted 55.4 KiB/220.9 KiB (466.9 KiB/s) with 5 file(s) remaining\rupload: ./_pystmptmpluejofs_parsetab.py to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/_pystmptmpluejofs_parsetab.py\nCompleted 55.4 KiB/220.9 KiB (466.9 KiB/s) with 4 file(s) remaining\rCompleted 62.4 KiB/220.9 KiB (512.9 KiB/s) with 4 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/outputs/plots.zip\nCompleted 62.4 KiB/220.9 KiB (512.9 KiB/s) with 3 file(s) remaining\rCompleted 85.0 KiB/220.9 KiB (635.1 KiB/s) with 3 file(s) remaining\rupload: ./_pystmptmpgk43pspk_parsetab.py to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/_pystmptmpgk43pspk_parsetab.py\nCompleted 85.0 KiB/220.9 KiB (635.1 KiB/s) with 2 file(s) remaining\rCompleted 216.9 KiB/220.9 KiB (1.5 MiB/s) with 2 file(s) remaining \rupload: ./output.zip to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/output.zip\nCompleted 216.9 KiB/220.9 KiB (1.5 MiB/s) with 1 file(s) remaining\rCompleted 220.9 KiB/220.9 KiB (1.5 MiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/rawLog.txt\n\n\u001b[0;36m====================================== Saving contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/BIOMD0000000461-biopax2.owl  \n  inflating: contents/BIOMD0000000461-biopax3.owl  \n  inflating: contents/BIOMD0000000461-matlab.m  \n  inflating: contents/BIOMD0000000461-octave.m  \n  inflating: contents/BIOMD0000000461.m  \n  inflating: contents/BIOMD0000000461.ode  \n  inflating: contents/BIOMD0000000461.pdf  \n  inflating: contents/BIOMD0000000461.png  \n  inflating: contents/BIOMD0000000461.sci  \n  inflating: contents/BIOMD0000000461.sedml  \n  inflating: contents/BIOMD0000000461.svg  \n  inflating: contents/BIOMD0000000461_url.xml  \n  inflating: contents/curation_image.png  \n  inflating: contents/curation_notes.txt  \n  inflating: contents/metadata.rdf   \n  inflating: contents/manifest.xml   \nCompleted 12.0 KiB/302.5 KiB (186.8 KiB/s) with 16 file(s) remaining\rupload: contents/BIOMD0000000461-biopax3.owl to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461-biopax3.owl\nCompleted 12.0 KiB/302.5 KiB (186.8 KiB/s) with 15 file(s) remaining\rCompleted 15.3 KiB/302.5 KiB (135.2 KiB/s) with 15 file(s) remaining\rupload: contents/BIOMD0000000461-matlab.m to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461-matlab.m\nCompleted 15.3 KiB/302.5 KiB (135.2 KiB/s) with 14 file(s) remaining\rCompleted 24.8 KiB/302.5 KiB (201.8 KiB/s) with 14 file(s) remaining\rupload: contents/BIOMD0000000461-biopax2.owl to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461-biopax2.owl\nCompleted 24.8 KiB/302.5 KiB (201.8 KiB/s) with 13 file(s) remaining\rCompleted 28.1 KiB/302.5 KiB (217.8 KiB/s) with 13 file(s) remaining\rupload: contents/BIOMD0000000461-octave.m to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461-octave.m\nCompleted 28.1 KiB/302.5 KiB (217.8 KiB/s) with 12 file(s) remaining\rCompleted 38.4 KiB/302.5 KiB (286.1 KiB/s) with 12 file(s) remaining\rupload: contents/BIOMD0000000461.svg to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.svg\nCompleted 38.4 KiB/302.5 KiB (286.1 KiB/s) with 11 file(s) remaining\rCompleted 39.7 KiB/302.5 KiB (287.8 KiB/s) with 11 file(s) remaining\rupload: contents/BIOMD0000000461.sci to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.sci\nCompleted 39.7 KiB/302.5 KiB (287.8 KiB/s) with 10 file(s) remaining\rCompleted 63.2 KiB/302.5 KiB (453.3 KiB/s) with 10 file(s) remaining\rupload: contents/BIOMD0000000461.sedml to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.sedml\nCompleted 63.2 KiB/302.5 KiB (453.3 KiB/s) with 9 file(s) remaining\rCompleted 65.1 KiB/302.5 KiB (460.8 KiB/s) with 9 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/manifest.xml\nCompleted 65.1 KiB/302.5 KiB (460.8 KiB/s) with 8 file(s) remaining\rCompleted 83.1 KiB/302.5 KiB (552.2 KiB/s) with 8 file(s) remaining\rupload: contents/BIOMD0000000461_url.xml to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461_url.xml\nCompleted 83.1 KiB/302.5 KiB (552.2 KiB/s) with 7 file(s) remaining\rCompleted 83.4 KiB/302.5 KiB (517.5 KiB/s) with 7 file(s) remaining\rupload: contents/curation_notes.txt to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/curation_notes.txt\nCompleted 83.4 KiB/302.5 KiB (517.5 KiB/s) with 6 file(s) remaining\rCompleted 89.7 KiB/302.5 KiB (502.3 KiB/s) with 6 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/metadata.rdf\nCompleted 89.7 KiB/302.5 KiB (502.3 KiB/s) with 5 file(s) remaining\rCompleted 112.4 KiB/302.5 KiB (608.5 KiB/s) with 5 file(s) remaining\rupload: contents/curation_image.png to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/curation_image.png\nCompleted 112.4 KiB/302.5 KiB (608.5 KiB/s) with 4 file(s) remaining\rCompleted 259.3 KiB/302.5 KiB (1.2 MiB/s) with 4 file(s) remaining  \rCompleted 262.5 KiB/302.5 KiB (1.2 MiB/s) with 4 file(s) remaining  \rupload: contents/BIOMD0000000461.m to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.m\nCompleted 262.5 KiB/302.5 KiB (1.2 MiB/s) with 3 file(s) remaining\rCompleted 264.1 KiB/302.5 KiB (1.2 MiB/s) with 3 file(s) remaining\rupload: contents/BIOMD0000000461.ode to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.ode\nCompleted 264.1 KiB/302.5 KiB (1.2 MiB/s) with 2 file(s) remaining\rCompleted 302.5 KiB/302.5 KiB (1.4 MiB/s) with 2 file(s) remaining\rupload: contents/BIOMD0000000461.png to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.png\nCompleted 302.5 KiB/302.5 KiB (1.4 MiB/s) with 1 file(s) remaining\rupload: contents/BIOMD0000000461.pdf to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/contents/BIOMD0000000461.pdf\n\n\u001b[0;36m==================================================== Updating log ===================================================\u001b[0m\nCompleted 11.0 KiB/11.0 KiB (118.9 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6488bacf6262268786a2769d/rawLog.txt\n\n\u001b[0;36m=================================================== Saving results ==================================================\u001b[0m\ncreating group /BIOMD0000000461.sedml\ncreating dataset /BIOMD0000000461.sedml/autogen_report_for_task1, shape: (15, 1001), type: float64\ndataset created, uuid: d-c05fee7e-85b80328-fec3-6638e6-99571e, chunk_size: (15, 1001)\ncreating dataset /BIOMD0000000461.sedml/autogen_report_for_task2, shape: (15, 1001), type: float64\ndataset created, uuid: d-c05fee7e-85b80328-339a-483828-304328, chunk_size: (15, 1001)\ncreating dataset /BIOMD0000000461.sedml/autogen_report_for_task3, shape: (15, 1001), type: float64\ndataset created, uuid: d-c05fee7e-85b80328-bc7d-fa8c50-feec04, chunk_size: (15, 1001)\ncreating dataset /BIOMD0000000461.sedml/plot1, shape: (4, 1001), type: float64\ndataset created, uuid: d-c05fee7e-85b80328-355c-9790f7-1a631c, chunk_size: (4, 1001)\ncreating attribute combineArchiveLocation in /BIOMD0000000461.sedml\ncreating attribute uri in /BIOMD0000000461.sedml\ncreating attribute _type in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetDataTypes in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetIds in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetLabels in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetNames in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlDataSetShapes in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlId in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute sedmlName in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute uri in /BIOMD0000000461.sedml/autogen_report_for_task1\ncreating attribute _type in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlDataSetDataTypes in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlDataSetIds in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlDataSetLabels in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlDataSetNames in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlDataSetShapes in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlId in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute sedmlName in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute uri in /BIOMD0000000461.sedml/autogen_report_for_task2\ncreating attribute _type in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlDataSetDataTypes in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlDataSetIds in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlDataSetLabels in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlDataSetNames in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlDataSetShapes in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlId in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute sedmlName in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute uri in /BIOMD0000000461.sedml/autogen_report_for_task3\ncreating attribute _type in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlDataSetDataTypes in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlDataSetIds in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlDataSetLabels in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlDataSetNames in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlDataSetShapes in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlId in /BIOMD0000000461.sedml/plot1\ncreating attribute sedmlName in /BIOMD0000000461.sedml/plot1\ncreating attribute uri in /BIOMD0000000461.sedml/plot1\ncreate_links: /\ngot link: BIOMD0000000461.sedml\ncreate_links: /BIOMD0000000461.sedml\ngot link: autogen_report_for_task1\ngot link: autogen_report_for_task2\ngot link: autogen_report_for_task3\ngot link: plot1\nwrite_dataset src: /BIOMD0000000461.sedml/autogen_report_for_task1 to tgt: /BIOMD0000000461.sedml/autogen_report_for_task1, shape: (15, 1001), type: float64\niterating over chunks for /BIOMD0000000461.sedml/autogen_report_for_task1\nwriting dataset data for slice: (slice(0, 15, 1), slice(0, 1001, 1))\ndone with dataload for /BIOMD0000000461.sedml/autogen_report_for_task1\nwrite_dataset src: /BIOMD0000000461.sedml/autogen_report_for_task2 to tgt: /BIOMD0000000461.sedml/autogen_report_for_task2, shape: (15, 1001), type: float64\niterating over chunks for /BIOMD0000000461.sedml/autogen_report_for_task2\nwriting dataset data for slice: (slice(0, 15, 1), slice(0, 1001, 1))\ndone with dataload for /BIOMD0000000461.sedml/autogen_report_for_task2\nwrite_dataset src: /BIOMD0000000461.sedml/autogen_report_for_task3 to tgt: /BIOMD0000000461.sedml/autogen_report_for_task3, shape: (15, 1001), type: float64\niterating over chunks for /BIOMD0000000461.sedml/autogen_report_for_task3\nwriting dataset data for slice: (slice(0, 15, 1), slice(0, 1001, 1))\ndone with dataload for /BIOMD0000000461.sedml/autogen_report_for_task3\nwrite_dataset src: /BIOMD0000000461.sedml/plot1 to tgt: /BIOMD0000000461.sedml/plot1, shape: (4, 1001), type: float64\niterating over chunks for /BIOMD0000000461.sedml/plot1\nwriting dataset data for slice: (slice(0, 4, 1), slice(0, 1001, 1))\ndone with dataload for /BIOMD0000000461.sedml/plot1\nload_file complete\nFile outputs/reports.h5 uploaded to domain: /results/6488bacf6262268786a2769d\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 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.\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.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":2.28827,"sedDocuments":[{"location":"BIOMD0000000461.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Archive contains 1 SED-ML documents with 3 models, 1 simulations, 3 tasks, 3 reports, and 1 plots:\r\n  BIOMD0000000461.sedml:\r\n    Tasks (3):\r\n      task1\r\n      task2\r\n      task3\r\n    Reports (3):\r\n      autogen_report_for_task1: 15 data sets\r\n      autogen_report_for_task2: 15 data sets\r\n      autogen_report_for_task3: 15 data sets\r\n    Plots (1):\r\n      plot1: 3 curves\r\n\r\nExecuting SED-ML file 1: BIOMD0000000461.sedml ...\r\n  Found 3 tasks and 4 outputs:\r\n    Tasks:\r\n      `task1`\r\n      `task2`\r\n      `task3`\r\n    Outputs:\r\n      `autogen_report_for_task1`\r\n      `autogen_report_for_task2`\r\n      `autogen_report_for_task3`\r\n      `plot1`\r\n  Executing task 1: `task1`\r\n    Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: single compartment model: locating \"v1\" in default compartment\r\nInfo: single compartment model: locating \"v2\" in default compartment\r\nInfo: single compartment model: locating \"v3\" in default compartment\r\nWriting file: /tmp/tmpl_uejofs.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpcff71ndu/BIOMD0000000461_url.xml\r\nout: /tmp/tmpl_uejofs.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpl_uejofs.psc loading ..... \r\nParsing file: /tmp/tmpl_uejofs.psc\r\n \r\nCalculating L matrix . . . . . . .  done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\nCVODE time for 1001 points: 0.032511234283447266\r\n \u001b[34msucceeded\u001b[0m\r\n    Generating 4 outputs ...\r\n      Generating output 1: `plot1` ... \u001b[32mrunning\u001b[0m\r\n      Generating output 2: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 3: `autogen_report_for_task2` ... \u001b[36mqueued\u001b[0m\r\n      Generating output 4: `autogen_report_for_task3` ... \u001b[36mqueued\u001b[0m\r\n  Executing task 2: `task2`\r\n    Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: single compartment model: locating \"v1\" in default compartment\r\nInfo: single compartment model: locating \"v2\" in default compartment\r\nInfo: single compartment model: locating \"v3\" in default compartment\r\nWriting file: /tmp/tmpgk43pspk.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmpbpry5dgt.xml\r\nout: /tmp/tmpgk43pspk.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmpgk43pspk.psc loading ..... \r\nParsing file: /tmp/tmpgk43pspk.psc\r\n \r\nCalculating L matrix . . . . . . .  done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\nCVODE time for 1001 points: 0.028212308883666992\r\n \u001b[34msucceeded\u001b[0m\r\n    Generating 4 outputs ...\r\n      Generating output 1: `plot1` ... \u001b[32mrunning\u001b[0m\r\n      Generating output 2: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 3: `autogen_report_for_task2` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 4: `autogen_report_for_task3` ... \u001b[36mqueued\u001b[0m\r\n  Executing task 3: `task3`\r\n    Executing simulation ...Check SBML support is at action level 2\r\nSBML file is L2V4\r\nInfo: single compartment model: locating \"v1\" in default compartment\r\nInfo: single compartment model: locating \"v2\" in default compartment\r\nInfo: single compartment model: locating \"v3\" in default compartment\r\nWriting file: /tmp/tmp_1thi5fc.psc\r\n\r\nSBML2PSC\r\nin : /tmp/tmphbjtpfbb.xml\r\nout: /tmp/tmp_1thi5fc.psc\r\nUsing model directory: /home/FCAM/crbmapi/Pysces/psc\r\n/tmp/tmp_1thi5fc.psc loading ..... \r\nParsing file: /tmp/tmp_1thi5fc.psc\r\n \r\nCalculating L matrix . . . . . . .  done.\r\nCalculating K matrix . . . . . . . no flux conservation\r\n done.\r\n \r\nCVODE time for 1001 points: 0.029196739196777344\r\n \u001b[34msucceeded\u001b[0m\r\n    Generating 4 outputs ...\r\n      Generating output 1: `plot1` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 2: `autogen_report_for_task1` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 3: `autogen_report_for_task2` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 4: `autogen_report_for_task3` ...","duration":2.009997,"tasks":[{"id":"task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.11568,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"pysces.PyscesModel.Simulate"},{"key":"arguments","value":{"cvode_abstol":1e-15,"cvode_mxstep":1000,"cvode_reltol":1e-9,"cvode_return_event_timepoints":false,"cvode_stats":false}}]},{"id":"task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.099433,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"pysces.PyscesModel.Simulate"},{"key":"arguments","value":{"cvode_abstol":1e-15,"cvode_mxstep":1000,"cvode_reltol":1e-9,"cvode_return_event_timepoints":false,"cvode_stats":false}}]},{"id":"task3","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.102288,"algorithm":"KISAO_0000019","simulatorDetails":[{"key":"method","value":"pysces.PyscesModel.Simulate"},{"key":"arguments","value":{"cvode_abstol":1e-15,"cvode_mxstep":1000,"cvode_reltol":1e-9,"cvode_return_event_timepoints":false,"cvode_stats":false}}]}],"outputs":[{"id":"plot1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.166592,"curves":[{"id":"curve_0","status":"SUCCEEDED"},{"id":"curve_1","status":"SUCCEEDED"},{"id":"curve_2","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task1","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.131379,"dataSets":[{"id":"autogen_time_for_task1","status":"SUCCEEDED"},{"id":"autogen_task1_lacz","status":"SUCCEEDED"},{"id":"autogen_task1_IPTG","status":"SUCCEEDED"},{"id":"autogen_task1_sigb","status":"SUCCEEDED"},{"id":"autogen_task1_x","status":"SUCCEEDED"},{"id":"autogen_task1_kbd","status":"SUCCEEDED"},{"id":"autogen_task1_kbs","status":"SUCCEEDED"},{"id":"autogen_task1_kxd","status":"SUCCEEDED"},{"id":"autogen_task1_kxs","status":"SUCCEEDED"},{"id":"autogen_task1_kzd","status":"SUCCEEDED"},{"id":"autogen_task1_kzs","status":"SUCCEEDED"},{"id":"autogen_task1_compartment","status":"SUCCEEDED"},{"id":"autogen_task1_v1","status":"SUCCEEDED"},{"id":"autogen_task1_v2","status":"SUCCEEDED"},{"id":"autogen_task1_v3","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.134405,"dataSets":[{"id":"autogen_time_for_task2","status":"SUCCEEDED"},{"id":"autogen_task2_lacz","status":"SUCCEEDED"},{"id":"autogen_task2_IPTG","status":"SUCCEEDED"},{"id":"autogen_task2_sigb","status":"SUCCEEDED"},{"id":"autogen_task2_x","status":"SUCCEEDED"},{"id":"autogen_task2_kbd","status":"SUCCEEDED"},{"id":"autogen_task2_kbs","status":"SUCCEEDED"},{"id":"autogen_task2_kxd","status":"SUCCEEDED"},{"id":"autogen_task2_kxs","status":"SUCCEEDED"},{"id":"autogen_task2_kzd","status":"SUCCEEDED"},{"id":"autogen_task2_kzs","status":"SUCCEEDED"},{"id":"autogen_task2_compartment","status":"SUCCEEDED"},{"id":"autogen_task2_v1","status":"SUCCEEDED"},{"id":"autogen_task2_v2","status":"SUCCEEDED"},{"id":"autogen_task2_v3","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task3","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.135467,"dataSets":[{"id":"autogen_time_for_task3","status":"SUCCEEDED"},{"id":"autogen_task3_lacz","status":"SUCCEEDED"},{"id":"autogen_task3_IPTG","status":"SUCCEEDED"},{"id":"autogen_task3_sigb","status":"SUCCEEDED"},{"id":"autogen_task3_x","status":"SUCCEEDED"},{"id":"autogen_task3_kbd","status":"SUCCEEDED"},{"id":"autogen_task3_kbs","status":"SUCCEEDED"},{"id":"autogen_task3_kxd","status":"SUCCEEDED"},{"id":"autogen_task3_kxs","status":"SUCCEEDED"},{"id":"autogen_task3_kzd","status":"SUCCEEDED"},{"id":"autogen_task3_kzs","status":"SUCCEEDED"},{"id":"autogen_task3_compartment","status":"SUCCEEDED"},{"id":"autogen_task3_v1","status":"SUCCEEDED"},{"id":"autogen_task3_v2","status":"SUCCEEDED"},{"id":"autogen_task3_v3","status":"SUCCEEDED"}]}]}]}