{"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    454      0 --:--:-- --:--:-- --:--:--   455\n\r100 48056  100 48056    0     0   112k      0 --:--:-- --:--:-- --:--:--  112k\n\n\u001b[0;36m=========================================== Executing COMBINE/OMEX 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 log ====================================================\u001b[0m\nCompleted 1.6 KiB/1.6 KiB (19.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/rawLog.txt\n\n\u001b[0;36m===================================================== Saving Structured log ==========================================\u001b[0m\nCompleted 5.6 KiB/5.6 KiB (73.5 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 84%)\n  adding: outputs/Adlung2021 _model_jakstat_pa.sedml/ (stored 0%)\n  adding: outputs/Adlung2021 _model_jakstat_pa.sedml/plot_2_task2.pdf (deflated 32%)\n  adding: outputs/reports.h5 (deflated 26%)\n  adding: rawLog.txt (deflated 72%)\n\n\u001b[0;36m=================================================== Saving HDF5 outputs ==================================================\u001b[0m\nCompleted 131.5 KiB/131.5 KiB (1.3 MiB/s) with 1 file(s) remaining\rupload: outputs/reports.h5 to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/outputs/reports.h5\n\n\u001b[0;36m=================================================== Saving non-HDF5 outputs ==================================================\u001b[0m\nCompleted 109.1 KiB/132.7 KiB (1.0 MiB/s) with 4 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/output.zip\nCompleted 109.1 KiB/132.7 KiB (1.0 MiB/s) with 3 file(s) remaining\rCompleted 121.6 KiB/132.7 KiB (1.1 MiB/s) with 3 file(s) remaining\rupload: outputs/Adlung2021 _model_jakstat_pa.sedml/plot_2_task2.pdf to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/outputs/Adlung2021 _model_jakstat_pa.sedml/plot_2_task2.pdf\nCompleted 121.6 KiB/132.7 KiB (1.1 MiB/s) with 2 file(s) remaining\rCompleted 124.5 KiB/132.7 KiB (1.0 MiB/s) with 2 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/rawLog.txt\nCompleted 124.5 KiB/132.7 KiB (1.0 MiB/s) with 1 file(s) remaining\rCompleted 132.7 KiB/132.7 KiB (858.1 KiB/s) with 1 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/outputs/plots.zip\n\n\u001b[0;36m====================================== Unzip contents of COMBINE/OMEX archive ======================================\u001b[0m\nArchive:  archive.omex\n  inflating: contents/Adlung2021 _model_jakstat_pa-biopax2.owl  \n  inflating: contents/Adlung2021 _model_jakstat_pa-biopax3.owl  \n  inflating: contents/Adlung2021 _model_jakstat_pa-matlab.m  \n  inflating: contents/Adlung2021 _model_jakstat_pa.cps  \n  inflating: contents/Adlung2021 _model_jakstat_pa.ode  \n  inflating: contents/Adlung2021 _model_jakstat_pa.sedml  \n  inflating: contents/Adlung2021 _model_jakstat_pa.xml  \n  inflating: contents/metadata.rdf   \n  inflating: contents/model_jakstat_pa-biopax2.owl  \n  inflating: contents/model_jakstat_pa-biopax3.owl  \n  inflating: contents/model_jakstat_pa-matlab.m  \n  inflating: contents/model_jakstat_pa.ode  \n  inflating: contents/model_jakstat_pa.xml  \n  inflating: contents/manifest.xml   \n\n\u001b[0;36m====================================== Save contents of COMBINE/OMEX archive ======================================\u001b[0m\nCompleted 13.8 KiB/526.0 KiB (123.6 KiB/s) with 14 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-matlab.m to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa-matlab.m\nCompleted 13.8 KiB/526.0 KiB (123.6 KiB/s) with 13 file(s) remaining\rCompleted 46.4 KiB/526.0 KiB (405.7 KiB/s) with 13 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-biopax2.owl to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa-biopax2.owl\nCompleted 46.4 KiB/526.0 KiB (405.7 KiB/s) with 12 file(s) remaining\rCompleted 48.3 KiB/526.0 KiB (340.7 KiB/s) with 12 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/metadata.rdf\nCompleted 48.3 KiB/526.0 KiB (340.7 KiB/s) with 11 file(s) remaining\rCompleted 70.8 KiB/526.0 KiB (488.9 KiB/s) with 11 file(s) remaining\rupload: contents/model_jakstat_pa-biopax2.owl to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/model_jakstat_pa-biopax2.owl\nCompleted 70.8 KiB/526.0 KiB (488.9 KiB/s) with 10 file(s) remaining\rCompleted 110.3 KiB/526.0 KiB (727.7 KiB/s) with 10 file(s) remaining\rupload: contents/model_jakstat_pa-biopax3.owl to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/model_jakstat_pa-biopax3.owl\nCompleted 110.3 KiB/526.0 KiB (727.7 KiB/s) with 9 file(s) remaining\rCompleted 120.8 KiB/526.0 KiB (708.1 KiB/s) with 9 file(s) remaining\rupload: contents/model_jakstat_pa-matlab.m to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/model_jakstat_pa-matlab.m\nCompleted 120.8 KiB/526.0 KiB (708.1 KiB/s) with 8 file(s) remaining\rCompleted 128.3 KiB/526.0 KiB (740.2 KiB/s) with 8 file(s) remaining\rupload: contents/model_jakstat_pa.ode to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/model_jakstat_pa.ode\nCompleted 128.3 KiB/526.0 KiB (740.2 KiB/s) with 7 file(s) remaining\rCompleted 130.1 KiB/526.0 KiB (739.3 KiB/s) with 7 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/manifest.xml\nCompleted 130.1 KiB/526.0 KiB (739.3 KiB/s) with 6 file(s) remaining\rCompleted 162.5 KiB/526.0 KiB (882.2 KiB/s) with 6 file(s) remaining\rupload: contents/model_jakstat_pa.xml to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/model_jakstat_pa.xml\nCompleted 162.5 KiB/526.0 KiB (882.2 KiB/s) with 5 file(s) remaining\rCompleted 261.4 KiB/526.0 KiB (1.3 MiB/s) with 5 file(s) remaining  \rupload: contents/Adlung2021 _model_jakstat_pa.xml to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa.xml\nCompleted 261.4 KiB/526.0 KiB (1.3 MiB/s) with 4 file(s) remaining\rCompleted 273.0 KiB/526.0 KiB (1.3 MiB/s) with 4 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.ode to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa.ode\nCompleted 273.0 KiB/526.0 KiB (1.3 MiB/s) with 3 file(s) remaining\rCompleted 311.7 KiB/526.0 KiB (1.2 MiB/s) with 3 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.sedml to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa.sedml\nCompleted 311.7 KiB/526.0 KiB (1.2 MiB/s) with 2 file(s) remaining\rCompleted 361.5 KiB/526.0 KiB (1.2 MiB/s) with 2 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-biopax3.owl to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa-biopax3.owl\nCompleted 361.5 KiB/526.0 KiB (1.2 MiB/s) with 1 file(s) remaining\rCompleted 526.0 KiB/526.0 KiB (1.2 MiB/s) with 1 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.cps to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/contents/Adlung2021 _model_jakstat_pa.cps\n\n\u001b[0;36m==================================================== Updating log (2) ===============================================\u001b[0m\nCompleted 8.9 KiB/8.9 KiB (131.2 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e56e9f643f14403cba8aa/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;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.\nRetrieve 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.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":1.565385,"sedDocuments":[{"location":"Adlung2021 _model_jakstat_pa.sedml","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"Archive contains 1 SED-ML documents with 1 models, 1 simulations, 2 tasks, 1 reports, and 1 plots:\r\n  Adlung2021 _model_jakstat_pa.sedml:\r\n    Tasks (2):\r\n      task1\r\n      task2\r\n    Reports (1):\r\n      autogen_report_for_task2: 71 data sets\r\n    Plots (1):\r\n      plot_2_task2: 2 curves\r\n\r\nExecuting SED-ML file 1: Adlung2021 _model_jakstat_pa.sedml ...\r\n  Found 1 tasks and 2 outputs:\r\n    Tasks:\r\n      `task2`\r\n    Outputs:\r\n      `autogen_report_for_task2`\r\n      `plot_2_task2`\r\n  Executing task 1: `task2`\r\n    Executing simulation ... \u001b[34msucceeded\u001b[0m\r\n    Generating 2 outputs ...\r\n      Generating output 1: `plot_2_task2` ... \u001b[34msucceeded\u001b[0m\r\n      Generating output 2: `autogen_report_for_task2` ...","duration":1.104039,"tasks":[{"id":"task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.280658,"algorithm":null,"simulatorDetails":null}],"outputs":[{"id":"plot_2_task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.328399,"curves":[{"id":"p1_curve_1_task2","status":"SUCCEEDED"},{"id":"p1_curve_2_task2","status":"SUCCEEDED"}]},{"id":"autogen_report_for_task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.330355,"dataSets":[{"id":"autogen_time_for_task2","status":"SUCCEEDED"},{"id":"autogen_task2_measuralbe_pSTAT5","status":"SUCCEEDED"},{"id":"autogen_task2__pSTAT5_Total_STAT5","status":"SUCCEEDED"},{"id":"autogen_task2_EpoRJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_EpoRpJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_p1EpoRpJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_p2EpoRpJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_p12EpoRpJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_SHP1","status":"SUCCEEDED"},{"id":"autogen_task2_SHP1Act","status":"SUCCEEDED"},{"id":"autogen_task2_STAT5","status":"SUCCEEDED"},{"id":"autogen_task2_pSTAT5","status":"SUCCEEDED"},{"id":"autogen_task2_npSTAT5","status":"SUCCEEDED"},{"id":"autogen_task2_CISnRNA1","status":"SUCCEEDED"},{"id":"autogen_task2_CISnRNA2","status":"SUCCEEDED"},{"id":"autogen_task2_CISRNA","status":"SUCCEEDED"},{"id":"autogen_task2_CIS","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3","status":"SUCCEEDED"},{"id":"autogen_task2_ActD","status":"SUCCEEDED"},{"id":"autogen_task2_CISEqc","status":"SUCCEEDED"},{"id":"autogen_task2_CISInh","status":"SUCCEEDED"},{"id":"autogen_task2_CISRNADelay","status":"SUCCEEDED"},{"id":"autogen_task2_CISRNAEqc","status":"SUCCEEDED"},{"id":"autogen_task2_CISRNATurn","status":"SUCCEEDED"},{"id":"autogen_task2_CISTurn","status":"SUCCEEDED"},{"id":"autogen_task2_DeaEpoRJAKActSHP1","status":"SUCCEEDED"},{"id":"autogen_task2_EpoRActJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_JAK2ActEpo","status":"SUCCEEDED"},{"id":"autogen_task2_SHP1ActEpoR","status":"SUCCEEDED"},{"id":"autogen_task2_SHP1Dea","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3Eqc","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3EqcOE","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3Inh","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3Turn","status":"SUCCEEDED"},{"id":"autogen_task2_SOCS3oe","status":"SUCCEEDED"},{"id":"autogen_task2_STAT5ActEpoR","status":"SUCCEEDED"},{"id":"autogen_task2_STAT5ActJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_STAT5Exp","status":"SUCCEEDED"},{"id":"autogen_task2_STAT5Imp","status":"SUCCEEDED"},{"id":"autogen_task2_epo_level","status":"SUCCEEDED"},{"id":"autogen_task2_init_EpoRJAK2","status":"SUCCEEDED"},{"id":"autogen_task2_init_SHP1","status":"SUCCEEDED"},{"id":"autogen_task2_init_STAT5","status":"SUCCEEDED"},{"id":"autogen_task2_Epo","status":"SUCCEEDED"},{"id":"autogen_task2_Total_STAT5","status":"SUCCEEDED"},{"id":"autogen_task2_cyt","status":"SUCCEEDED"},{"id":"autogen_task2_nuc","status":"SUCCEEDED"},{"id":"autogen_task2_v1_v_0","status":"SUCCEEDED"},{"id":"autogen_task2_v2_v_1","status":"SUCCEEDED"},{"id":"autogen_task2_v3_v_2","status":"SUCCEEDED"},{"id":"autogen_task2_v4_v_3","status":"SUCCEEDED"},{"id":"autogen_task2_v5_v_4","status":"SUCCEEDED"},{"id":"autogen_task2_v6_v_5","status":"SUCCEEDED"},{"id":"autogen_task2_v7_v_6","status":"SUCCEEDED"},{"id":"autogen_task2_v8_v_7","status":"SUCCEEDED"},{"id":"autogen_task2_v9_v_8","status":"SUCCEEDED"},{"id":"autogen_task2_v12_v_11","status":"SUCCEEDED"},{"id":"autogen_task2_v13_v_12","status":"SUCCEEDED"},{"id":"autogen_task2_v14_v_13","status":"SUCCEEDED"},{"id":"autogen_task2_v15_v_14","status":"SUCCEEDED"},{"id":"autogen_task2_v16_v_15","status":"SUCCEEDED"},{"id":"autogen_task2_v17_v_16","status":"SUCCEEDED"},{"id":"autogen_task2_v18_v_17","status":"SUCCEEDED"},{"id":"autogen_task2_v19_v_18","status":"SUCCEEDED"},{"id":"autogen_task2_v20_v_19","status":"SUCCEEDED"},{"id":"autogen_task2_v21_v_20","status":"SUCCEEDED"},{"id":"autogen_task2_v22_v_21","status":"SUCCEEDED"},{"id":"autogen_task2_v23_v_22","status":"SUCCEEDED"},{"id":"autogen_task2_v24_v_23","status":"SUCCEEDED"},{"id":"autogen_task2_v25_v_24","status":"SUCCEEDED"},{"id":"autogen_task2_v26_v_25","status":"SUCCEEDED"}]}]}]}