{"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    456      0 --:--:-- --:--:-- --:--:--   457\n\r100 48056  100 48056    0     0   103k      0 --:--:-- --:--:-- --:--:--  103k\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 (23.8 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/rawLog.txt\n\n\u001b[0;36m===================================================== Saving Structured log ==========================================\u001b[0m\nCompleted 5.6 KiB/5.6 KiB (19.4 KiB/s) with 1 file(s) remaining\rupload: outputs/log.yml to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/outputs/log.yml\n\n\u001b[0;36m================================================== Zipping outputs ==================================================\u001b[0m\n  adding: outputs/ (stored 0%)\n  adding: outputs/log.yml (deflated 83%)\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/674e5f31dc9881557032f04f/outputs/reports.h5\n\n\u001b[0;36m=================================================== Saving non-HDF5 outputs ==================================================\u001b[0m\nCompleted 109.0 KiB/132.7 KiB (1.2 MiB/s) with 4 file(s) remaining\rupload: ./output.zip to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/output.zip\nCompleted 109.0 KiB/132.7 KiB (1.2 MiB/s) with 3 file(s) remaining\rCompleted 111.9 KiB/132.7 KiB (1.0 MiB/s) with 3 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/rawLog.txt\nCompleted 111.9 KiB/132.7 KiB (1.0 MiB/s) with 2 file(s) remaining\rCompleted 124.4 KiB/132.7 KiB (1.1 MiB/s) with 2 file(s) remaining\rupload: outputs/Adlung2021 _model_jakstat_pa.sedml/plot_2_task2.pdf to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/outputs/Adlung2021 _model_jakstat_pa.sedml/plot_2_task2.pdf\nCompleted 124.4 KiB/132.7 KiB (1.1 MiB/s) with 1 file(s) remaining\rCompleted 132.7 KiB/132.7 KiB (1.1 MiB/s) with 1 file(s) remaining\rupload: outputs/plots.zip to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/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 49.8 KiB/526.0 KiB (494.3 KiB/s) with 14 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-biopax3.owl to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa-biopax3.owl\nCompleted 49.8 KiB/526.0 KiB (494.3 KiB/s) with 13 file(s) remaining\rCompleted 63.6 KiB/526.0 KiB (542.3 KiB/s) with 13 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-matlab.m to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa-matlab.m\nCompleted 63.6 KiB/526.0 KiB (542.3 KiB/s) with 12 file(s) remaining\rCompleted 65.4 KiB/526.0 KiB (465.8 KiB/s) with 12 file(s) remaining\rupload: contents/metadata.rdf to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/metadata.rdf\nCompleted 65.4 KiB/526.0 KiB (465.8 KiB/s) with 11 file(s) remaining\rCompleted 229.9 KiB/526.0 KiB (1.6 MiB/s) with 11 file(s) remaining \rupload: contents/Adlung2021 _model_jakstat_pa.cps to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa.cps\nCompleted 229.9 KiB/526.0 KiB (1.6 MiB/s) with 10 file(s) remaining\rCompleted 252.4 KiB/526.0 KiB (1.7 MiB/s) with 10 file(s) remaining\rupload: contents/model_jakstat_pa-biopax2.owl to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/model_jakstat_pa-biopax2.owl\nCompleted 252.4 KiB/526.0 KiB (1.7 MiB/s) with 9 file(s) remaining\rCompleted 291.9 KiB/526.0 KiB (1.8 MiB/s) with 9 file(s) remaining\rupload: contents/model_jakstat_pa-biopax3.owl to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/model_jakstat_pa-biopax3.owl\nCompleted 291.9 KiB/526.0 KiB (1.8 MiB/s) with 8 file(s) remaining\rCompleted 302.4 KiB/526.0 KiB (1.8 MiB/s) with 8 file(s) remaining\rupload: contents/model_jakstat_pa-matlab.m to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/model_jakstat_pa-matlab.m\nCompleted 302.4 KiB/526.0 KiB (1.8 MiB/s) with 7 file(s) remaining\rCompleted 304.2 KiB/526.0 KiB (1.6 MiB/s) with 7 file(s) remaining\rupload: contents/manifest.xml to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/manifest.xml\nCompleted 304.2 KiB/526.0 KiB (1.6 MiB/s) with 6 file(s) remaining\rCompleted 403.0 KiB/526.0 KiB (2.1 MiB/s) with 6 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.xml to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa.xml\nCompleted 403.0 KiB/526.0 KiB (2.1 MiB/s) with 5 file(s) remaining\rCompleted 410.6 KiB/526.0 KiB (2.1 MiB/s) with 5 file(s) remaining\rupload: contents/model_jakstat_pa.ode to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/model_jakstat_pa.ode\nCompleted 410.6 KiB/526.0 KiB (2.1 MiB/s) with 4 file(s) remaining\rCompleted 443.0 KiB/526.0 KiB (2.1 MiB/s) with 4 file(s) remaining\rupload: contents/model_jakstat_pa.xml to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/model_jakstat_pa.xml\nCompleted 443.0 KiB/526.0 KiB (2.1 MiB/s) with 3 file(s) remaining\rCompleted 454.7 KiB/526.0 KiB (2.1 MiB/s) with 3 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.ode to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa.ode\nCompleted 454.7 KiB/526.0 KiB (2.1 MiB/s) with 2 file(s) remaining\rCompleted 493.4 KiB/526.0 KiB (2.1 MiB/s) with 2 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa.sedml to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa.sedml\nCompleted 493.4 KiB/526.0 KiB (2.1 MiB/s) with 1 file(s) remaining\rCompleted 526.0 KiB/526.0 KiB (1.5 MiB/s) with 1 file(s) remaining\rupload: contents/Adlung2021 _model_jakstat_pa-biopax2.owl to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/contents/Adlung2021 _model_jakstat_pa-biopax2.owl\n\n\u001b[0;36m==================================================== Updating log (2) ===============================================\u001b[0m\nCompleted 8.9 KiB/8.9 KiB (142.5 KiB/s) with 1 file(s) remaining\rupload: ./rawLog.txt to s3://files.biosimulations.org/simulations/674e5f31dc9881557032f04f/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 and upload the outputs of the simulation run ... succeeded.\nProcess the SED-ML file in the COMBINE archive ... succeeded.\nPost the SED-ML file to the API ... 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 metadata in the COMBINE archive ... succeeded.\nPost the metadata to the API ... succeeded.\u001b[0m\n\u001b[0;36m================================ Run complete. Thank you for using runBioSimulations! ===============================\u001b[0m","duration":1.790221,"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 ...woohoo!\r\nwoohoo!\r\n \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":1.390348,"tasks":[{"id":"task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.424495,"algorithm":null,"simulatorDetails":null}],"outputs":[{"id":"plot_2_task2","status":"SUCCEEDED","exception":null,"skipReason":null,"output":"","duration":0.462963,"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":0.337571,"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"}]}]}]}