[0;36mThank you for using runBioSimulations![0m

[0;36m================================================ Loading Singularity ================================================[0m

[0;36m=================================================== Set up storage ==================================================[0m

[0;36m========================================== Downloading COMBINE/OMEX archive =========================================[0m
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[0;36m=========================================== Executing COMBINE/OMEX archive ==========================================[0m
INFO:    Using cached SIF image
Traceback (most recent call last):
  File "/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py", line 247, in <module>
    if not update_paths(args.path, args.scripts_dir, args.clear_args, args.extra_args):
  File "/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py", line 213, in update_paths
    update_scripts(scripts_dir, new_path, clear_args, extra_args)
  File "/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py", line 125, in update_scripts
    update_script(os.path.join(bin_dir, fn), new_path, clear_args, extra_args)
  File "/home/opencor/OpenCOR/bin/../python/bin/set_python_path.py", line 118, in update_script
    with open(script_filename, 'w') as f:
OSError: [Errno 30] Read-only file system: '/home/opencor/OpenCOR/bin/../python/bin/biosimulators-utils'
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mCOMBINE/OMEX archive may be invalid.
  - The manifest does not include its parent COMBINE/OMEX archive. Manifests should include their parent COMBINE/OMEX archives.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig3A.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2D.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig3B.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2A.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig3D.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2E.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2F.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig3C.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2C.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Model `model` may be invalid.
    - The model file `Weinstein_2000_AE1_Fig2B.cellml` may be invalid.
      - Validation is not available for CellML 1.1 files.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe COMBINE/OMEX archive may be invalid.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig3A.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig3A.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2D.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2D.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig3B.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig3B.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2A.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2A.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig3D.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig3D.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2E.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2E.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2F.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2F.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig3C.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig3C.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2C.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2C.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.
  - The SED-ML file at location `Weinstein_2000_AE1_Fig2B.sedml` may be invalid.
    - Model `model` may be invalid.
      - The model file `Weinstein_2000_AE1_Fig2B.cellml` may be invalid.
        - Validation is not available for CellML 1.1 files.
    - Output `plot1` may be invalid.
      - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
/home/opencor/OpenCOR/python/lib/python3.7/site-packages/biosimulators_utils/warnings.py:31: BioSimulatorsWarning: [33mThe SED document is potentially incorrect.
  - Output `plot1` may be invalid.
    - 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.[0m
  warnings.warn(termcolor.colored(message, Colors.warning.value), category)
Archive contains 10 SED-ML documents with 10 models, 10 simulations, 20 tasks, 0 reports, and 10 plots:
  Weinstein_2000_AE1_Fig2A.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig2B.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig2C.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig2D.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig2E.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig2F.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig3A.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig3B.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig3C.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves
  Weinstein_2000_AE1_Fig3D.sedml:
    Tasks (2):
      repeatedTask
      task1
    Plots (1):
      plot1: 1 curves

Executing SED-ML file 1: Weinstein_2000_AE1_Fig3A.sedml ...
Executing SED-ML file 2: Weinstein_2000_AE1_Fig2D.sedml ...
Executing SED-ML file 3: Weinstein_2000_AE1_Fig3B.sedml ...
Executing SED-ML file 4: Weinstein_2000_AE1_Fig2A.sedml ...
Executing SED-ML file 5: Weinstein_2000_AE1_Fig3D.sedml ...
Executing SED-ML file 6: Weinstein_2000_AE1_Fig2E.sedml ...
Executing SED-ML file 7: Weinstein_2000_AE1_Fig2F.sedml ...
Executing SED-ML file 8: Weinstein_2000_AE1_Fig3C.sedml ...
Executing SED-ML file 9: Weinstein_2000_AE1_Fig2C.sedml ...
Executing SED-ML file 10: Weinstein_2000_AE1_Fig2B.sedml ...

Bundling outputs ...
Cleaning up ...

============= SUMMARY =============
Executed 10 SED documents:
  SED documents (10):
    Succeeded: 10
    Skipped: 0
    Failed: 0
  Tasks (20):
    Succeeded: 20
    Skipped: 0
    Failed: 0
  Outputs (10):
    Succeeded: 10
    Skipped: 0
    Failed: 0


[0;36m===================================================== Saving log ====================================================[0m
Completed 16.3 KiB/16.3 KiB (152.1 KiB/s) with 1 file(s) remaining
upload: ./rawLog.txt to s3://files.biosimulations.org/simulations/6261742f4679625b3246e3a2/rawLog.txt
Completed 51.9 KiB/51.9 KiB (346.9 KiB/s) with 1 file(s) remaining
upload: outputs/log.yml to s3://files.biosimulations.org/simulations/6261742f4679625b3246e3a2/outputs/log.yml

[0;36m================================================== Zipping outputs ==================================================[0m
  adding: outputs/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2B.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2B.sedml/plot1.pdf (deflated 32%)
  adding: outputs/log.yml (deflated 95%)
  adding: outputs/Weinstein_2000_AE1_Fig2D.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2D.sedml/plot1.pdf (deflated 31%)
  adding: outputs/Weinstein_2000_AE1_Fig2C.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2C.sedml/plot1.pdf (deflated 33%)
  adding: outputs/Weinstein_2000_AE1_Fig3D.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig3D.sedml/plot1.pdf (deflated 31%)
  adding: outputs/Weinstein_2000_AE1_Fig3A.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig3A.sedml/plot1.pdf (deflated 32%)
  adding: outputs/Weinstein_2000_AE1_Fig3C.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig3C.sedml/plot1.pdf (deflated 33%)
  adding: outputs/Weinstein_2000_AE1_Fig2A.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2A.sedml/plot1.pdf (deflated 33%)
  adding: outputs/Weinstein_2000_AE1_Fig3B.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig3B.sedml/plot1.pdf (deflated 32%)
  adding: outputs/Weinstein_2000_AE1_Fig2E.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2E.sedml/plot1.pdf (deflated 31%)
  adding: outputs/Weinstein_2000_AE1_Fig2F.sedml/ (stored 0%)
  adding: outputs/Weinstein_2000_AE1_Fig2F.sedml/plot1.pdf (deflated 32%)
  adding: outputs/reports.h5 (deflated 18%)
