Could not load SBML model

Created by: subhacom

Attached SBML model is created using python-libsbml. This could be loaded into MOOSE using moose.loadSBML(model_file_path, '/model') command:

File "./smolen_baxter_bryne.py", line 29, in setupModel
    moose.readSBML(sbml_file, '/model')
IOError: could not load model
```~~

Since this file is created using `libsbml`, this should be flawless and should load into MOOSE.


Reported by: dilawar

Created by: subhacom

Attached an empty SBML file. Adding an non-empty sbml file. There seems to be some problem with level 3 defaults values.

Original comment by: dilawar

Created by: subhacom

Attached model passes the SBML schema for Level3 but still fails to load with MOOSE.

Invalid SBML: Either initialConcentration or initialAmount must be set or it should be found in assignmentRule but non happening for 
./run.sh: line 2:  6706 Segmentation fault      python ./smolen_baxter_bryne.py ./smolen_baxter_bryne.dot

Probably Level3 specifications are not implemented in MOOSE yet?

Original comment by: dilawar

Created by: subhacom

First provide a valid sbml model to test.

As per your own error msg itself. "Either initialConcentration or initialAmount must be set or it should be found in assignmentRule but non happening for"

For these species there is no 'conc' or 'amount' is set nor a way to compute the values??

Its not a valid model

harsha

Original comment by: *anonymous

Created by: subhacom

SBML Model itself is a invalid model

• status: open --> closed-invalid

Original comment by: hrani

Created by: subhacom

• status: closed --> closed-invalid

Original comment by: hrani