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Using json model format

Open AgustinPardo opened this issue 3 years ago • 1 comments

Hi,

Is possible to use a ".json" format model with memote?

I run:

memote report snapshot --filename "report.html"  iEK1011_m7H10_media.json

I get this:

critical: The model could not be loaded due to the following SBML errors.
error: Something went wrong reading the SBML model. Most likely the SBML model is not valid. Please check that your model is valid using the `cobra.io.sbml.validate_sbml_model` function or via the online validator at http://sbml.org/validator .
error: 	`(model, errors) = validate_sbml_model(filename)`
error: If the model is valid and cannot be read please open an issue at https://github.com/opencobra/cobrapy/issues .
error: Line 1, Column 0 - #1006: XML content is not well-formed.
error:  - Category: XML content, Severity: 2

AgustinPardo avatar Sep 22 '20 18:09 AgustinPardo

At the moment this is a feature of the web service only. You can achieve the same effect yourself by loading your model from JSON using cobrapy and then starting memote via the Python API.

Midnighter avatar Sep 22 '20 20:09 Midnighter