lambda parameter in SIDARTHE causing problems again

[djinnome]

Hi folks,

When I tried to create an ASKEM Model Representation from the SIDARTHE_mira template model, I ran into the following issue:

import requests
import mira
from mira.modeling.askenet.petrinet import AskeNetPetriNetModel
url = 'https://raw.githubusercontent.com/indralab/mira/main/notebooks/evaluation_2023.01/scenario2_sidarthe_mira.json'
res = requests.get(url)
model_json = res.json()
mira_template_model = mira.metamodel.TemplateModel.from_json(model_json)
mira_model = mira.modeling.Model(mira_template_model)
askenet_model = AskeNetPetriNetModel(mira_model)
askenet_mira_template_model = mira.sources.askenet.petrinet.template_model_from_askenet_json(askenet_model.to_json())

ValueError: Error from parse_expr with transformed code: 'Infected *lambda '


The above exception was the direct cause of the following exception:

Traceback (most recent call last):

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/IPython/core/interactiveshell.py:3505 in run_code
    exec(code_obj, self.user_global_ns, self.user_ns)

  Cell In[28], line 10
    askenet_mira_template_model = mira.sources.askenet.petrinet.template_model_from_askenet_json(askenet_model.to_json())

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/mira/sources/askenet/petrinet.py:187 in template_model_from_askenet_json
    templates.extend(transition_to_templates(rate_obj,

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/mira/sources/askenet/petrinet.py:243 in transition_to_templates
    rate_law = sympy.parse_expr(rate_law_expression, local_dict=symbols) \

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/sympy/parsing/sympy_parser.py:1101 in parse_expr
    raise e from ValueError(f"Error from parse_expr with transformed code: {code!r}")

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/sympy/parsing/sympy_parser.py:1092 in parse_expr
    rv = eval_expr(code, local_dict, global_dict)

  File ~/.pyenv/versions/jz-sviivr/lib/python3.10/site-packages/sympy/parsing/sympy_parser.py:907 in eval_expr
    expr = eval(

  File <string>:1
    Infected *lambda
              ^
SyntaxError: invalid syntax

[bgyori]

Hi @djinnome, the issue is that this isn't the right function to call when deserializing a MIRA TemplateModel from JSON. The function mira.sources.askenet.petrinet.template_model_from_askenet_json should be used on AskeNet/AMR JSON input, whereas https://raw.githubusercontent.com/indralab/mira/main/notebooks/evaluation_2023.01/scenario2_sidarthe_mira.json is a JSON dump of a MIRA TemplateModel object. For the latter, the from mira.metamodel import model_from_json_file function could be used.