Inability to save output

[kwootton]

Expected behavior

I have run the simulations and now want to save the output - ideally in a form where I can read it into R.

Actual behavior

If I run BioEnergeticFoodWebs.save(filename, as = json) I don't get any error, but I also don't get any output.

If I try JSON.print(f,sim) I get the error:
ERROR: Cannot serialize type getfield(BioEnergeticFoodWebs, Symbol("##10#14"))

JSON.print used to work for me fine a year or two ago so I guess there's some issue with an update somewhere along the line?

Steps to reproduce

1.using BioEnergeticFoodWebs, JSON
2.foodweb = nichemodel(10,0.3);
3.bm = rand(size(foodweb,1));
4. params = model_parameters(foodweb)
5. sim = simulate(params, bm, start = 0, stop = 1000);
6.f=open("trial.json","w")
7.JSON.print(f,sim)

System information

• julia --version
  julia version 1.1.0 (but I have the same problem with 1.0.5)

• Pkg.status("BioEnergeticFoodWebs")
  BioEnergeticFoodWebs v1.1.2

• OS and version
  Ubuntu 18.04.4 LTS (Bionic Beaver)

[tpoisot]

@evadelmas any idea what this is?

@kwootton the line to save in JSON should have as = :json , the : is very important here, can you check it was included?

[evadelmas]

Sorry for the delay. It's fixed now and should be released in the next few days.

This was caused by JSON not being able to convert some parameters to strings (i.e. density dependent mortality for consumers and resources - dp and dc - because they are functions). They will now be saved as string(@code_lowered ...)

[kwootton]

Great, thank you!

[evadelmas]

Closed by #98