differenciate infectious and infected in arguments `infect_period` and `prob_infect`

[avallecam]

in sim_linelist() we use infect_period for the infectious period and prob_infect for the probability of infection on contact. The "infect" word seems to refer to the same word.

In tutorials, we have a callout box as a reminder of their difference (link to callout box).

To emphasize this difference, Would it be feasible to make these arguments explicit?

• from infect_period to infectious_period
• from prob_infect to prob_infection

This would look like this:

sim_linelist(
  contact_distribution = contact_distribution,
  infectious_period = infectious_period, # suggestion
  prob_infection = 0.5, # suggestion
  onset_to_hosp = onset_to_hosp,
  onset_to_death = onset_to_death,
  hosp_risk = 0.01,
  outbreak_start_date = as.Date("2019-12-01")
)

[joshwlambert]

Thanks for raising @avallecam! I was aware of the slight ambiguity in argument names, but felt it was still relatively clear to users. I don't have a preference on the names, as you think it is important to differentiate the two and given this is an easy change to make I will make a PR with the proposed name changes.