refactor: replace sir <- sir_impl alias with explicit wrapper

[Copilot]

Replace direct function aliasing with explicit wrapper in R/sir.R to make the interface more maintainable and consistent with the rest of the codebase.

Changes

• Replace sir <- sir_impl with explicit wrapper function
• Forward all arguments individually: graph, beta, gamma, no.sim

Before:

sir <- sir_impl

After:

sir <- function(graph, beta, gamma, no.sim = 100) {
  sir_impl(
    graph = graph,
    beta = beta,
    gamma = gamma,
    no.sim = no.sim
  )
}

This pattern matches other wrappers in the codebase (e.g., assortativity_nominal) and makes function signatures explicit in the source code.

Original prompt

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This section details on the original issue you should resolve

<issue_title>Replace _impl aliases in R/sir.R</issue_title>
<issue_description>Goal
Review the code in R/sir.R and replace all direct _impl function aliases with explicit wrapper functions.

Functions to update:

• sir <- sir_impl

Instructions

1. Review the code to understand the function signatures
2. Create explicit wrapper functions that forward to the _impl functions
3. Forward each argument individually and explicitly using arg = arg notation
4. Do not use ... unless the _impl function itself uses ...

Pattern
Replace direct aliasing like:

func_name <- func_name_impl

With an explicit wrapper:

func_name <- function(arg1, arg2, ...) {
  func_name_impl(
    arg1 = arg1,
    arg2 = arg2,
    ...
  )
}

File
R/sir.R</issue_description>

Comments on the Issue (you are @copilot in this section)

• Fixes Replace _impl aliases in R/sir.R #2358

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