From be731665bc8112bd932d8dffe1bb1b7b59ba7498 Mon Sep 17 00:00:00 2001
From: "Thomas A. Christensen II" <25492070+MillironX@users.noreply.github.com>
Date: Tue, 1 Oct 2024 11:01:43 -0500
Subject: [PATCH] refactor: Replace BioGenerics functions for Edit with stubs

---
 src/Edit.jl | 20 +++++++-------------
 1 file changed, 7 insertions(+), 13 deletions(-)

diff --git a/src/Edit.jl b/src/Edit.jl
index a295621..df203f4 100644
--- a/src/Edit.jl
+++ b/src/Edit.jl
@@ -23,6 +23,13 @@ function Base.isless(x::Edit, y::Edit)
     return leftposition(x) < leftposition(y)
 end
 
+function BioGenerics.leftposition(e::Edit)
+    return error("leftposition not implemented for type $(typeof(e))")
+end
+function BioGenerics.rightposition(e::Edit)
+    return error("rightposition not implemented for type $(typeof(e))")
+end
+
 struct DeletionEdit{S<:BioSequence,T<:BioSymbol} <: Edit{S,T}
     position::UInt
     length::UInt
@@ -108,19 +115,6 @@ function Base.parse(::Type{<:Edit{Se,Sy}}, s::Union{String,SubString{String}}) w
     end
 end
 
-BioGenerics.leftposition(e::Edit) = e.pos
-function BioGenerics.rightposition(e::Edit)
-    if _mutation(e) isa Substitution
-        return leftposition(e)
-    elseif _mutation(e) isa Insertion
-        return leftposition(e) + 1
-    elseif _mutation(e) isa Deletion
-        return leftposition(e) + length(e) - 1
-    else
-        error("Unknown mutation type $(typeof(_mutation(e)))")
-    end
-end
-
 """
     _lendiff(edit::Edit)