Switch to 0.0.x (#26)

* Switch to 0.0.x

* Address JET errors

* Update pre-commit

* Pin JuliaFormatter workflow to v1

Author: ReubenJ

.github/workflows/Lint.yml

@@ -27,7 +27,7 @@ jobs:
             - name: Use Julia cache
               uses: julia-actions/cache@v2
             - name: Install JuliaFormatter.jl
-              run: julia -e 'using Pkg; pkg"add JuliaFormatter"'
+              run: julia -e 'using Pkg; pkg"add JuliaFormatter@1"'
             - name: Setup Python
               uses: actions/setup-python@v5
               with:

.pre-commit-config.yaml

@@ -8,7 +8,7 @@ repos:
             language: fail
             files: "\\.rej$"
     - repo: https://github.com/pre-commit/pre-commit-hooks
-      rev: v4.6.0
+      rev: v5.0.0
       hooks:
           - id: check-json
           - id: check-toml
@@ -26,7 +26,7 @@ repos:
           - id: check-merge-conflict
             args: [--assume-in-merge]
     - repo: https://github.com/igorshubovych/markdownlint-cli
-      rev: v0.41.0
+      rev: v0.45.0
       hooks:
           - id: markdownlint-fix
     - repo: https://github.com/citation-file-format/cffconvert
@@ -40,10 +40,10 @@ repos:
             types_or: [yaml, json]
             exclude: ".copier-answers.yml"
     - repo: https://github.com/adrienverge/yamllint
-      rev: v1.35.1
+      rev: v1.37.1
       hooks:
           - id: yamllint
     - repo: https://github.com/domluna/JuliaFormatter.jl
-      rev: v1.0.60
+      rev: v1.0.62
       hooks:
           - id: julia-formatter

Project.toml

@@ -1,7 +1,7 @@
 name = "GraphDynamicalSystems"
 uuid = "13529e2e-ed53-56b1-bd6f-420b01fca819"
 authors = ["Reuben Gardos Reid <[email protected]>"]
-version = "0.2.0"
+version = "0.0.2"
 
 [deps]
 AbstractTrees = "1520ce14-60c1-5f80-bbc7-55ef81b5835c"

src/boolean_networks.jl

@@ -6,7 +6,7 @@ module BooleanNetworks
 
 using DocStringExtensions
 using MetaGraphsNext: MetaGraph, add_edge!, SimpleDiGraph, nv, labels
-using DynamicalSystemsBase: ArbitrarySteppable, current_parameters
+using DynamicalSystemsBase: ArbitrarySteppable, current_parameters, initial_state
 using SoleLogics:
     Formula,
     Atom,

src/qualitative_networks.jl

@@ -241,10 +241,9 @@ end
 
 Interpret target functions from a [`QualitativeNetwork`](@ref).
 """
-function interpret(e::Union{Expr,Symbol,Int,Atom}, qn::QN)
+function interpret(e::Union{Expr,Symbol,Int}, qn::QN)
     @match e begin
         ::Symbol => get_state(qn, e)
-        ::Atom => get_state(qn, Symbol(value(e)))
         ::Int => e
         :($v1 + $v2) => interpret(v1, qn) + interpret(v2, qn)
         :($v1 - $v2) => interpret(v1, qn) - interpret(v2, qn)
@@ -257,6 +256,7 @@ function interpret(e::Union{Expr,Symbol,Int,Atom}, qn::QN)
         _ => error("Unhandled Expr in `interpret`: $e")
     end
 end
+interpret(e::Atom, qn::QN) = get_state(qn, Symbol(value(e)))
 
 """
     $(TYPEDSIGNATURES)