Add Aqua tests

Project.toml

@@ -10,6 +10,7 @@ BioSequences = "7e6ae17a-c86d-528c-b3b9-7f778a29fe59"
 BioSymbols = "3c28c6f8-a34d-59c4-9654-267d177fcfa9"
 
 [compat]
+Aqua = "0.6.0"
 BioAlignments = "2,3"
 BioGenerics = "0.1"
 BioSequences = "2,3"
@@ -17,9 +18,10 @@ BioSymbols = "4,5"
 julia = "1.6"
 
 [extras]
+Aqua = "4c88cf16-eb10-579e-8560-4a9242c79595"
 BioAlignments = "00701ae9-d1dc-5365-b64a-a3a3ebf5695e"
 BioSequences = "7e6ae17a-c86d-528c-b3b9-7f778a29fe59"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 
 [targets]
-test = ["Test", "BioSequences", "BioAlignments"]
+test = ["Aqua", "Test", "BioSequences", "BioAlignments"]

README.md

@@ -30,6 +30,7 @@ SequenceVariation is tested against Julia `1.X` on Linux, OS X, and Windows.
 [![Unit Tests](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml)
 [![Documentation](https://github.com/BioJulia/SequenceVariation.jl/workflows/Documentation/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions?query=workflow%3ADocumentation+branch%3Amaster)
 [![codecov](https://codecov.io/gh/BioJulia/SequenceVariation.jl/branch/master/graph/badge.svg)](https://codecov.io/gh/BioJulia/SequenceVariation.jl)
+[![Aqua QA](https://raw.githubusercontent.com/JuliaTesting/Aqua.jl/master/badge.svg)](https://github.com/JuliaTesting/Aqua.jl)
 
 ## Contributing
 

docs/src/index.md

@@ -30,6 +30,7 @@ SequenceVariation is tested against Julia `1.X` on Linux, OS X, and Windows.
 [![Unit Tests](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions/workflows/UnitTests.yml)
 [![Documentation](https://github.com/BioJulia/SequenceVariation.jl/workflows/Documentation/badge.svg?branch=master)](https://github.com/BioJulia/SequenceVariation.jl/actions?query=workflow%3ADocumentation+branch%3Amaster)
 [![codecov](https://codecov.io/gh/BioJulia/SequenceVariation.jl/branch/master/graph/badge.svg)](https://codecov.io/gh/BioJulia/SequenceVariation.jl)
+[![Aqua QA](https://raw.githubusercontent.com/JuliaTesting/Aqua.jl/master/badge.svg)](https://github.com/JuliaTesting/Aqua.jl)
 
 ## Contributing
 

test/runtests.jl

@@ -23,6 +23,7 @@ TODO now:
 * Add tests
 """
 
+using Aqua
 using BioAlignments
 using BioSequences
 using SequenceVariation
@@ -125,3 +126,16 @@ end
     # Test that out-of-bounds bases are still caught
     @test_throws BoundsError Variant(PairwiseAlignment(AlignedSequence(mutseq, Alignment("7=3X", 1, 1)), refseq))
 end
+
+@testset "Aqua" begin
+    Aqua.test_ambiguities(SequenceVariation;recursive=false)
+    # TODO: Refactor `Edit` so that this test doesn't fail
+    # TODO: This test _should_ be set to @test_fails, but Aqua's syntax doesn't allow that
+    # Aqua.test_unbound_args(SequenceVariation)
+    Aqua.test_undefined_exports(SequenceVariation)
+    Aqua.test_piracy(SequenceVariation)
+    Aqua.test_project_extras(SequenceVariation)
+    Aqua.test_stale_deps(SequenceVariation)
+    Aqua.test_deps_compat(SequenceVariation)
+    Aqua.test_project_toml_formatting(SequenceVariation)
+end