Added compat minimum version

Rename of package


Minor test fixes


Rename


Minor change to file header

.travis.yml

@@ -10,6 +10,6 @@ julia:
 notifications:
   email: false
 after_success:
-  - julia -e 'cd(Pkg.dir("BiologicalSymbols")); Pkg.add("Coverage"); using Coverage; Codecov.submit(Codecov.process_folder())'
+  - julia -e 'cd(Pkg.dir("BioSymbols")); Pkg.add("Coverage"); using Coverage; Codecov.submit(Codecov.process_folder())'
   - julia -e 'Pkg.add("Documenter")'
-  - julia -e 'cd(Pkg.dir("BiologicalSymbols")); include(joinpath("docs", "make.jl"))'
+  - julia -e 'cd(Pkg.dir("BioSymbols")); include(joinpath("docs", "make.jl"))'

README.md

@@ -1,9 +1,9 @@
-<p align="center"><img src="https://raw.githubusercontent.com/BioJulia/assets/master/branding/packages/BiologicalSymbols/BiologicalSymbols_Logo_600.png" width="70%" alt="BiologicalSymbols.jl" /></p>
+<p align="center"><img src="https://raw.githubusercontent.com/BioJulia/assets/master/branding/packages/BioSymbols/BioSymbols_Logo_600.png" width="70%" alt="BioSymbols.jl" /></p>
 
-[![Build Status](https://travis-ci.org/BioJulia/BiologicalSymbols.jl.svg?branch=master)](https://travis-ci.org/BioJulia/BiologicalSymbols.jl)
-[![Build status](https://ci.appveyor.com/api/projects/status/q9i9c79h0p33tiqp/branch/master?svg=true)](https://ci.appveyor.com/project/Ward9250/biologicalsymbols-jl/branch/master)
-[![](https://img.shields.io/badge/docs-stable-blue.svg)](https://biojulia.github.io/BiologicalSymbols.jl/stable)
-[![](https://img.shields.io/badge/docs-latest-blue.svg)](https://biojulia.github.io/BiologicalSymbols.jl/latest)
+[![Build Status](https://travis-ci.org/BioJulia/BioSymbols.jl.svg?branch=master)](https://travis-ci.org/BioJulia/BioSymbols.jl)
+[![Build status](https://ci.appveyor.com/api/projects/status/q9i9c79h0p33tiqp/branch/master?svg=true)](https://ci.appveyor.com/project/Ward9250/BioSymbols-jl/branch/master)
+[![](https://img.shields.io/badge/docs-stable-blue.svg)](https://biojulia.github.io/BioSymbols.jl/stable)
+[![](https://img.shields.io/badge/docs-latest-blue.svg)](https://biojulia.github.io/BioSymbols.jl/latest)
 
 ## Description
 
@@ -12,7 +12,7 @@ are used for many other packages in the BioJulia software ecosystem.
 
 ## Installation
 ```julia
-julia> Pkg.add("BiologicalSymbols")
+julia> Pkg.add("BioSymbols")
 ```
 
 If you are interested in the cutting edge of the development, please check out

REQUIRE

@@ -1,2 +1,2 @@
 julia 0.5
-Compat
+Compat 0.17.0

appveyor.yml

@@ -28,7 +28,7 @@ build_script:
 # Need to convert from shallow to complete for Pkg.clone to work
   - IF EXIST .git\shallow (git fetch --unshallow)
   - C:\projects\julia\bin\julia -e "versioninfo();
-      Pkg.clone(pwd(), \"BiologicalSymbols\"); Pkg.build(\"BiologicalSymbols\")"
+      Pkg.clone(pwd(), \"BioSymbols\"); Pkg.build(\"BioSymbols\")"
 
 test_script:
-  - C:\projects\julia\bin\julia -e "Pkg.test(\"BiologicalSymbols\")"
+  - C:\projects\julia\bin\julia -e "Pkg.test(\"BioSymbols\")"

docs/mkdocs.yml

@@ -1,11 +1,11 @@
 # Project information
-site_name:   BiologicalSymbols.jl
+site_name:   BioSymbols.jl
 site_description: Bioloigcal symbol types for Julia
 site_author: The BioJulia Organisation
-site_url: https://biojulia.github.io/BiologicalSymbols.jl/
+site_url: https://biojulia.github.io/BioSymbols.jl/
 
 # Repository
-repo_url:  https://github.com/BioJulia/BiologicalSymbols.jl
+repo_url:  https://github.com/BioJulia/BioSymbols.jl
 
 # Copyright
 copyright: Copyright (c) 2017 The BioJulia Organisation

docs/src/index.md

@@ -1,6 +1,6 @@
-# BiologicalSymbols.jl Documentation
+# BioSymbols.jl Documentation
 
-BiologicalSymbols.jl provides an abstract type and two concrete primitive types
+BioSymbols.jl provides an abstract type and two concrete primitive types
 for julia which act as values representing nucleic acids and amino acids for
 bioinformatics and computational biology scripts and packages.
 

docs/src/types.md

@@ -1,22 +1,22 @@
 ```@meta
-CurrentModule = BiologicalSymbols
+CurrentModule = BioSymbols
 DocTestSetup = quote
-    using BiologicalSymbols
+    using BioSymbols
 end
 ```
 
 # NucleicAcids
 
 ## Type definitions
 
-BiologicalSymbols provides two types of NucleicAcid:
+BioSymbols provides two types of NucleicAcid:
 
 | Type            | Meaning        |
 | :-------------- | :------------- |
 | `DNA`           | DNA nucleotide |
 | `RNA`           | RNA nucleotide |
 
-The set of nucleotide symbols in BiologicalSymbols.jl covers the IUPAC nucleotides
+The set of nucleotide symbols in BioSymbols.jl covers the IUPAC nucleotides
 as well as a GAP (-) symbol.
 
 | Symbol | Constant              | Meaning                    |
@@ -56,10 +56,10 @@ julia> DNA_Gap
 DNA_Gap
 
 julia> typeof(DNA_A)
-BiologicalSymbols.DNA
+BioSymbols.DNA
 
 julia> typeof(RNA_A)
-BiologicalSymbols.RNA
+BioSymbols.RNA
 
 ```
 
@@ -133,7 +133,7 @@ julia> AA_Term
 AA_Term
 
 julia> typeof(AA_A)
-BiologicalSymbols.AminoAcid
+BioSymbols.AminoAcid
 
 ```
 

src/BiologicalSymbols.jl → src/BioSymbols.jl

@@ -1,14 +1,14 @@
-# NucleicAcids
-# ============
+# BioSymbols.jl
+# =============
 #
-# DNA and RNA nucleotide types.
+# Types representing Biological Symbols.
 #
 # This file is a part of the BioJulia ecosystem.
 # License is MIT: https://github.com/BioJulia/NucleicAcids.jl/blob/master/LICENSE.md
 
 __precompile__()
 
-module BiologicalSymbols
+module BioSymbols
 
 using Compat
 

test/runtests.jl

@@ -1,6 +1,6 @@
 using Base.Test
 
-using BiologicalSymbols
+using BioSymbols
 
 @testset "NucleicAcids" begin
     @testset "Conversions" begin