files generated by ion

.github/dependabot.yml

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+version: 2
+updates:
+  # Maintain dependencies for GitHub Actions
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"

.github/workflows/CI.yml

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+name: CI
+on:
+  push:
+    branches:
+      - main
+    tags: ['*']
+  pull_request:
+concurrency:
+  # Skip intermediate builds: always.
+  # Cancel intermediate builds: only if it is a pull request build.
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }}
+jobs:
+  test:
+    name: Julia ${{ matrix.version }} - ${{ matrix.os }} - ${{ matrix.arch }} - ${{ github.event_name }}
+    runs-on: ${{ matrix.os }}
+    strategy:
+      fail-fast: false
+      matrix:
+        version:
+          - "1"
+          - "1.9"
+          - "nightly"
+        os:
+          - ubuntu-latest
+          - macos-latest
+          - windows-latest
+        arch:
+          - x86
+          - x86_64
+    steps:
+      - uses: actions/checkout@v2
+      - uses: julia-actions/setup-julia@v1
+        with:
+          version: ${{ matrix.version }}
+          arch: ${{ matrix.arch }}
+      - uses: julia-actions/cache@v1
+      - uses: julia-actions/julia-buildpkg@v1
+      - uses: julia-actions/julia-runtest@v1
+      - uses: julia-actions/julia-processcoverage@v1
+      - uses: codecov/codecov-action@v2
+        with:
+          files: lcov.info
+  docs:
+    name: Documentation
+    runs-on: ubuntu-latest
+    permissions:
+      contents: write
+      statuses: write
+    steps:
+      - uses: actions/checkout@v2
+      - uses: julia-actions/setup-julia@v1
+        with:
+          version: '1'
+      - uses: julia-actions/julia-buildpkg@v1
+      - uses: julia-actions/julia-docdeploy@v1
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+      - run: |
+          julia --project=docs -e '
+            using Documenter: DocMeta, doctest
+            using BioMarkovChains
+            DocMeta.setdocmeta!(BioMarkovChains, :DocTestSetup, :(using BioMarkovChains); recursive=true)
+            doctest(BioMarkovChains)'

.github/workflows/CompatHelper.yml

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+name: CompatHelper
+on:
+  schedule:
+    - cron: 0 0 * * *
+  workflow_dispatch:
+jobs:
+  CompatHelper:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Pkg.add("CompatHelper")
+        run: julia -e 'using Pkg; Pkg.add("CompatHelper")'
+      - name: CompatHelper.main()
+        env:
+          GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+          COMPATHELPER_PRIV: ${{ secrets.DOCUMENTER_KEY }}
+        run: julia -e 'using CompatHelper; CompatHelper.main()'

.github/workflows/TagBot.yml

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+name: TagBot
+on:
+  issue_comment:
+    types:
+      - created
+  workflow_dispatch:
+jobs:
+  TagBot:
+    if: github.event_name == 'workflow_dispatch' || github.actor == '{{{TRIGGER}}}'
+    runs-on: ubuntu-latest
+    steps:
+      - uses: JuliaRegistries/TagBot@v1
+        with:
+          token: {{{TOKEN}}}
+          {{#SSH}}
+          ssh: {{{SSH}}}
+          {{/SSH}}
+          {{#SSH_PASSWORD}}
+          ssh_password: {{{SSH_PASSWORD}}}
+          {{/SSH_PASSWORD}}
+          {{#CHANGELOG}}
+          changelog: {{{CHANGELOG}}}
+          {{/CHANGELOG}}
+          {{#CHANGELOG_IGNORE}}
+          changelog_ignore: {{{CHANGELOG_IGNORE}}}
+          {{/CHANGELOG_IGNORE}}
+          {{#GPG}}
+          gpg: {{{GPG}}}
+          {{/GPG}}
+          {{#GPG_PASSWORD}}
+          gpg_password: {{{GPG_PASSWORD}}}
+          {{/GPG_PASSWORD}}
+          {{#REGISTRY}}
+          registry: {{{REGISTRY}}}
+          {{/REGISTRY}}
+          {{#BRANCHES}}
+          branches: {{{BRANCHES}}}
+          {{/BRANCHES}}
+          {{#DISPATCH}}
+          dispatch: {{{DISPATCH}}}
+          {{/DISPATCH}}
+          {{#DISPATCH_DELAY}}
+          dispatch_delay: {{{DISPATCH_DELAY}}}
+          {{/DISPATCH_DELAY}}

.gitignore

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+/.vscode
+**/**/**.cov
+
+/Manifest.toml
+/docs/build/
+/docs/Manifest.toml
+/docs/src/assets/main.css
+/docs/src/assets/indigo.css

LICENSE

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+MIT License
+
+Copyright (c) 2023 Camilo García<[email protected]>,
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

Project.toml

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+name = "BioMarkovChains"
+uuid = "f861b655-cb5f-42ce-b66a-341b542d4f2c"
+authors = ["Camilo García<[email protected]>",]
+version = "0.1.0"
+
+[deps]
+
+[compat]
+julia = "1.9"

README.md

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+# BioMarkovChains
+
+A Julia package to represent DNA as Markov chains
+
+## Installation
+
+<p>
+BioMarkovChains is a &nbsp;
+    <a href="https://julialang.org">
+        <img src="https://raw.githubusercontent.com/JuliaLang/julia-logo-graphics/master/images/julia.ico" width="16em">
+        Julia Language
+    </a>
+    &nbsp; package. To install BioMarkovChains,
+    please <a href="https://docs.julialang.org/en/v1/manual/getting-started/">open
+    Julia's interactive session (known as REPL)</a> and press <kbd>]</kbd>
+    key in the REPL to use the package mode, then type the following command
+</p>
+
+```julia
+pkg> add BioMarkovChains
+```
+
+## License
+
+MIT License

docs/Project.toml

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+[deps]
+BioMarkovChains = "f861b655-cb5f-42ce-b66a-341b542d4f2c"
+DocThemeIndigo = "8bac0ac5-51bf-41f9-885e-2bf1ac2bec5f"
+Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
+
+[compat]
+DocThemeIndigo = "0.1.1"

docs/make.jl

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+using Documenter
+using BioMarkovChains
+using DocThemeIndigo
+
+indigo = DocThemeIndigo.install(Configurations)
+
+makedocs(;
+    modules = [BioMarkovChains],
+    format = Documenter.HTML(
+        prettyurls = !("local" in ARGS),
+        canonical="https://Camilo García.github.io/BioMarkovChains.jl",
+        assets=String[indigo],
+    ),
+    pages = [
+        "Home" => "index.md",
+    ],
+    repo = "https://github.com/Camilo García/BioMarkovChains.jl",
+    sitename = "BioMarkovChains.jl",
+)
+
+deploydocs(; repo = "https://github.com/Camilo García/BioMarkovChains.jl")

docs/src/index.md

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+```@meta
+CurrentModule = BioMarkovChains
+```
+
+# BioMarkovChains
+
+Documentation for [BioMarkovChains](https://github.com/Camilo García/BioMarkovChains.jl).
+
+```@index
+```
+
+```@autodocs
+Modules = [BioMarkovChains]
+```

src/BioMarkovChains.jl

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+module BioMarkovChains
+
+# write your code here
+
+end # BioMarkovChains

test/Project.toml

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+[deps]
+Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"

test/runtests.jl

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+using Test
+using BioMarkovChains
+
+@testset "BioMarkovChains.jl" begin
+    @test 1 == 1
+end # BioMarkovChains.jl tests