Set up new BioFSharp.Visualization project with SequenceLogo Plot

Author: kMutagene

.github/workflows/build-and-test.yml

@@ -27,7 +27,7 @@ jobs:
       uses: codecov/codecov-action@v5
       with:
         token: ${{ secrets.CODECOV_TOKEN }}
-        slug: BioFSharp/BioFSharp.XYZ
+        slug: BioFSharp/BioFSharp.Visualization
 
   build-and-test-windows:
 

BioFSharp.XYZ.sln renamed to BioFSharp.Visualization.sln

@@ -5,12 +5,8 @@ VisualStudioVersion = 17.0.31903.59
 MinimumVisualStudioVersion = 10.0.40219.1
 Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "src", "src", "{7501C4DF-A844-40A0-8742-3343E48E55F1}"
 EndProject
-Project("{F2A71F9B-5D33-465A-A702-920D77279786}") = "BioFSharp.XYZ", "src\BioFSharp.XYZ\BioFSharp.XYZ.fsproj", "{BAC97B5C-B9A6-40D6-B533-0A07E12939ED}"
-EndProject
 Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "tests", "tests", "{D152DA0B-8F60-4611-B613-642379E2B17C}"
 EndProject
-Project("{F2A71F9B-5D33-465A-A702-920D77279786}") = "BioFSharp.XYZ.Tests", "tests\BioFSharp.XYZ.Tests\BioFSharp.XYZ.Tests.fsproj", "{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC}"
-EndProject
 Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "project", "project", "{77A50576-9359-44E5-B2F9-95318AB3DAEA}"
 	ProjectSection(SolutionItems) = preProject
 		.gitignore = .gitignore
@@ -39,31 +35,38 @@ Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = ".ci", ".ci", "{812698C9-F1C
 		.github\workflows\deploy-docs.yml = .github\workflows\deploy-docs.yml
 	EndProjectSection
 EndProject
+Project("{F2A71F9B-5D33-465A-A702-920D77279786}") = "BioFSharp.Visualization", "src\BioFSharp.Visualization\BioFSharp.Visualization.fsproj", "{5206207C-4C0E-B0AF-1AF5-9E150F257530}"
+EndProject
+Project("{F2A71F9B-5D33-465A-A702-920D77279786}") = "BioFSharp.Visualization.Tests", "tests\BioFSharp.Visualization.Tests\BioFSharp.Visualization.Tests.fsproj", "{CEE58A95-C0FA-D276-5B4F-30025F4B96C9}"
+EndProject
 Global
 	GlobalSection(SolutionConfigurationPlatforms) = preSolution
 		Debug|Any CPU = Debug|Any CPU
 		Release|Any CPU = Release|Any CPU
 	EndGlobalSection
 	GlobalSection(ProjectConfigurationPlatforms) = postSolution
-		{BAC97B5C-B9A6-40D6-B533-0A07E12939ED}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
-		{BAC97B5C-B9A6-40D6-B533-0A07E12939ED}.Debug|Any CPU.Build.0 = Debug|Any CPU
-		{BAC97B5C-B9A6-40D6-B533-0A07E12939ED}.Release|Any CPU.ActiveCfg = Release|Any CPU
-		{BAC97B5C-B9A6-40D6-B533-0A07E12939ED}.Release|Any CPU.Build.0 = Release|Any CPU
-		{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
-		{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC}.Debug|Any CPU.Build.0 = Debug|Any CPU
-		{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC}.Release|Any CPU.ActiveCfg = Release|Any CPU
-		{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC}.Release|Any CPU.Build.0 = Release|Any CPU
 		{8DCCA688-871C-49DD-BC06-4877F714497C}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
 		{8DCCA688-871C-49DD-BC06-4877F714497C}.Debug|Any CPU.Build.0 = Debug|Any CPU
 		{8DCCA688-871C-49DD-BC06-4877F714497C}.Release|Any CPU.ActiveCfg = Release|Any CPU
 		{8DCCA688-871C-49DD-BC06-4877F714497C}.Release|Any CPU.Build.0 = Release|Any CPU
+		{5206207C-4C0E-B0AF-1AF5-9E150F257530}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{5206207C-4C0E-B0AF-1AF5-9E150F257530}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{5206207C-4C0E-B0AF-1AF5-9E150F257530}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{5206207C-4C0E-B0AF-1AF5-9E150F257530}.Release|Any CPU.Build.0 = Release|Any CPU
+		{CEE58A95-C0FA-D276-5B4F-30025F4B96C9}.Debug|Any CPU.ActiveCfg = Debug|Any CPU
+		{CEE58A95-C0FA-D276-5B4F-30025F4B96C9}.Debug|Any CPU.Build.0 = Debug|Any CPU
+		{CEE58A95-C0FA-D276-5B4F-30025F4B96C9}.Release|Any CPU.ActiveCfg = Release|Any CPU
+		{CEE58A95-C0FA-D276-5B4F-30025F4B96C9}.Release|Any CPU.Build.0 = Release|Any CPU
 	EndGlobalSection
 	GlobalSection(SolutionProperties) = preSolution
 		HideSolutionNode = FALSE
 	EndGlobalSection
 	GlobalSection(NestedProjects) = preSolution
-		{BAC97B5C-B9A6-40D6-B533-0A07E12939ED} = {7501C4DF-A844-40A0-8742-3343E48E55F1}
-		{CB9E38BC-EE86-44EB-AFF5-91D1AF713ADC} = {D152DA0B-8F60-4611-B613-642379E2B17C}
 		{8DCCA688-871C-49DD-BC06-4877F714497C} = {78399A41-F06A-4B35-AA24-E2E20209D8DE}
+		{5206207C-4C0E-B0AF-1AF5-9E150F257530} = {7501C4DF-A844-40A0-8742-3343E48E55F1}
+		{CEE58A95-C0FA-D276-5B4F-30025F4B96C9} = {D152DA0B-8F60-4611-B613-642379E2B17C}
+	EndGlobalSection
+	GlobalSection(ExtensibilityGlobals) = postSolution
+		SolutionGuid = {E7E21A6C-2D45-4429-9F90-1A20E30D18ED}
 	EndGlobalSection
 EndGlobal

README.md

@@ -1,13 +1,13 @@
-# BioFSharp.XYZ
+# BioFSharp.Visualization
 
 ![Logo](docs/img/Logo_large.png)
 
 A template repository for creating an extension package for BioFSharp.
 
 ## Content
 
-- `src/BioFSharp.XYZ`: The main project folder. Contains a library with BioFSharp core dependency.
-- `tests/BioFSharp.XYZ.Tests`: The test project folder. Contains a XUnit test project
+- `src/BioFSharp.Visualization`: The main project folder. Contains a library with BioFSharp core dependency.
+- `tests/BioFSharp.Visualization.Tests`: The test project folder. Contains a XUnit test project
 - `build/build.fsproj`: A FAKE build project that handles building, testing, packaging, publishing, etc.
 - `docs`: the docs folder contains an example index.fsx file with simple documentation boilerplate.
 
@@ -20,16 +20,16 @@ Here is a list of things you should/might want to do after setting up a repo wit
 
 - Rename some things: Replace `XYZ` with the name of your package
   - `PackageTemplate.sln`
-  - `src/BioFSharp.XYZ`
-  - `src/BioFSharp.XYZ/BioFSharp.XYZ.fsproj`
+  - `src/BioFSharp.Visualization`
+  - `src/BioFSharp.Visualization/BioFSharp.Visualization.fsproj`
     - Rename and add nuget package metadata
-  - `tests/BioFSharp.XYZ`
-  - `tests/BioFSharp.XYZ.Tests/BioFSharp.XYZ.Tests.fsproj`
-    - Also make sure to fix the project reference to BioFSharp.XYZ when renamed
+  - `tests/BioFSharp.Visualization`
+  - `tests/BioFSharp.Visualization.Tests/BioFSharp.Visualization.Tests.fsproj`
+    - Also make sure to fix the project reference to BioFSharp.Visualization when renamed
   - in `build/ProjectInfo.fs`:
     - Set project name: 
       ```fsharp
-      let project = "BioFSharp.XYZ" // replace with the name of your project
+      let project = "BioFSharp.Visualization" // replace with the name of your project
       ```
     - Set git owner:
       ```fsharp
@@ -39,7 +39,7 @@ Here is a list of things you should/might want to do after setting up a repo wit
       ```fsharp
       let testProjects = 
       [
-          "tests/BioFSharp.XYZ.Tests/BioFSharp.XYZ.Tests.fsproj" // replace with the name of your test project
+          "tests/BioFSharp.Visualization.Tests/BioFSharp.Visualization.Tests.fsproj" // replace with the name of your test project
       ]
       ```
   - in `.github/workflows/build-and-test.yml`: change codecov slug

build/ProjectInfo.fs

@@ -3,11 +3,11 @@
 open Fake.Core
 
 
-let project = "BioFSharp.XYZ"
+let project = "BioFSharp.Visualization"
 
 let testProjects = 
     [
-        "tests/BioFSharp.XYZ.Tests/BioFSharp.XYZ.Tests.fsproj"
+        "tests/BioFSharp.Visualization.Tests/BioFSharp.Visualization.Tests.fsproj"
     ]
 
 let solutionFile  = $"{project}.sln"

docs/index.fsx

@@ -1,5 +1,5 @@
 (**
-# BioFSharp.XYZ
+# BioFSharp.Visualization
 
 ![Logo](./img/Logo_large.png)
  
@@ -20,10 +20,10 @@ Include the compiled binaries of your project to use in the docs like this.
 Make sure to load any external references via nuget.
 *)
 #r "nuget: BioFSharp, 2.0.0-preview.3"
-#I @"..\src\BioFSharp.XYZ\bin\Release\netstandard2.0"
-#r "BioFSharp.XYZ.dll"
+#I @"..\src\BioFSharp.Visualization\bin\Release\netstandard2.0"
+#r "BioFSharp.Visualization.dll"
 
-open BioFSharp.XYZ
+open BioFSharp.Visualization
 
 let o = BioTalk.helloBio "Kev"
 

src/BioFSharp.XYZ/BioFSharp.XYZ.fsproj renamed to src/BioFSharp.Visualization/BioFSharp.Visualization.fsproj

@@ -8,8 +8,13 @@
   </PropertyGroup>
 
   <ItemGroup>
-    <Compile Include="Library.fs" />
-    <None Include="..\..\docs\img\icon.png" Pack="true" PackagePath=""/>
+    <Compile Include="SVG.fs" />
+    <Compile Include="Logo.fs" />
+    <None Include="..\..\docs\img\icon.png" Pack="true" PackagePath="" />
+    <Compile Include="PlotlyExtensions\StyleParam.fs" />
+    <Compile Include="PlotlyExtensions\Utils.fs" />
+    <Compile Include="PlotlyExtensions\ChartExtensions.fs" />
+    <None Include="playground.fsx" />
   </ItemGroup>
 
   <PropertyGroup>
@@ -19,18 +24,19 @@
 
     </Summary>
     <PackageLicenseExpression>MIT</PackageLicenseExpression>
-    <PackageProjectUrl>https://BioFSharp.github.io/BioFSharp.XYZ/</PackageProjectUrl>
+    <PackageProjectUrl>https://BioFSharp.github.io/BioFSharp.Visualization/</PackageProjectUrl>
     <PackageIcon>icon.png</PackageIcon>
     <PackageTags>bioinformatics F# fsharp statistic biostatistics datascience</PackageTags>
-    <RepositoryUrl>https://github.com/BioFSharp/BioFSharp.XYZ</RepositoryUrl>
+    <RepositoryUrl>https://github.com/BioFSharp/BioFSharp.Visualization</RepositoryUrl>
     <RepositoryType>git</RepositoryType>
-    <FsDocsLicenseLink>https://github.com/BioFSharp/BioFSharp.XYZ/blob/main/LICENSE</FsDocsLicenseLink>
-    <FsDocsReleaseNotesLink>https://github.com/BioFSharp/BioFSharp.XYZ/blob/main/RELEASE_NOTES.md</FsDocsReleaseNotesLink>
+    <FsDocsLicenseLink>https://github.com/BioFSharp/BioFSharp.Visualization/blob/main/LICENSE</FsDocsLicenseLink>
+    <FsDocsReleaseNotesLink>https://github.com/BioFSharp/BioFSharp.Visualization/blob/main/RELEASE_NOTES.md</FsDocsReleaseNotesLink>
   </PropertyGroup>
 
 
   <ItemGroup>
     <PackageReference Include="BioFSharp" Version="2.0.0-preview.3" />
+    <PackageReference Include="Plotly.NET" Version="6.0.0-preview.1" />
   </ItemGroup>
 
 </Project>