Bump version to 0.0.15

CSBiology · Mar 7, 2019 · ba5997a · ba5997a
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commit ba5997a
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diff --git a/RELEASE_NOTES.md b/RELEASE_NOTES.md
@@ -1,3 +1,29 @@
+#### 0.0.15 - Thursday, March 7, 2019
+ * BioFSharp.ML - project introduction:
+   * Usage of Microsoft's CNTK library with a biological focus:
+   * This project comes with working CNTK integration:
+      * necessary dependencies to use CNTK and its unmanaged libraries
+      * CNTK loadscript: an easy way to load all dependencies of CNTK. load the script and use the resolveCNTKDependencies() function.
+   * Built-in deep neural network 'd::ppop' ([publication](https://www.frontiersin.org/articles/10.3389/fpls.2018.01559/full))
+     * predict peptide observability in mass spectrometry
+     * Classification: functions to determine peptide feature vectors as input for dppop
+     * Prediction: functions to predict peptide observability using the feature vectors prepared in Classification.
+     * NonPlant and Plant models as embedded resources: the two models used in the original Web API. Additionally load custom models.
+ * Othert additions:
+   * BioFSharp.BioTools:
+     * Integration of new tools as biocontainer APIs:
+       * Hera
+       * FastP
+       * ClustalO
+       * HMMER (experimental):
+         * hmmbuild
+         * hmmalign
+         * hmmsearch
+         * hmmscan
+         * hmmemit
+         * hmmpress
+         * hmmconvert
+
 #### 0.0.14 - Tuesday, February 12, 2019
  * Addition of blast biocontainer support for makeblastdb, blastp, blastn with full parameter wrapping
  * Extension of BioContainer functionality:

diff --git a/docsrc/content/release-notes.md b/docsrc/content/release-notes.md
@@ -1,3 +1,29 @@
+#### 0.0.15 - Thursday, March 7, 2019
+ * BioFSharp.ML - project introduction:
+   * Usage of Microsoft's CNTK library with a biological focus:
+   * This project comes with working CNTK integration:
+      * necessary dependencies to use CNTK and its unmanaged libraries
+      * CNTK loadscript: an easy way to load all dependencies of CNTK. load the script and use the resolveCNTKDependencies() function.
+   * Built-in deep neural network 'd::ppop' ([publication](https://www.frontiersin.org/articles/10.3389/fpls.2018.01559/full))
+     * predict peptide observability in mass spectrometry
+     * Classification: functions to determine peptide feature vectors as input for dppop
+     * Prediction: functions to predict peptide observability using the feature vectors prepared in Classification.
+     * NonPlant and Plant models as embedded resources: the two models used in the original Web API. Additionally load custom models.
+ * Othert additions:
+   * BioFSharp.BioTools:
+     * Integration of new tools as biocontainer APIs:
+       * Hera
+       * FastP
+       * ClustalO
+       * HMMER (experimental):
+         * hmmbuild
+         * hmmalign
+         * hmmsearch
+         * hmmscan
+         * hmmemit
+         * hmmpress
+         * hmmconvert
+
 #### 0.0.14 - Tuesday, February 12, 2019
  * Addition of blast biocontainer support for makeblastdb, blastp, blastn with full parameter wrapping
  * Extension of BioContainer functionality:

diff --git a/src/BioFSharp.BioDB/AssemblyInfo.fs b/src/BioFSharp.BioDB/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.BioDB")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.BioDB"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.BioTools/AssemblyInfo.fs b/src/BioFSharp.BioTools/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.BioTools")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.BioTools"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.IO/AssemblyInfo.fs b/src/BioFSharp.IO/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.IO")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.IO"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.ImgP/AssemblyInfo.fs b/src/BioFSharp.ImgP/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.ImgP")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.ImgP"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.ML/AssemblyInfo.fs b/src/BioFSharp.ML/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.ML")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.ML"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.ML/BioFSharp.ML.fsproj b/src/BioFSharp.ML/BioFSharp.ML.fsproj
@@ -18,7 +18,9 @@
   <ItemGroup>
     <None Include="BioFSharp.ML.fsx" />
     <Compile Include="AssemblyInfo.fs" />
-    <None Include="CNTKLoadScript.fsx" />
+    <None Include="CNTKLoadScript.fsx">
+      <CopyToOutputDirectory>PreserveNewest</CopyToOutputDirectory>
+    </None>
     <Compile Include="CNTK.fs" />
     <Compile Include="DPPOP.fs" />
     <!-- Resources -->

diff --git a/src/BioFSharp.Parallel/AssemblyInfo.fs b/src/BioFSharp.Parallel/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.Parallel")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.Parallel"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.Stats/AssemblyInfo.fs b/src/BioFSharp.Stats/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.Stats")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.Stats"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp.Vis/AssemblyInfo.fs b/src/BioFSharp.Vis/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp.Vis")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp.Vis"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"
diff --git a/src/BioFSharp/AssemblyInfo.fs b/src/BioFSharp/AssemblyInfo.fs
@@ -5,15 +5,15 @@ open System.Reflection
 [<assembly: AssemblyTitleAttribute("BioFSharp")>]
 [<assembly: AssemblyProductAttribute("BioFSharp")>]
 [<assembly: AssemblyDescriptionAttribute("An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>")>]
-[<assembly: AssemblyVersionAttribute("0.0.14")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.14")>]
+[<assembly: AssemblyVersionAttribute("0.0.15")>]
+[<assembly: AssemblyFileVersionAttribute("0.0.15")>]
 [<assembly: AssemblyConfigurationAttribute("Release")>]
 do ()
 
 module internal AssemblyVersionInformation =
     let [<Literal>] AssemblyTitle = "BioFSharp"
     let [<Literal>] AssemblyProduct = "BioFSharp"
     let [<Literal>] AssemblyDescription = "An open source bioinformatics toolbox written in F#. <https://csbiology.github.io/BioFSharp/>"
-    let [<Literal>] AssemblyVersion = "0.0.14"
-    let [<Literal>] AssemblyFileVersion = "0.0.14"
+    let [<Literal>] AssemblyVersion = "0.0.15"
+    let [<Literal>] AssemblyFileVersion = "0.0.15"
     let [<Literal>] AssemblyConfiguration = "Release"