Add Release notes for version 0.1.0

CSBiology · May 30, 2019 · 11e22ad · 11e22ad
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diff --git a/RELEASE_NOTES.md b/RELEASE_NOTES.md
@@ -1,3 +1,38 @@
+#### 0.1.0 - Thursday, May 30, 2019
+Several bugfixes and additions to multiple sub projects:
+
+* **BioFSharp** (core):
+    * Additional functionality:
+      * [GravyScore](https://github.com/CSBiology/BioFSharp/commit/209c3497e3cdb1db56a0675e0f2a76634a6dbe7a) (Grand Average of Hydropathy) as additional amino acid property
+
+* **BioFSharp.IO**:
+    * Additional functionality:
+      * [GAF Parser](https://github.com/CSBiology/BioFSharp/commit/cbba6a41a9b239e26467f32048aaec3335373faf) for GO Annotation file format: [Gene Association File](http://geneontology.org/docs/go-annotation-file-gaf-format-2.0/)
+      * [Uniprot style Fasta header parser](https://github.com/CSBiology/BioFSharp/commit/f2a16aaa2456b0c431f6d50d0f78a12834671e97)
+      * [FastA to GFF3 converter functions](https://github.com/CSBiology/BioFSharp/commit/2cdd3537398040e1508736bd734b22a67a7c46e7)
+      * [GFF3 Pretty Printer](https://github.com/CSBiology/BioFSharp/commit/eaaa59fbd382721e75fbb9c6558b0ba2ff6afb00) 
+
+    * BugFixes:
+      * [Fix OboParser](https://github.com/CSBiology/BioFSharp/commit/0354c9c13e7a4692f2ab61b80ef86ac8f5bd83c3) just taking the last occurence of the alt_id keyword and discards previous ones.
+      * Fix [Fasta](https://github.com/CSBiology/BioFSharp/commit/aff8eff849deb1cca411faf3c640d53f6e410497) and [GFF3](https://github.com/CSBiology/BioFSharp/commit/d0f059ab899c715a37b7f50318292c8a81f18dd9) writers appending to files instead of recreating
+
+* **BioFSharp.BioTools**:
+    * Additional functionality:
+      * [TMHMM biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/f11cb122df29ccaa0809d3c3c951294a1b645e0f) ([TMHMM](http://www.cbs.dtu.dk/services/TMHMM/) 2.0c predicts transmembrane helices in proteins)
+      * [FastP and Hera biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/28b7654d57824bcdfdb8bae16af2f0f706ed60ad)
+      * [IntaRNA biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/a659496179cd754fbea2fe9ef4030544a35eb68b) ([IntaRNA](https://github.com/BackofenLab/IntaRNA) is a tool for prediction of various nucleotide interactions)
+
+    * BugFixes:
+      * Fix Stream entry closed error in [BioContainer.tarOfStream()](https://github.com/CSBiology/BioFSharp/commit/20f8973ea717208627ef5a7ea0b72cbaecb4103c)
+
+* **BioFSharp.ImgP**:
+    * Additional functionality:
+      * [update 3DCWT correlation calculation to loop](https://github.com/CSBiology/BioFSharp/commit/0b4ffe93755d915da64f4231199b0ec54d4d6c4d)
+
+    * Bugfixes:
+      * [fix height adjustment in ricker](https://github.com/CSBiology/BioFSharp/commit/abab82be1ac9fa0c540acfb5f3ccc6bd5143df1f)
+      * [fix Ricker values for discrete time points](https://github.com/CSBiology/BioFSharp/commit/2bb6bb2b67ea43df2d9fe970bd1445e568df53d4)
+
 #### 0.0.16 - Thursday, March 7, 2019
  * Fix template files for all nuget packages: 
    * use correct paths for binaries

diff --git a/docsrc/content/release-notes.md b/docsrc/content/release-notes.md
@@ -1,3 +1,38 @@
+#### 0.1.0 - Thursday, May 30, 2019
+Several bugfixes and additions to multiple sub projects:
+
+* **BioFSharp** (core):
+    * Additional functionality:
+      * [GravyScore](https://github.com/CSBiology/BioFSharp/commit/209c3497e3cdb1db56a0675e0f2a76634a6dbe7a) (Grand Average of Hydropathy) as additional amino acid property
+
+* **BioFSharp.IO**:
+    * Additional functionality:
+      * [GAF Parser](https://github.com/CSBiology/BioFSharp/commit/cbba6a41a9b239e26467f32048aaec3335373faf) for GO Annotation file format: [Gene Association File](http://geneontology.org/docs/go-annotation-file-gaf-format-2.0/)
+      * [Uniprot style Fasta header parser](https://github.com/CSBiology/BioFSharp/commit/f2a16aaa2456b0c431f6d50d0f78a12834671e97)
+      * [FastA to GFF3 converter functions](https://github.com/CSBiology/BioFSharp/commit/2cdd3537398040e1508736bd734b22a67a7c46e7)
+      * [GFF3 Pretty Printer](https://github.com/CSBiology/BioFSharp/commit/eaaa59fbd382721e75fbb9c6558b0ba2ff6afb00) 
+
+    * BugFixes:
+      * [Fix OboParser](https://github.com/CSBiology/BioFSharp/commit/0354c9c13e7a4692f2ab61b80ef86ac8f5bd83c3) just taking the last occurence of the alt_id keyword and discards previous ones.
+      * Fix [Fasta](https://github.com/CSBiology/BioFSharp/commit/aff8eff849deb1cca411faf3c640d53f6e410497) and [GFF3](https://github.com/CSBiology/BioFSharp/commit/d0f059ab899c715a37b7f50318292c8a81f18dd9) writers appending to files instead of recreating
+
+* **BioFSharp.BioTools**:
+    * Additional functionality:
+      * [TMHMM biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/f11cb122df29ccaa0809d3c3c951294a1b645e0f) ([TMHMM](http://www.cbs.dtu.dk/services/TMHMM/) 2.0c predicts transmembrane helices in proteins)
+      * [FastP and Hera biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/28b7654d57824bcdfdb8bae16af2f0f706ed60ad)
+      * [IntaRNA biocontainer API wrapper](https://github.com/CSBiology/BioFSharp/commit/a659496179cd754fbea2fe9ef4030544a35eb68b) ([IntaRNA](https://github.com/BackofenLab/IntaRNA) is a tool for prediction of various nucleotide interactions)
+
+    * BugFixes:
+      * Fix Stream entry closed error in [BioContainer.tarOfStream()](https://github.com/CSBiology/BioFSharp/commit/20f8973ea717208627ef5a7ea0b72cbaecb4103c)
+
+* **BioFSharp.ImgP**:
+    * Additional functionality:
+      * [update 3DCWT correlation calculation to loop](https://github.com/CSBiology/BioFSharp/commit/0b4ffe93755d915da64f4231199b0ec54d4d6c4d)
+
+    * Bugfixes:
+      * [fix height adjustment in ricker](https://github.com/CSBiology/BioFSharp/commit/abab82be1ac9fa0c540acfb5f3ccc6bd5143df1f)
+      * [fix Ricker values for discrete time points](https://github.com/CSBiology/BioFSharp/commit/2bb6bb2b67ea43df2d9fe970bd1445e568df53d4)
+
 #### 0.0.16 - Thursday, March 7, 2019
  * Fix template files for all nuget packages: 
    * use correct paths for binaries

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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     let [<Literal>] AssemblyConfiguration = "Release"
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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     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("0.0.16")>]
-[<assembly: AssemblyFileVersionAttribute("0.0.16")>]
+[<assembly: AssemblyVersionAttribute("0.1.0")>]
+[<assembly: AssemblyFileVersionAttribute("0.1.0")>]
 [<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 = "0.0.16"
-    let [<Literal>] AssemblyFileVersion = "0.0.16"
+    let [<Literal>] AssemblyVersion = "0.1.0"
+    let [<Literal>] AssemblyFileVersion = "0.1.0"
     let [<Literal>] AssemblyConfiguration = "Release"