Merge pull request #97 from jonasscheid/prepare_release

Prepare release 3.4.0

CHANGELOG.md

@@ -3,6 +3,19 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
+## v3.4.0 - 2023-12-12
+
+### `Added`
+
+-  [#93](https://github.com/KohlbacherLab/epytope/pull/93) Added NetMHCIIpan version 4.2 interface [#92](https://github.com/KohlbacherLab/epytope/issues/92)
+-  [#96](https://github.com/KohlbacherLab/epytope/pull/96) Added NetMHCIIpan version 4.3 interface [#95](https://github.com/KohlbacherLab/epytope/issues/95)
+
+### `Changed`
+
+### `Fixed`
+
+- [#93](https://github.com/KohlbacherLab/epytope/pull/93) Fixed length restriction of NetMHCIIpan interfaces [#91](https://github.com/KohlbacherLab/epytope/issues/91)
+
 ## v3.3.1 - 2023-04-25
 
 ### `Added`

README.md

@@ -63,7 +63,7 @@ Currently **epytope** provides implementations of several prediction methods or
   - [NetMHC](https://pubmed.ncbi.nlm.nih.gov/26515819/) 3.0, 3.4, 4.0
   - [NetMHCII](https://pubmed.ncbi.nlm.nih.gov/29315598/) 2.2, 2.3
   - [NetMHCpan](https://pubmed.ncbi.nlm.nih.gov/28978689/) 2.4, 2.8, 3.0, 4.0, 4.1
-  - [NetMHCIIpan](https://pubmed.ncbi.nlm.nih.gov/32406916/) 3.0, 3.1, 4.0, 4.1
+  - [NetMHCIIpan](https://pubmed.ncbi.nlm.nih.gov/38000035/) 3.0, 3.1, 4.0, 4.1, 4.2, 4.3
   - [PickPocket](https://pubmed.ncbi.nlm.nih.gov/19297351/) 1.1
   - [NetCTLpan](https://pubmed.ncbi.nlm.nih.gov/20379710/) 1.1
 - Epitope Selection

epytope/tutorials/EpitopePrediction.ipynb

@@ -202,10 +202,10 @@
      "output_type": "stream",
      "text": [
       "netmhc 3.0a,3.4,4.0\n",
-      "netmhcpan 2.4,2.8,3.0,4.0\n",
+      "netmhcpan 2.4,2.8,3.0,4.0,4.1\n",
       "netmhcstabpan 1.0\n",
       "netmhcii 2.2\n",
-      "netmhciipan 3.0,3.1\n",
+      "netmhciipan 3.0,3.1,4.0,4.1,4.2,4.3\n",
       "pickpocket 1.1\n",
       "netctlpan 1.1\n",
       "syfpeithi 1.0\n",
@@ -1085,7 +1085,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.6.13"
+   "version": "3.7.12"
   }
  },
  "nbformat": 4,

setup.py

@@ -21,7 +21,7 @@
     name='epytope',
 
     # Version:
-    version='3.3.1',
+    version='3.4.0',
 
     description='A Framework for Epitope Detection and Vaccine Design',
     long_description=long_description,
@@ -32,11 +32,11 @@
 
     # Author details
     author='Benjamin Schubert, Mathias Walzer, Christopher Mohr, Leon Kuchenbecker',
-    author_email='[email protected], [email protected], [email protected], [email protected] ',
+    author_email='[email protected], [email protected], [email protected], [email protected] ',
 
     # maintainer details
-    maintainer='Christopher Mohr',
-    maintainer_email='christopher.mohr@uni-tuebingen.de',
+    maintainer='Christopher Mohr, Jonas Scheid',
+    maintainer_email='[email protected], jonas.scheid@uni-tuebingen.de',
 
     # Choose your license
     license='BSD',