Version 2.0.5 PR for release

Author: apeltzer

.travis.yml

@@ -13,7 +13,7 @@ before_install:
   # Pull the docker image first so the test doesn't wait for this
   - docker pull nfcore/eager:dev
   # Fake the tag locally so that the pipeline runs properly
-  - docker tag nfcore/eager:dev nfcore/eager:latest
+  - docker tag nfcore/eager:dev nfcore/eager:2.0.5
 
 install:
   # Install Nextflow

CHANGELOG.md

@@ -6,6 +6,8 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 
 ## [Unpublished / Dev Branch]
 
+## [2.0.5] - 2019-01-28
+
 ### `Added`
 * [#127](https://github.com/nf-core/eager/pull/127) - Added a second testcase for testing the pipeline properly
 * [#129](https://github.com/nf-core/eager/pull/129) - Support BAM files as [input format](https://github.com/nf-core/eager/issues/41)
@@ -14,6 +16,11 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 ### `Fixed`
 * [#128](https://github.com/nf-core/eager/issues/128) - Fixed reference genome handling errors
 
+### `Dependencies`
+* Picard Tools 2.18.21 -> 2.18.23
+* R-Markdown 1.10 -> 1.11 
+* FastP 0.19.5 -> 0.19.6 
+
 ## [2.0.4] - 2019-01-09
 
 ### `Added`

Dockerfile

@@ -3,4 +3,4 @@ FROM nfcore/base
 LABEL description="Docker image containing all requirements for nf-core/eager pipeline"
 COPY environment.yml /
 RUN conda env create -f /environment.yml && conda clean -a
-ENV PATH /opt/conda/envs/nf-core-eager-2.0.5dev/bin:$PATH
+ENV PATH /opt/conda/envs/nf-core-eager-2.0.5/bin:$PATH

Singularity

@@ -4,10 +4,10 @@ Bootstrap:docker
 %labels
     MAINTAINER Alexander Peltzer <alexander.peltzer@qbic.uni-tuebingen.de>
     DESCRIPTION Container image containing all requirements for the nf-core/eager pipeline
-    VERSION 2.0.5dev
+    VERSION 2.0.5
 
 %environment
-    PATH=/opt/conda/envs/nf-core-eager-2.0.5dev/bin:$PATH
+    PATH=/opt/conda/envs/nf-core-eager-2.0.5/bin:$PATH
     export PATH
 
 %files

environment.yml

@@ -1,4 +1,4 @@
-name: nf-core-eager-2.0.5dev
+name: nf-core-eager-2.0.5
 channels:
   - defaults
   - bioconda

nextflow.config

@@ -10,7 +10,7 @@
 
 // Global default params, used in configs
 params {
-  container = 'nfcore/eager:latest'
+  container = 'nfcore/eager:2.0.5'
 
   //Pipeline options
   aligner = 'bwa'
@@ -87,7 +87,7 @@ manifest {
   name = 'nf-core/eager'
   author = 'Alexander Peltzer, Stephen Clayton, James A Fellows-Yates'
   homePage = 'https://github.com/nf-core/eager'
-  version = '2.0.5dev'
+  version = '2.0.5'
   description = 'A fully reproducible and modern ancient DNA pipeline in Nextflow and with cloud support.'
   mainScript = 'main.nf'
   nextflowVersion = '>=0.32.0'