Update to newest release

README.md

@@ -43,14 +43,14 @@ Umi-pipeline-nf orignates from a snakemake-based analysis pipeline ([pipeline-um
 2. Download the pipeline and test it on a [minimal dataset](data/info.txt) with a single command.
 
 ```bash
-nextflow run genepi/umi-pipeline-nf -r v0.2.0 -profile test,docker
+nextflow run genepi/umi-pipeline-nf -r v0.2.1 -profile test,docker
 ```
 
 3. Start running your own analysis!  
 3.1 Download and adapt the config/custom.config with paths to your data (relative and absolute paths possible).
 
 ```bash
-nextflow run genepi/umi-pipeline-nf -r v0.2.0 -c <custom.config> -profile custom,<docker,singularity> 
+nextflow run genepi/umi-pipeline-nf -r v0.2.1 -c <custom.config> -profile custom,<docker,singularity> 
 ```
 
 ## Citation 

config/test.config

@@ -10,7 +10,7 @@ params {
 
 	help 			= false
 	version 		= false
-	debug 			= true
+	debug 			= false
 
 	input 			= "$baseDir/data/fastq_pass/"
 	output 			= "umi-pipeline-nf_test-run"

env/environment.yml

@@ -11,7 +11,7 @@ dependencies:
   - seqtk=1.3
   - lofreq=2.1.5
   - freebayes=1.3.2
-  - vcflib
+  - vcflib=1.0.0
   - bedtools=2.30.0
   - vsearch=2.21.2
   - openjdk=11.0.9

nextflow.config

@@ -1,7 +1,7 @@
 // NEXTFLOW MANIFEST
 manifest {
     name                                  = 'umi-pipeline-nf'
-    version                               = '0.2.0'
+    version                               = '0.2.1'
     description                           = 'Nextflow pipeline to analyze umi amplicon data'
     author                                = 'Stephan Amstler'
     homePage                              = 'https://github.com/AmstlerStephan/umi-pipeline-nf.git'
@@ -67,7 +67,7 @@ params {
 // Load base.config by default for all pipelines
 includeConfig "${baseDir}/config/base.config"
 
-process.container                         = 'quay.io/genepi/umi-pipeline-nf:v0.2.0'
+process.container                         = 'quay.io/genepi/umi-pipeline-nf:v0.2.1'
 
 profiles {