Update README.md

README.md

@@ -10,13 +10,23 @@ De novo motif discovery and evaluation based on footprints identified by TOBIAS
 ## Installation
 Start with installing all dependencies listed above.
 Download all files from the [GitHub repository](https://github.molgen.mpg.de/loosolab/masterJLU2018). 
-The Nextflow-script needs a conda enviroment to run. To create this enviroment you need the yml-file from the repository.
+The Nextflow-script needs a conda enviroment to run. Nextflow can create the needed enviroment from the given yaml-file.
+On some systems Nrxtflow exits the run with following error:
+```
+Caused by:
+  Failed to create Conda environment
+  command: conda env create --prefix  --file env.yml
+  status : 143
+  message:
+```
+If this error occurs you have to create the enviroment before starting the pipeline.
+To create this enviroment you need the yml-file from the repository.
 Run the following commands to create the enviroment:
 ```console
 path=[Path to given masterenv.yml file]
 conda env create --name masterenv -f=$path
-source activate masterenv
 ```
+When the enviroment is created, set the variable 'path_env' in the configuration file as the path to it. 
 
 ## Quick Start
 ```console