diff --git a/README.md b/README.md index 23698a3..4e43227 100644 --- a/README.md +++ b/README.md @@ -15,7 +15,7 @@ An [ENCODE](https://www.encodeproject.org/) pipeline for processing whole-genome $ git clone https://github.com/ENCODE-DCC/wgbs-pipeline ``` -2. Install [Caper](https://github.com/ENCODE-DCC/caper), requires `java` >= 1.8 and `python` >= 3.6 . Caper is a python wrapper for [Cromwell](https://github.com/broadinstitute/cromwell). +2. Install [Caper](https://github.com/ENCODE-DCC/caper), requires `java` >= 1.8, `docker`, and `python` >= 3.6 . Caper is a python wrapper for [Cromwell](https://github.com/broadinstitute/cromwell). ```bash $ pip install caper # use pip3 if it doesn't work ``` @@ -30,7 +30,7 @@ To verify your installation, you can run the following pipeline with a test data > Note: this will incur some cost when running in cloud environments. ```bash -$ caper run wgbs-pipeline.wdl -i tests/functional/json/test_wgbs.json +$ caper run wgbs-pipeline.wdl -i tests/functional/json/test_wgbs.json --docker ``` For detailed usage, see [usage](docs/usage.md)