Adding links about CWL to the readme

[arvados-tutorial.git] / WGS-processing / README.md

diff --git a/WGS-processing/README.md b/WGS-processing/README.md
index aa2d8e687cab773cca3f921d77fce9720198f6aa..c992c20faf905a1a906e37bf88d6cda7e589c918 100644 (file)
--- a/WGS-processing/README.md
+++ b/WGS-processing/README.md
@@ -5,20 +5,28 @@ This directory contains an Arvados demo showing processing of whole genome seque
 * Variant calling in parallel using GATK Haplotype Caller (https://gatk.broadinstitute.org/hc/en-us)
 * Generation of an HTML report comparing variants against ClinVar archive (https://www.ncbi.nlm.nih.gov/clinvar/)
 
-Workflows are written in CWL v1.1. 
+Workflows are written in CWL v1.1. (https://www.commonwl.org/)
 
 Subdirectories are:
 * cwl - contains CWL code for the demo
-* yml - contains yml inputs for cwl demo code
+* yml - contains YML inputs for cwl demo code
 * src - contains any src code for the demo
 * docker - contains dockerfiles necessary to re-create any needed docker images 
 
 To run the workflow:
 
-* cd into cwl directory
-* run the following:
-  arvados-cwl-runner --no-wait --project-uuid YOUR_PROJECT_UUID wgs-processing-wf.cwl ../yml/YOURINPUTS.yml
+*  arvados-cwl-runner --no-wait --project-uuid YOUR_PROJECT_UUID ./cwl/wgs-processing-wf.cwl ./yml/YOURINPUTS.yml
 
 About the Demo Data:
+
 WGS Data used in this demo is public data made available by the Personal Genome Project.  
 This set of data is from the PGP-UK (https://www.personalgenomes.org.uk/). 
+
+Have questions about Arvados?
+* https://arvados.org/
+* https://gitter.im/arvados/community
+
+Have questions about CWL?
+* https://www.commonwl.org/
+* https://cwl.discourse.group/
+* https://gitter.im/common-workflow-language/common-workflow-language