Add readme

README.md

@@ -1,10 +1,10 @@
 # camila_sao_paulo nextflow pipeline
-A pipeline for Genome Assembly, Genome Anotation and Variant Calling with quality evaluation, using .fastq files and a reference genome as input.
+A pipeline for Genome Assembly, Genome Anotation and Variant Calling with quality evaluation, using `.fastq` files and a reference genome as input.
 
 ## Minimal requirements (for local execution)
 
-* Nextflow VERSION > 20.11
-* Java 8
+* Nextflow 
+* Java
 * Docker
 
 ## Pipeline workflow
@@ -57,6 +57,7 @@ This project has the `-stub-run` feature, that can be used for testing propouse,
 
 ```
 bash data/mock_data/generate_mock_data.sh
+
 nextflow run main.nf \
 		 -params-file stub_params.yaml \
 		 -stub-run

nextflow.config

@@ -1,23 +1,24 @@
 manifest {
     name = 'Camila Sao Paulo analysis'
     description = "Workflow for the the Camila Sao Paulo analsis"
-    version = '0.1.0'
+    version = '1.0.0'
     author = 'Abhinav Sharma <[email protected]>; Emilyn Costa Conceição <[email protected]>'
     mainScript = 'main.nf'
-    defaultBranch = 'master'
+    nextflowVersion = '>=21.04'
 }
 
-    plugins {
-            id 'nf-azure'
-            }
+plugins {
+    id 'nf-azure'
+    id 'nf-google'
+}
 
 docker.enabled = true
 
 profiles {
-    standard {includeConfig 'conf/standard.config'}
-    gls {includeConfig 'conf/gcp.config'}
-    azureBatch {includeConfig 'conf/azure.config'}
-    awsBatch {includeConfig 'conf/aws.config'}
-    stub {includeConfig 'conf/stub.config'}
+    standard { includeConfig 'conf/standard.config' }
+    gls { includeConfig 'conf/gcp.config' }
+    azureBatch { includeConfig 'conf/azure.config' }
+    awsBatch { includeConfig 'conf/aws.config' }
+    stub { includeConfig 'conf/stub.config' }
 }