From e845ef178274e6604a0a592bd3cd281591f8c079 Mon Sep 17 00:00:00 2001
From: LysianeBouchard <lysiane.bouchard.hsj@ssss.gouv.qc.ca>
Date: Fri, 10 Jan 2025 09:34:26 -0500
Subject: [PATCH] feat: CLIN-3267 bump version to v2.4.0-dev

---
 CHANGELOG.md        | 4 +++-
 README.md           | 2 +-
 conf/modules.config | 2 +-
 docs/usage.md       | 2 +-
 nextflow.config     | 2 +-
 5 files changed, 7 insertions(+), 5 deletions(-)

diff --git a/CHANGELOG.md b/CHANGELOG.md
index 858dc01..de1f192 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,7 +3,9 @@
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html).
 
-## v2.3.0-dev - [date]
+## v2.4.0-dev - [date]
+
+## v2.3.0-dev
 
 ### `Added`
 - [#44](https://github.com/Ferlab-Ste-Justine/Post-processing-Pipeline/pull/44) Make interval file optional in GenotypeGVCFs process
diff --git a/README.md b/README.md
index cb4265f..e337d40 100644
--- a/README.md
+++ b/README.md
@@ -39,7 +39,7 @@ This schema was done using [inkscape](https://inkscape.org/) with the good prati
 Here is an example nextflow command to run the pipeline:
 
 ```bash
-nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.3.0" \
+nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.4.0" \
     -params-file params.json  \
    --input samplesheet.csv \
    --outdir results/dir \
diff --git a/conf/modules.config b/conf/modules.config
index 9239379..589ccc0 100644
--- a/conf/modules.config
+++ b/conf/modules.config
@@ -63,7 +63,7 @@ process {
     }
 
     withName: EXOMISER { 
-        container = 'ferlabcrsj/exomiser:2.3.0'
+        container = 'ferlabcrsj/exomiser:2.4.0'
         publishDir = new_publish_dir([
             enabled: true,
             pattern: 'results/*{vcf.gz,vcf.gz.tbi,tsv,json,html}'
diff --git a/docs/usage.md b/docs/usage.md
index ac081cb..c590585 100644
--- a/docs/usage.md
+++ b/docs/usage.md
@@ -54,7 +54,7 @@ These files must be correctly downloaded and specified through pipeline paramete
 The typical command for running the pipeline is as follows:
 
 ```bash
-nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.3.0" \
+nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.4.0" \
     -params-file params.json  \
    --input samplesheet.csv \
    --outdir results/dir \
diff --git a/nextflow.config b/nextflow.config
index 4b9ca3c..7504196 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -382,7 +382,7 @@ manifest {
     description     = """Variant analysis for genome and exome GVCFs"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=23.10.1'
-    version         = '2.3.0-dev'
+    version         = '2.4.0-dev'
     doi             = ''
 }