From 7a4d600f11b4bc952db0736716fac6bcb4dbb8e1 Mon Sep 17 00:00:00 2001
From: LysianeBouchard <lysiane.bouchard.hsj@ssss.gouv.qc.ca>
Date: Thu, 16 Jan 2025 15:29:53 -0500
Subject: [PATCH] feat: CLIN-3414 bump version to v2.4.1-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 a610cd0..5ae6902 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).
 
-## v2.4.0-dev - [date]
+## v2.4.1-dev - [date]
+
+## v2.4.0-dev
 
 ### `Fixed`
 - [#57](https://github.com/Ferlab-Ste-Justine/Post-processing-Pipeline/pull/57) Allow to pass exomiser application properties
diff --git a/README.md b/README.md
index e337d40..805dd21 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 "v2.4.0" \
+nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.4.1" \
     -params-file params.json  \
    --input samplesheet.csv \
    --outdir results/dir \
diff --git a/conf/modules.config b/conf/modules.config
index 589ccc0..c059d70 100644
--- a/conf/modules.config
+++ b/conf/modules.config
@@ -63,7 +63,7 @@ process {
     }
 
     withName: EXOMISER { 
-        container = 'ferlabcrsj/exomiser:2.4.0'
+        container = 'ferlabcrsj/exomiser:2.4.1'
         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 c8b2922..5abc755 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 "v2.4.0" \
+nextflow run -c cluster.config Ferlab-Ste-Justine/Post-processing-Pipeline -r "v2.4.1" \
     -params-file params.json  \
    --input samplesheet.csv \
    --outdir results/dir \
diff --git a/nextflow.config b/nextflow.config
index 7504196..cd044df 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         = '2.4.0-dev'
+    version         = '2.4.1-dev'
     doi             = ''
 }