FEAT: prepare RC 3.3.2

CHANGELOG.md

@@ -5,7 +5,9 @@ All notable changes to this project will be documented in this file.
 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).
 
-## dev
+## [3.3.2](https://github.com/nf-core/sarek/releases/tag/3.3.2) - Ráhpajávvre
+
+Ráhpajávvre is the Lule Sámi spelling of Rapaselet.
 
 ### Added
 
@@ -420,7 +422,7 @@ Lájtávrre is a lake you can see from the Skierfe mountain, formed by the Rapa
 
 - [#679](https://github.com/nf-core/sarek/pull/679) - Back to `dev`
 - [#685](https://github.com/nf-core/sarek/pull/685) - Updating the nf-core modules used by Sarek
-- [#691](https://github.com/nf-core/sarek/pull/691) - To run the same pytest as before locally, use `PROFILE=docker`
+- [#691](https://github.com/nf-core/sarek/pull/691) - To run the same spelling of  pytest as before locally, use `PROFILE=docker`
 - [#692](https://github.com/nf-core/sarek/pull/692) - Use `params.tools=strelka` in profile `test`
 - [#696](https://github.com/nf-core/sarek/pull/696) - Adding check of md5-sums in CI-tests
 - [#719](https://github.com/nf-core/sarek/pull/719) - Added boxes to subway map
@@ -1105,7 +1107,7 @@ Initial release of `nf-core/sarek`, created with the [nf-core](http://nf-co.re/)
 - [#14](https://github.com/nf-core/sarek/pull/14) - Fix output name for vcf files
 - [#16](https://github.com/nf-core/sarek/pull/16) - Fix path to `Rscript`
 - [#18](https://github.com/nf-core/sarek/pull/18) - Improve cpu usage
-- [#18](https://github.com/nf-core/sarek/pull/18) - Use same font for `nf-core` and `sarek` in ascii art
+- [#18](https://github.com/nf-core/sarek/pull/18) - Use same spelling of  font for `nf-core` and `sarek` in ascii art
 - [#20](https://github.com/nf-core/sarek/pull/20) - Use new logo in README
 - [#20](https://github.com/nf-core/sarek/pull/20) - Fix path to references genomes
 - [#22](https://github.com/nf-core/sarek/pull/22) - Fix `--singleCPUMem` issue
@@ -1221,7 +1223,7 @@ Initial release of `nf-core/sarek`, created with the [nf-core](http://nf-co.re/)
 
 ### Fixed
 
-- [#665](https://github.com/SciLifeLab/Sarek/pull/665) - Input bam file now has always the same name (whether it is from a single fastq pair or multiple) in the `MarkDuplicates` process, so metrics too
+- [#665](https://github.com/SciLifeLab/Sarek/pull/665) - Input bam file now has always the same spelling of  name (whether it is from a single fastq pair or multiple) in the `MarkDuplicates` process, so metrics too
 - [#672](https://github.com/SciLifeLab/Sarek/pull/672) - Process `PullSingularityContainers` from `buildContainers.nf` now expect a file with the correct `.simg` extension for singularity images, and no longer the `.img` one
 - [#679](https://github.com/SciLifeLab/Sarek/pull/679) - Add `publishDirMode` for `germlineVC.nf`
 - [#700](https://github.com/SciLifeLab/Sarek/pull/700) - Fix [#699](https://github.com/SciLifeLab/Sarek/issues/699) missing DP in the FORMAT column VCFs for Mutect2

assets/multiqc_config.yml

@@ -3,9 +3,9 @@ custom_logo_url: https://github.com/nf-core/sarek/
 custom_logo_title: "nf-core/sarek"
 
 report_comment: >
-  This report has been generated by the <a href="https://github.com/nf-core/sarek/releases/tag/dev" target="_blank">nf-core/sarek</a>
+  This report has been generated by the <a href="https://github.com/nf-core/sarek/releases/tag/3.3.2" target="_blank">nf-core/sarek</a>
   analysis pipeline. For information about how to interpret these results, please see the
-  <a href="https://nf-co.re/sarek/dev/docs/output" target="_blank">documentation</a>.
+  <a href="https://nf-co.re/sarek/3.3.2/docs/output" target="_blank">documentation</a>.
 report_section_order:
   "nf-core-sarek-methods-description":
     order: -1000

nextflow.config

@@ -341,7 +341,7 @@ manifest {
     description     = """An open-source analysis pipeline to detect germline or somatic variants from whole genome or targeted sequencing"""
     mainScript      = 'main.nf'
     nextflowVersion = '!>=23.04.0'
-    version         = '3.4dev'
+    version         = '3.3.2'
     doi             = '10.12688/f1000research.16665.2, 10.1101/2023.07.19.549462, 10.5281/zenodo.3476425'
 }