From 08d197b6428e8abd9966c8d76372a9493724394e Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Fri, 2 Feb 2024 09:10:36 +0100 Subject: [PATCH 1/2] Update CHANGELOG and bump version for reelase --- CHANGELOG.md | 16 +++++++++------- assets/multiqc_config.yml | 4 ++-- nextflow.config | 2 +- 3 files changed, 12 insertions(+), 10 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index a226ef9a..c4b9b307 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -3,24 +3,26 @@ 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 - [unreleased] +## 2.5.2 - [2024-02-02] ### `Added` -- [#548](https://github.com/nf-core/mag/pull/548) - Fixes to (reported by @maxibor, @PPpissar, @muniheart, @llborcard, fix by @maxibor) - - GTDBK-TK execution - - CAT/QUAST/DEPTH bin summary file name collisions - - BUSCO database parsing - - Correct CAT name files - [#562](https://github.com/nf-core/mag/pull/562) - Add CAT summary into the global bin_summary (by @maxibor) - [#565](https://github.com/nf-core/mag/pull/565) - Add warning of empty GTDB-TK results if no contigs pass completeness filter (fix by @jfy133 and @maxibor) ### `Changed` +- [#563](https://github.com/nf-core/mag/pull/562) Update to nf-core v2.12 `TEMPLATE` (by @CarsonJM) +- [#566](https://github.com/nf-core/mag/pull/566) - More logical ordering of MultiQC sections (assembly and bin sections go together respectively) (fix by @jfy133) + ### `Fixed` +- [#548](https://github.com/nf-core/mag/pull/548) - Fixes to (reported by @maxibor, @PPpissar, @muniheart, @llborcard, fix by @maxibor) + - GTDBK-TK execution + - CAT/QUAST/DEPTH bin summary file name collisions + - BUSCO database parsing + - Correct CAT name files - [#558](https://github.com/nf-core/mag/pull/558) - Fix bug in run merging when dealing with single end data (reported by @roberta-davidson, fix by @jfy133) -- [#566](https://github.com/nf-core/mag/pull/566) - More logical ordering of MultiQC sections (assembly and bin sections go together respectively) (fix by @jfy133) ### `Dependencies` diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml index 7eebb4d0..de0b96a6 100644 --- a/assets/multiqc_config.yml +++ b/assets/multiqc_config.yml @@ -1,7 +1,7 @@ report_comment: > - This report has been generated by the nf-core/mag + This report has been generated by the nf-core/mag analysis pipeline. For information about how to interpret these results, please see the - documentation. + documentation. report_section_order: "nf-core-mag-methods-description": order: -1000 diff --git a/nextflow.config b/nextflow.config index 35eb3a8a..fd0094b9 100644 --- a/nextflow.config +++ b/nextflow.config @@ -379,7 +379,7 @@ manifest { description = """Assembly, binning and annotation of metagenomes""" mainScript = 'main.nf' nextflowVersion = '!>=23.04.0' - version = '2.5.2dev' + version = '2.5.2' doi = '10.1093/nargab/lqac007' } From 409b7f8a43dc5c305111b5b4e356ed3c7c1cf04a Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Fri, 2 Feb 2024 09:11:30 +0100 Subject: [PATCH 2/2] Typo fix --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index c4b9b307..feb3c137 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -8,7 +8,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### `Added` - [#562](https://github.com/nf-core/mag/pull/562) - Add CAT summary into the global bin_summary (by @maxibor) -- [#565](https://github.com/nf-core/mag/pull/565) - Add warning of empty GTDB-TK results if no contigs pass completeness filter (fix by @jfy133 and @maxibor) +- [#565](https://github.com/nf-core/mag/pull/565) - Add warning of empty GTDB-TK results if no contigs pass completeness filter (by @jfy133 and @maxibor) ### `Changed`