From 92408c301396b1b39785537006bb046d3f530764 Mon Sep 17 00:00:00 2001 From: mirpedrol Date: Mon, 27 Jan 2025 12:09:04 +0100 Subject: [PATCH 1/2] bump to v3.2.0 --- .gitpod.yml | 2 +- CHANGELOG.md | 4 +--- setup.py | 2 +- 3 files changed, 3 insertions(+), 5 deletions(-) diff --git a/.gitpod.yml b/.gitpod.yml index d5948695bf..db31d01bed 100644 --- a/.gitpod.yml +++ b/.gitpod.yml @@ -1,4 +1,4 @@ -image: nfcore/gitpod:dev +image: nfcore/gitpod:latest tasks: - name: install current state of nf-core/tools and setup pre-commit command: | diff --git a/CHANGELOG.md b/CHANGELOG.md index 8884ad042b..6fcaface96 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -1,14 +1,12 @@ # nf-core/tools: Changelog -## v3.2.0dev +## [v3.2.0 - Pewter Pangolin](https://github.com/nf-core/tools/releases/tag/3.2.0) - [2025-01-27] ### Template - Remove automated release tweets ([#3419](https://github.com/nf-core/tools/pull/3419)) - Update template components ([#3426](https://github.com/nf-core/tools/pull/3426)) -### Linting - ### Modules - Modules created in pipelines "local" dir now use the full template ([#3256](https://github.com/nf-core/tools/pull/3256)) diff --git a/setup.py b/setup.py index 4a142c20fd..d426478786 100644 --- a/setup.py +++ b/setup.py @@ -2,7 +2,7 @@ from setuptools import find_packages, setup -version = "3.2.0dev" +version = "3.2.0" with open("README.md") as f: readme = f.read() From 0d9a4f13a4390d85674d93cc8e71adc3fab0d1af Mon Sep 17 00:00:00 2001 From: mirpedrol Date: Mon, 27 Jan 2025 12:31:43 +0100 Subject: [PATCH 2/2] template line break fixes --- nf_core/pipeline-template/docs/output.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/nf_core/pipeline-template/docs/output.md b/nf_core/pipeline-template/docs/output.md index a9be6620e1..d9bc3a188f 100644 --- a/nf_core/pipeline-template/docs/output.md +++ b/nf_core/pipeline-template/docs/output.md @@ -15,7 +15,7 @@ The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes d {% if fastqc -%} - [FastQC](#fastqc) - Raw read QC{% endif %} - {%- if multiqc -%} + {%- if multiqc %} - [MultiQC](#multiqc) - Aggregate report describing results and QC from the whole pipeline {%- endif %} - [Pipeline information](#pipeline-information) - Report metrics generated during the workflow execution @@ -34,7 +34,7 @@ The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes d [FastQC](http://www.bioinformatics.babraham.ac.uk/projects/fastqc/) gives general quality metrics about your sequenced reads. It provides information about the quality score distribution across your reads, per base sequence content (%A/T/G/C), adapter contamination and overrepresented sequences. For further reading and documentation see the [FastQC help pages](http://www.bioinformatics.babraham.ac.uk/projects/fastqc/Help/). -{%- endif -%} +{%- endif %} {% if multiqc -%} @@ -53,7 +53,7 @@ The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes d [MultiQC](http://multiqc.info) is a visualization tool that generates a single HTML report summarising all samples in your project. Most of the pipeline QC results are visualised in the report and further statistics are available in the report data directory. Results generated by MultiQC collate pipeline QC from supported tools e.g. FastQC. The pipeline has special steps which also allow the software versions to be reported in the MultiQC output for future traceability. For more information about how to use MultiQC reports, see . -{%- endif -%} +{%- endif %} ### Pipeline information