From 80502c09574f52a0661a61b632858466c931ba29 Mon Sep 17 00:00:00 2001 From: Maxime U Garcia Date: Mon, 19 Jan 2026 15:49:03 +0100 Subject: [PATCH 1/3] Add bioconda channel to conda setup --- nf_core/pipeline-template/.github/actions/nf-test/action.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/nf_core/pipeline-template/.github/actions/nf-test/action.yml b/nf_core/pipeline-template/.github/actions/nf-test/action.yml index eae3519967..4cb1e2f4bf 100644 --- a/nf_core/pipeline-template/.github/actions/nf-test/action.yml +++ b/nf_core/pipeline-template/.github/actions/nf-test/action.yml @@ -52,7 +52,7 @@ runs: with: auto-update-conda: true conda-solver: libmamba - channels: conda-forge + channels: conda-forge,bioconda channel-priority: strict conda-remove-defaults: true From 4b16f57d05a3f3900da3cde903b6ad5bdc2a4a7b Mon Sep 17 00:00:00 2001 From: nf-core-bot Date: Mon, 19 Jan 2026 14:53:21 +0000 Subject: [PATCH 2/3] [automated] Update CHANGELOG.md --- CHANGELOG.md | 1 + 1 file changed, 1 insertion(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index a3d5343913..f581486f8a 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -18,6 +18,7 @@ - Update astral-sh/setup-uv digest to ed21f2f ([#3959](https://github.com/nf-core/tools/pull/3959)) - Update codecov/codecov-action digest to 671740a ([#3962](https://github.com/nf-core/tools/pull/3962)) - Add support for SVG files in bump-version command ([#3978](https://github.com/nf-core/tools/pull/3978)) +- Add bioconda channel to conda setup ([#3987](https://github.com/nf-core/tools/pull/3987)) ### Template From 5532b54942f40ea8f5545b2018629f32cf1f60fd Mon Sep 17 00:00:00 2001 From: Maxime U Garcia Date: Mon, 19 Jan 2026 16:00:29 +0100 Subject: [PATCH 3/3] Reorder bioconda channel addition in CHANGELOG --- CHANGELOG.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index f581486f8a..601b414217 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -18,12 +18,12 @@ - Update astral-sh/setup-uv digest to ed21f2f ([#3959](https://github.com/nf-core/tools/pull/3959)) - Update codecov/codecov-action digest to 671740a ([#3962](https://github.com/nf-core/tools/pull/3962)) - Add support for SVG files in bump-version command ([#3978](https://github.com/nf-core/tools/pull/3978)) -- Add bioconda channel to conda setup ([#3987](https://github.com/nf-core/tools/pull/3987)) ### Template - switch to uv and prek for pipeline linting workflow ([#3942](https://github.com/nf-core/tools/pull/3942)) - add schema to devcontainer.json ([#3908](https://github.com/nf-core/tools/pull/3908)) +- Add bioconda channel to conda setup ([#3987](https://github.com/nf-core/tools/pull/3987)) ### Linting