From 4077fdbf5890e891bbd562d84817d92f79d27ff8 Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Mon, 13 Nov 2023 09:22:28 +0100 Subject: [PATCH 1/4] Add missing dependency change --- CHANGELOG.md | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index 8cffdcaa..343f62af 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -21,6 +21,12 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### `Deprecated` +### `Dependencies` + +| Tool | Previous version | New version | +| -------- | ---------------- | ----------- | +| CAT | 4.6 | 5.2.3 | + ## 2.5.0 - [2023-10-10] ### `Added` From a5c40952bfceb9973ad5c56fc97d6878b48eedd3 Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Mon, 13 Nov 2023 09:23:56 +0100 Subject: [PATCH 2/4] Update CHANGELOG.md --- CHANGELOG.md | 10 ++++------ 1 file changed, 4 insertions(+), 6 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index 343f62af..e58ce801 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -17,16 +17,14 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### `Dependencies` -- [#536](https://github.com/nf-core/mag/pull/536) Remove custom function with native Nextflow for checking file extension (reported by @d4straub, fix by @jfy133) - -### `Deprecated` - -### `Dependencies` - | Tool | Previous version | New version | | -------- | ---------------- | ----------- | | CAT | 4.6 | 5.2.3 | +### `Deprecated` + +- [#536](https://github.com/nf-core/mag/pull/536) Remove custom function with native Nextflow for checking file extension (reported by @d4straub, fix by @jfy133) + ## 2.5.0 - [2023-10-10] ### `Added` From f16760cfa646e9d9db2a42465c6c11a24a889b83 Mon Sep 17 00:00:00 2001 From: nf-core-bot Date: Mon, 13 Nov 2023 08:37:03 +0000 Subject: [PATCH 3/4] [automated] Fix linting with Prettier --- CHANGELOG.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/CHANGELOG.md b/CHANGELOG.md index e58ce801..de04616d 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -17,9 +17,9 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### `Dependencies` -| Tool | Previous version | New version | -| -------- | ---------------- | ----------- | -| CAT | 4.6 | 5.2.3 | +| Tool | Previous version | New version | +| ---- | ---------------- | ----------- | +| CAT | 4.6 | 5.2.3 | ### `Deprecated` From 5f04c50951a0def3fc5860bef9df1af4f820f118 Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Mon, 13 Nov 2023 11:18:57 +0100 Subject: [PATCH 4/4] Apply suggestions from code review Co-authored-by: Daniel Straub <42973691+d4straub@users.noreply.github.com> --- docs/output.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/docs/output.md b/docs/output.md index 615c1f65..88aba227 100644 --- a/docs/output.md +++ b/docs/output.md @@ -333,7 +333,7 @@ These depth files are used for downstream binning steps. All the files and contigs in these folders will be assessed by QUAST and BUSCO. -All other files that were discarded by the tool, or from the low-quality unbinned contigs , can be found here. +All other files that were discarded by the tool, or from the low-quality unbinned contigs, can be found here.
Output files