From fd6f2c702182e807a0973bdedfe273b5f3ea68df Mon Sep 17 00:00:00 2001 From: Erik Danielsson Date: Fri, 8 Jul 2022 15:14:50 +0200 Subject: [PATCH 1/5] Add CITATIONS.cff --- CITATIONS.cff | 56 +++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 56 insertions(+) create mode 100644 CITATIONS.cff diff --git a/CITATIONS.cff b/CITATIONS.cff new file mode 100644 index 0000000000..4533e2f28c --- /dev/null +++ b/CITATIONS.cff @@ -0,0 +1,56 @@ +cff-version: 1.2.0 +message: "If you use `nf-core tools` in your work, please cite the `nf-core` publication" +authors: + - family-names: Ewels + given-names: Philip + - family-names: Peltzer + given-names: Alexander + - family-names: Fillinger + given-names: Sven + - family-names: Patel + given-names: Harshil + - family-names: Alneberg + given-names: Johannes + - family-names: Wilm + given-names: Andreas + - family-names: Ulysse Garcia + given-names: Maxime + - family-names: Di Tommaso + given-names: Paolo + - family-names: Nahnsen + given-names: Sven +title: "The nf-core framework for community-curated bioinformatics pipelines." +version: 2.4.1 +doi: 10.1038/s41587-020-0439-x +date-released: 2022-05-16 +url: https://github.com/nf-core/tools +prefered-citation: + type: article + authors: + - family-names: Ewels + given-names: Philip + - family-names: Peltzer + given-names: Alexander + - family-names: Fillinger + given-names: Sven + - family-names: Patel + given-names: Harshil + - family-names: Alneberg + given-names: Johannes + - family-names: Wilm + given-names: Andreas + - family-names: Ulysse Garcia + given-names: Maxime + - family-names: Di Tommaso + given-names: Paolo + - family-names: Nahnsen + given-names: Sven + doi: 10.1038/s41587-020-0439-x + journal: nature biotechnology + start: 276 + end: 278 + title: "The nf-core framework for community-curated bioinformatics pipelines." + issue: 3 + volume: 38 + year: 2020 + url: https://dx.doi.org/10.1038/s41587-020-0439-x From 1821f29a2de94086667e6e5df0cd784479606bb4 Mon Sep 17 00:00:00 2001 From: Erik Danielsson Date: Fri, 8 Jul 2022 15:18:50 +0200 Subject: [PATCH 2/5] Update changelog --- CHANGELOG.md | 1 + 1 file changed, 1 insertion(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index 3e2501f1d0..c117af9cd1 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -23,6 +23,7 @@ - Fix and improve broken test for Singularity container download ([#1622](https://github.com/nf-core/tools/pull/1622)) - Use [`$XDG_CACHE_HOME`](https://specifications.freedesktop.org/basedir-spec/basedir-spec-latest.html) or `~/.cache` instead of `$XDG_CONFIG_HOME` or `~/config/` as base directory for API cache - Switch CI to use [setup-nextflow](https://github.com/nf-core/setup-nextflow) action to install Nextflow ([#1650](https://github.com/nf-core/tools/pull/1650)) +- Add `CITATIONS.cff` [#361](https://github.com/nf-core/tools/issues/361) ### Modules From 34d5358f9db0d646141d85baae30399c9a706c87 Mon Sep 17 00:00:00 2001 From: Erik Danielsson Date: Fri, 8 Jul 2022 15:23:32 +0200 Subject: [PATCH 3/5] Fix linting --- CITATIONS.cff | 88 +++++++++++++++++++++++++-------------------------- 1 file changed, 44 insertions(+), 44 deletions(-) diff --git a/CITATIONS.cff b/CITATIONS.cff index 4533e2f28c..ade114fefc 100644 --- a/CITATIONS.cff +++ b/CITATIONS.cff @@ -1,56 +1,56 @@ cff-version: 1.2.0 message: "If you use `nf-core tools` in your work, please cite the `nf-core` publication" authors: - - family-names: Ewels - given-names: Philip - - family-names: Peltzer - given-names: Alexander - - family-names: Fillinger - given-names: Sven - - family-names: Patel - given-names: Harshil - - family-names: Alneberg - given-names: Johannes - - family-names: Wilm - given-names: Andreas - - family-names: Ulysse Garcia - given-names: Maxime - - family-names: Di Tommaso - given-names: Paolo - - family-names: Nahnsen - given-names: Sven -title: "The nf-core framework for community-curated bioinformatics pipelines." -version: 2.4.1 -doi: 10.1038/s41587-020-0439-x -date-released: 2022-05-16 -url: https://github.com/nf-core/tools -prefered-citation: - type: article - authors: - family-names: Ewels - given-names: Philip + given-names: Philip - family-names: Peltzer - given-names: Alexander + given-names: Alexander - family-names: Fillinger - given-names: Sven + given-names: Sven - family-names: Patel - given-names: Harshil + given-names: Harshil - family-names: Alneberg - given-names: Johannes + given-names: Johannes - family-names: Wilm - given-names: Andreas + given-names: Andreas - family-names: Ulysse Garcia - given-names: Maxime + given-names: Maxime - family-names: Di Tommaso - given-names: Paolo + given-names: Paolo - family-names: Nahnsen - given-names: Sven - doi: 10.1038/s41587-020-0439-x - journal: nature biotechnology - start: 276 - end: 278 - title: "The nf-core framework for community-curated bioinformatics pipelines." - issue: 3 - volume: 38 - year: 2020 - url: https://dx.doi.org/10.1038/s41587-020-0439-x + given-names: Sven +title: "The nf-core framework for community-curated bioinformatics pipelines." +version: 2.4.1 +doi: 10.1038/s41587-020-0439-x +date-released: 2022-05-16 +url: https://github.com/nf-core/tools +prefered-citation: + type: article + authors: + - family-names: Ewels + given-names: Philip + - family-names: Peltzer + given-names: Alexander + - family-names: Fillinger + given-names: Sven + - family-names: Patel + given-names: Harshil + - family-names: Alneberg + given-names: Johannes + - family-names: Wilm + given-names: Andreas + - family-names: Ulysse Garcia + given-names: Maxime + - family-names: Di Tommaso + given-names: Paolo + - family-names: Nahnsen + given-names: Sven + doi: 10.1038/s41587-020-0439-x + journal: nature biotechnology + start: 276 + end: 278 + title: "The nf-core framework for community-curated bioinformatics pipelines." + issue: 3 + volume: 38 + year: 2020 + url: https://dx.doi.org/10.1038/s41587-020-0439-x From d165bbf65466383e36bd8f3bf92eb7560196469c Mon Sep 17 00:00:00 2001 From: Erik Danielsson <53212377+ErikDanielsson@users.noreply.github.com> Date: Sat, 9 Jul 2022 17:34:28 +0200 Subject: [PATCH 4/5] Rename CITATIONS.cff to CITATION.cff --- CITATIONS.cff => CITATION.cff | 0 1 file changed, 0 insertions(+), 0 deletions(-) rename CITATIONS.cff => CITATION.cff (100%) diff --git a/CITATIONS.cff b/CITATION.cff similarity index 100% rename from CITATIONS.cff rename to CITATION.cff From cfcd83ede061c47752ce33e5ea067bedf391697e Mon Sep 17 00:00:00 2001 From: Erik Danielsson Date: Mon, 11 Jul 2022 14:18:21 +0200 Subject: [PATCH 5/5] Reformat CITATION.cff as yaml. Update .editorconfig to not complain about citations file --- .editorconfig | 2 +- CITATION.cff | 88 +++++++++++++++++++++++++-------------------------- 2 files changed, 45 insertions(+), 45 deletions(-) diff --git a/.editorconfig b/.editorconfig index c29b6c7eee..014c2383bd 100644 --- a/.editorconfig +++ b/.editorconfig @@ -8,5 +8,5 @@ trim_trailing_whitespace = true indent_size = 4 indent_style = space -[*.{md,yml,yaml,html,css,scss,js}] +[*.{md,yml,yaml,html,css,scss,js,cff}] indent_size = 2 diff --git a/CITATION.cff b/CITATION.cff index ade114fefc..4533e2f28c 100644 --- a/CITATION.cff +++ b/CITATION.cff @@ -1,56 +1,56 @@ cff-version: 1.2.0 message: "If you use `nf-core tools` in your work, please cite the `nf-core` publication" authors: + - family-names: Ewels + given-names: Philip + - family-names: Peltzer + given-names: Alexander + - family-names: Fillinger + given-names: Sven + - family-names: Patel + given-names: Harshil + - family-names: Alneberg + given-names: Johannes + - family-names: Wilm + given-names: Andreas + - family-names: Ulysse Garcia + given-names: Maxime + - family-names: Di Tommaso + given-names: Paolo + - family-names: Nahnsen + given-names: Sven +title: "The nf-core framework for community-curated bioinformatics pipelines." +version: 2.4.1 +doi: 10.1038/s41587-020-0439-x +date-released: 2022-05-16 +url: https://github.com/nf-core/tools +prefered-citation: + type: article + authors: - family-names: Ewels - given-names: Philip + given-names: Philip - family-names: Peltzer - given-names: Alexander + given-names: Alexander - family-names: Fillinger - given-names: Sven + given-names: Sven - family-names: Patel - given-names: Harshil + given-names: Harshil - family-names: Alneberg - given-names: Johannes + given-names: Johannes - family-names: Wilm - given-names: Andreas + given-names: Andreas - family-names: Ulysse Garcia - given-names: Maxime + given-names: Maxime - family-names: Di Tommaso - given-names: Paolo + given-names: Paolo - family-names: Nahnsen - given-names: Sven -title: "The nf-core framework for community-curated bioinformatics pipelines." -version: 2.4.1 -doi: 10.1038/s41587-020-0439-x -date-released: 2022-05-16 -url: https://github.com/nf-core/tools -prefered-citation: - type: article - authors: - - family-names: Ewels - given-names: Philip - - family-names: Peltzer - given-names: Alexander - - family-names: Fillinger - given-names: Sven - - family-names: Patel - given-names: Harshil - - family-names: Alneberg - given-names: Johannes - - family-names: Wilm - given-names: Andreas - - family-names: Ulysse Garcia - given-names: Maxime - - family-names: Di Tommaso - given-names: Paolo - - family-names: Nahnsen - given-names: Sven - doi: 10.1038/s41587-020-0439-x - journal: nature biotechnology - start: 276 - end: 278 - title: "The nf-core framework for community-curated bioinformatics pipelines." - issue: 3 - volume: 38 - year: 2020 - url: https://dx.doi.org/10.1038/s41587-020-0439-x + given-names: Sven + doi: 10.1038/s41587-020-0439-x + journal: nature biotechnology + start: 276 + end: 278 + title: "The nf-core framework for community-curated bioinformatics pipelines." + issue: 3 + volume: 38 + year: 2020 + url: https://dx.doi.org/10.1038/s41587-020-0439-x