From c3f1adf09b9c933494621355e27ef378a30f1a07 Mon Sep 17 00:00:00 2001 From: "James A. Fellows Yates" Date: Mon, 13 Mar 2023 12:13:17 +0100 Subject: [PATCH] First release Zenodo update --- README.md | 5 ++--- lib/WorkflowMain.groovy | 5 ++--- nextflow.config | 2 +- 3 files changed, 5 insertions(+), 7 deletions(-) diff --git a/README.md b/README.md index ba08835..29fcd31 100644 --- a/README.md +++ b/README.md @@ -1,6 +1,6 @@ # ![nf-core/taxprofiler](docs/images/nf-core-taxprofiler_logo_custom_light.png#gh-light-mode-only) ![nf-core/taxprofiler](docs/images/nf-core-taxprofiler_logo_custom_dark.png#gh-dark-mode-only) -[![AWS CI](https://img.shields.io/badge/CI%20tests-full%20size-FF9900?labelColor=000000&logo=Amazon%20AWS)](https://nf-co.re/taxprofiler/results)[![Cite with Zenodo](http://img.shields.io/badge/DOI-10.5281/zenodo.XXXXXXX-1073c8?labelColor=000000)](https://doi.org/10.5281/zenodo.XXXXXXX) +[![AWS CI](https://img.shields.io/badge/CI%20tests-full%20size-FF9900?labelColor=000000&logo=Amazon%20AWS)](https://nf-co.re/taxprofiler/results)[![Cite with Zenodo](http://img.shields.io/badge/DOI-10.5281/zenodo.7728364-1073c8?labelColor=000000)](https://doi.org/10.5281/zenodo.7728364) [![Nextflow](https://img.shields.io/badge/nextflow%20DSL2-%E2%89%A522.10.1-23aa62.svg)](https://www.nextflow.io/) [![run with conda](http://img.shields.io/badge/run%20with-conda-3EB049?labelColor=000000&logo=anaconda)](https://docs.conda.io/en/latest/) @@ -98,8 +98,7 @@ For further information or help, don't hesitate to get in touch on the [Slack `# ## Citations - - +If you use nf-core/taxprofiler for your analysis, please cite it using the following doi: [10.5281/zenodo.7728364](https://doi.org/10.5281/zenodo.7728364) An extensive list of references for the tools used by the pipeline can be found in the [`CITATIONS.md`](CITATIONS.md) file. diff --git a/lib/WorkflowMain.groovy b/lib/WorkflowMain.groovy index b343e83..24511f6 100755 --- a/lib/WorkflowMain.groovy +++ b/lib/WorkflowMain.groovy @@ -9,9 +9,8 @@ class WorkflowMain { // public static String citation(workflow) { return "If you use ${workflow.manifest.name} for your analysis please cite:\n\n" + - // TODO nf-core: Add Zenodo DOI for pipeline after first release - //"* The pipeline\n" + - //" https://doi.org/10.5281/zenodo.XXXXXXX\n\n" + + "* The pipeline\n" + + " https://doi.org/10.5281/zenodo.7728364\n\n" + '* The nf-core framework\n' + ' https://doi.org/10.1038/s41587-020-0439-x\n\n' + '* Software dependencies\n' + diff --git a/nextflow.config b/nextflow.config index 80038ea..3d745e4 100644 --- a/nextflow.config +++ b/nextflow.config @@ -306,7 +306,7 @@ manifest { mainScript = 'main.nf' nextflowVersion = '!>=22.10.1' version = '1.0.0' - doi = '' + doi = '10.5281/zenodo.7728364' } // Load modules.config for DSL2 module specific options