diff --git a/README.md b/README.md index 722cccb..7f3932c 100644 --- a/README.md +++ b/README.md @@ -1,4 +1,4 @@ -# ![nf-core/taxprofiler](docs/images/nf-core-taxprofiler_logo_light.png#gh-light-mode-only) ![nf-core/taxprofiler](docs/images/nf-core-taxprofiler_logo_dark.png#gh-dark-mode-only) +# ![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) [![GitHub Actions CI Status](https://github.com/nf-core/taxprofiler/workflows/nf-core%20CI/badge.svg)](https://github.com/nf-core/taxprofiler/actions?query=workflow%3A%22nf-core+CI%22) [![GitHub Actions Linting Status](https://github.com/nf-core/taxprofiler/workflows/nf-core%20linting/badge.svg)](https://github.com/nf-core/taxprofiler/actions?query=workflow%3A%22nf-core+linting%22) diff --git a/assets/multiqc_config.yml b/assets/multiqc_config.yml index b0a0b1c..438fb42 100644 --- a/assets/multiqc_config.yml +++ b/assets/multiqc_config.yml @@ -9,3 +9,7 @@ report_section_order: order: -1001 export_plots: true + +custom_logo: "nf-core-taxprofiler_logo_custom_light.png" +custom_logo_url: https://nf-co.re/taxprofiler +custom_logo_title: "nf-core/taxprofiler" diff --git a/docs/images/nf-core-taxprofiler_icon.png b/docs/images/nf-core-taxprofiler_icon.png new file mode 100644 index 0000000..c639fb6 Binary files /dev/null and b/docs/images/nf-core-taxprofiler_icon.png differ diff --git a/docs/images/nf-core-taxprofiler_icon.svg b/docs/images/nf-core-taxprofiler_icon.svg new file mode 100644 index 0000000..24e615f --- /dev/null +++ b/docs/images/nf-core-taxprofiler_icon.svg @@ -0,0 +1,444 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/docs/images/nf-core-taxprofiler_logo_custom_dark.png b/docs/images/nf-core-taxprofiler_logo_custom_dark.png new file mode 100644 index 0000000..6b089fc Binary files /dev/null and b/docs/images/nf-core-taxprofiler_logo_custom_dark.png differ diff --git a/docs/images/nf-core-taxprofiler_logo_custom_dark.svg b/docs/images/nf-core-taxprofiler_logo_custom_dark.svg new file mode 100644 index 0000000..3d47b4c --- /dev/null +++ b/docs/images/nf-core-taxprofiler_logo_custom_dark.svg @@ -0,0 +1,2302 @@ + + + +taxfindertaxprofiler/ diff --git a/docs/images/nf-core-taxprofiler_logo_custom_light.png b/docs/images/nf-core-taxprofiler_logo_custom_light.png new file mode 100644 index 0000000..2dc85b8 Binary files /dev/null and b/docs/images/nf-core-taxprofiler_logo_custom_light.png differ diff --git a/docs/images/nf-core-taxprofiler_logo_custom_light.svg b/docs/images/nf-core-taxprofiler_logo_custom_light.svg new file mode 100644 index 0000000..dae1fbe --- /dev/null +++ b/docs/images/nf-core-taxprofiler_logo_custom_light.svg @@ -0,0 +1,2305 @@ + + + +taxfindertaxprofiler/ diff --git a/docs/images/taxprofiler_logo.svg b/docs/images/taxprofiler_logo.svg new file mode 100644 index 0000000..0cb901d --- /dev/null +++ b/docs/images/taxprofiler_logo.svg @@ -0,0 +1,3223 @@ + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + taxfinder + + + + + + + + + + + + taxprofiler + / + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + taxfinder + + + + + + + + + + + + taxprofiler + / + + + + + + + + + + + + + + + + + + + + + + + + + + + + diff --git a/workflows/taxprofiler.nf b/workflows/taxprofiler.nf index 1c48fd6..4b13ca8 100644 --- a/workflows/taxprofiler.nf +++ b/workflows/taxprofiler.nf @@ -88,6 +88,7 @@ def multiqc_report = [] workflow TAXPROFILER { ch_versions = Channel.empty() + ch_taxprofiler_logo = Channel.fromPath("$projectDir/docs/images/nf-core-taxprofiler_logo_custom_light.png") /* SUBWORKFLOW: Read in samplesheet, validate and stage input files @@ -225,6 +226,8 @@ workflow TAXPROFILER { ch_multiqc_files = ch_multiqc_files.mix(CUSTOM_DUMPSOFTWAREVERSIONS.out.mqc_yml.collect()) ch_multiqc_files = ch_multiqc_files.mix(FASTQC.out.zip.collect{it[1]}.ifEmpty([])) + ch_multiqc_files = ch_multiqc_files.mix(ch_taxprofiler_logo.ifEmpty([])) + if (params.perform_shortread_qc) { ch_multiqc_files = ch_multiqc_files.mix( SHORTREAD_PREPROCESSING.out.mqc.collect{it[1]}.ifEmpty([]) ) }