diff --git a/CNAME b/CNAME new file mode 100644 index 00000000..b0279a97 --- /dev/null +++ b/CNAME @@ -0,0 +1 @@ +status.covid19.climb.ac.uk \ No newline at end of file diff --git a/_config.yml b/_config.yml new file mode 100644 index 00000000..ff6eb973 --- /dev/null +++ b/_config.yml @@ -0,0 +1,4 @@ +title: CLIMB-COVID Status +theme: jekyll-theme-minimal +logo: assets/climb-covid-patch.png +logo_alt: CLIMB-COVID Mission Patch diff --git a/_includes/summary.html b/_includes/summary.html new file mode 100644 index 00000000..8b7e6bfc --- /dev/null +++ b/_includes/summary.html @@ -0,0 +1,16 @@ +

Summary

+ +281 +

Genomes today

+ +3453296 +

Genomes total

+ +
+ +

Figures

+ +Service status by date
+Genomes by published date
+Genomes by collection date
+Cumulative processed genomes
diff --git a/_layouts/default.html b/_layouts/default.html new file mode 100644 index 00000000..49c14e7a --- /dev/null +++ b/_layouts/default.html @@ -0,0 +1,57 @@ + + + + + + + +{% seo %} + + + + +
+
+ {% if site.logo %} + {{site.logo_alt}} + {% endif %} + + {% include summary.html %} +
+ + {% if site.github.is_project_page %} +

View the Project on GitHub {{ site.github.repository_nwo }}

+ {% endif %} + + {% if site.github.is_user_page %} +

View My GitHub Profile

+ {% endif %} + +
+
+ + {{ content }} + +
+ +
+ + {% if site.google_analytics %} + + {% endif %} + + diff --git a/assets/climb-covid-patch.png b/assets/climb-covid-patch.png new file mode 100644 index 00000000..847a8bae Binary files /dev/null and b/assets/climb-covid-patch.png differ diff --git a/assets/cog-uk.png b/assets/cog-uk.png new file mode 100644 index 00000000..3a2c0fcd Binary files /dev/null and b/assets/cog-uk.png differ diff --git a/assets/css/style.scss b/assets/css/style.scss new file mode 100644 index 00000000..9431768f --- /dev/null +++ b/assets/css/style.scss @@ -0,0 +1,45 @@ +--- +--- + +$header-bg-color: #8B7968; +$section-headings-color: #8B7968; + +@import 'jekyll-theme-minimal'; + +.wrapper { + width: 1200px; + margin: 0 auto; +} + +header { + width: 20%; + float: left; + position: inherit; + -webkit-font-smoothing: subpixel-antialiased; +} + +section { + width: 75%; + float: right; + padding-bottom: 50px; +} + +footer { + float: left; +} + +@media print, screen and (max-width: 480px) { + header { + width: auto; + } +} +@media print, screen and (max-width: 720px) { + header { + width: auto; + } +} +@media print, screen and (max-width: 960px) { + header { + width: auto; + } +} diff --git a/assets/touch b/assets/touch new file mode 100644 index 00000000..8b137891 --- /dev/null +++ b/assets/touch @@ -0,0 +1 @@ + diff --git a/graphs/fig1.assembled.png b/graphs/fig1.assembled.png new file mode 100644 index 00000000..ab1340ce Binary files /dev/null and b/graphs/fig1.assembled.png differ diff --git a/graphs/fig1b.png b/graphs/fig1b.png new file mode 100644 index 00000000..927bcc67 Binary files /dev/null and b/graphs/fig1b.png differ diff --git a/graphs/fig1c.png b/graphs/fig1c.png new file mode 100644 index 00000000..dc20c022 Binary files /dev/null and b/graphs/fig1c.png differ diff --git a/graphs/fig2.png b/graphs/fig2.png new file mode 100644 index 00000000..bf1a06fe Binary files /dev/null and b/graphs/fig2.png differ diff --git a/graphs/s1.png b/graphs/s1.png new file mode 100644 index 00000000..17f53c9f Binary files /dev/null and b/graphs/s1.png differ diff --git a/index.md b/index.md new file mode 100644 index 00000000..7b91aa1b --- /dev/null +++ b/index.md @@ -0,0 +1,24 @@ +
+

CLIMB-COVID Status Report

+

2023-12-19

+
+ +*** + +## [Service status by date](#service-status) + + + +## [Processed genomes by published date](#daily-genomes) + + + + +## [Processed genomes by sample collection date](#collection-genomes) + + + + +## [Cumulative processed genomes](#total-genomes) + + diff --git a/report_date b/report_date new file mode 100644 index 00000000..6f9b7293 --- /dev/null +++ b/report_date @@ -0,0 +1 @@ +2023-12-19