After stably running on Rails 5.2 for about 2 years and living on Bootstrap 3 for a long time, ggKbase is long overdue for getting up to speed with the latest code base both on the server end as well as on the front end. So, we take the plunge and went for this major…
Genome Summary, an important tool in ggKbase, has been significantly upgraded in its user interface (UI), user experience (UX) and system performance. For the UI/UX improvement, the Project Selection page has been removed. Instead there is now a Project Selection menu, similar to the Organism Selection and List Selection menus you are already familiar with. This change…
ggKbase has always allowed users to add notes to a feature or a contig. In addition to adding notes to a feature, users can also manually add a new annotation to a feature. With the integration with the Elasticsearch system and the deployment of the percolation feature in Elasticsearch, we can now analyze the newly added…
Today’s upgrade is aimed at improving the overall security (through a user permissions system overhaul) and stability (numerous bug fixes) of the site and will also facilitate future development. Please let us know if you find any problems.
One of the most used features in ggKbase is to generate and download project and organism files, such as fasta files for contigs or proteins etc. The generation of these download files is handled by several background job systems. However, ggKbase can run into problems when the background job queue system gets swamped with long-running jobs, such as…
As a step toward upgrading the core Rails engine that powers ggKbase, we just upgraded the Bootstrap templating library that renders the look-and-feel for ggKbase. Some of the noticeable changes include: the buttons look more flat (monochrome), the colors are a bit more vivid, the fonts are slightly larger, and the form boxes are slightly larger as…
Download files for organisms are now titled after their names rather than their system-generated codes. The bin name inside the files is also based on the organism name and no longer on the code.
To improve the accessibility to projects, help/instructions, and what is the latest with ggKbase for our users, I have brought back the Explore Projects button and added two more new colorful buttons: New to ggKbase? and News & Updates right on the home page after the Search banner. We hope they will catch your eyes and make…
The search functionality is now made available on ggKbase homepage, so that users can dig into the data in ggKbase right when they arrive here, making the data more discoverable.