Closed KatyTaylor closed 2 months ago
Mike Quail had already inserted the relevant Tags and Tag Groups into production when I started this story, but here's a script for inserting them in case useful (used in UAT to bring that up to date, for instance). Pulled this data from training/snapshot database.
Script to run in order to insert the new Library Type and link it to the correct Request Type:
Spent some time investigating how we would make it possible to scan a tag plate instead of selecting the tag groups manually in Limber.
Decided not to implement this feature for now as Matt Jones isn't sure if it would be useful or not. They don't currently have this functionality for the existing Chromium pipelines and tag plates. The reason it is useful for the high throughput pipelines is that they use the entire tag plate and transfer the library into the tag plate itself, so the tag plate then becomes the main plate going through the pipeline and needs to be carefully tracked. With the Chromium plates, they only use some of the tags at a time and come back to it several times. Also, the IDT plates have some QC checking done on them at Sanger, whereas the Chromium ones are QC checked already when they arrive on site, so we don't need to track that.
Summary of stuff learned about Sequencescape & Gatekeeper:
User story As an SSR user I would like the Chromium Visium library type to be available in Sequencescape
Who the primary contacts are for this story
Acceptance criteria To be considered successful the solution must allow: 1 - When creating a submission, 'Chromium Visium' library type should be available in the list when I select any submission templates starting with 'Limber-bespoke - PCR' (apart from ones that say PCR Free) - this corresponds to the 'Limber PCR Bespoke' request type 2 - I should be able to process the LBB Cherrypick plates that have been through the above submission in Limber, using the existing 'PCR Bespoke' pipeline 3 - I should be able to choose the 'VisiumUDI_i7' and 'VisiumUDI_i5' tag groups (already created by Mike in production) while processing in Limber 4 - Ideally I can also scan a tag plate instead of selecting the tag groups manually (the tag plates will have to be created in Gatekeeper