Y25-077 - Maintain customer-requested number of repeats (SS)

[KatyTaylor]

This is necessary for sanger/limber#2164 to be delivered.

Acceptance Criteria

At point of cDNA prep submission (Sequencescape):

• Calculate the "allowance band" and save into a new field on request metadata (or somewhere else if makes more sense). Allowance band can be:
  • "Full allowance" (or "2 pool attempts, 2 counts")
  • "2 pool attempts, 1 count"
  • "1 pool attempt, 2 counts"
  • "1 pool attempt, 1 count"

"Allowance band" calculations:

There is already code in the submission upload that calculates whether there will be enough material for the "full allowance" (one of the bands) - added in story #4460.
See Calculations section of that story for how.

The calculations for the other bands are similar:

"Full allowance" = ( "Chip loading volume" * 2) + (2 * 10) + 5
"2 pool attempts, 1 count" = ( "Chip loading volume" * 2) + 10 + 5
"1 pool attempt, 2 counts" = "Chip loading volume" + (2 * 10) + 5
"1 pool attempt, 1 count" = "Chip loading volume" + 10 + 5

[BenTopping]

@KatyTaylor Would all existing libraries be considered "Full allowance" for the new metadata? Since we are checking for this new metadata in Limber we don't want to break existing/in progress runs so do we need to backfill the existing data with "Full allowance"?

[KatyTaylor]

@KatyTaylor Would all existing libraries be considered "Full allowance" for the new metadata? Since we are checking for this new metadata in Limber we don't want to break existing/in progress runs so do we need to backfill the existing data with "Full allowance"?

Hi @BenTopping , thanks for raising this. The only samples that have gone through this pipeline so far are:

• A test run that R&D did - using real samples - but this is finished and there's no need to backfill data for this, as this data is only used at the point of pooling (theoretically it could be used for reporting after the fact, but I don't think it will matter for this test run)
• A HumGen run - libraries made in Dec, still hasn't been sequenced (I think) - not relevant for this, because it used the GEMs plate entrypoint, so after pooling.

So no need, but good to have thought about.