Opened 6 years ago

Closed 6 years ago

#485 closed task (fixed)

Select libraries for pooling

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v2.12
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

This is a wizard in the pooling and flow cell processing group of wizards (#478). In the first version, the wizard should start with selecting a Library bioplate and then generate the pooled library items from it.

In a later version this wizard must support free selection of libraries to create new pools since the sequencing may fail in some cases.

Change History (8)

comment:1 Changed 6 years ago by Nicklas Nordborg

(In [1934]) References #485: Select libraries for pooling

Very preliminary wizard for creating pooled library items. Expect it to change a lot in the future. For safety reasons, it will not save any information in the database. It would cause incorrect calculations in the (also preliminary) lab protocols for the pooling.

comment:2 Changed 6 years ago by Nicklas Nordborg

(In [1952]) References #485: Select libraries for pooling

Calculate volumes in the wizard instead of in the servlet.

comment:3 Changed 6 years ago by Nicklas Nordborg

(In [1959]) References #479 and #485. Re-worked the process of selecing libraries for pooling. The first step will now create the PooledLibrary item and link to the used libraries with quantities. All calculations are base on pooling 5µl/2nM of each library. If a larger mix is required for a library dis is registed as a special item with .dil as a suffix. All items are registered without a creation date to indicate that it has yet to be done in the lab.

The lab protocol will use as much information as possible from the database.

Lots of error handling is still needed, and special cases are probably not well supported yet.

comment:4 Changed 6 years ago by Nicklas Nordborg

Status: newassigned

comment:5 Changed 6 years ago by Nicklas Nordborg

(In [1972]) References #485: Select libraries for pooling

Hide first section when moving to the second step.

comment:6 Changed 6 years ago by Nicklas Nordborg

(In [1975]) References #485 and #479. Only use 1 decimal in lab protocols for pooling. Use the rounded values when calculating molarity and other values for the pool.

comment:7 Changed 6 years ago by Nicklas Nordborg

(In [1987]) References #485: Select libraries for pooling

Added new functionality:

  • Excluding libraries from the pool. The parent RNA is flagged with ExcludedFromPool and added to the Flagged RNA biomaterial list. The library is flagged with ExcludedFromPool.
  • Manually flag the parent RNA while still including the library in the pool.

  • Add a comment to the library which will be displayed in the lab protocols.

comment:8 Changed 6 years ago by Nicklas Nordborg

Resolution: fixed
Status: assignedclosed
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