Opened 21 hours ago

Last modified 16 hours ago

#1657 new enhancement

The RNAQC "Create aliqouts" wizard should use an item list with RNA items as input

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v5.6.3
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

This wizard is currently checking for RNA items that is missing a RNAQC child item.

The ABIM and Hered projects (see #1632) include some RNA that where RNAQC was never performed (eg. xxx.r2 items) and now they are showing up in the "Create aliquots" wizard but there is no plan to run RNAQC on those items at the moment. In this case we can't rely on setting AutoProcessing=Disable on the RNA since that is would interfere with pre-normalization workflow.

The best solution is probably to have an item list where RNA items are added to after extraction and removed when the RNAQC aliquots have been created.

Change History (4)

comment:1 by Nicklas Nordborg, 17 hours ago

Summary: The RNAQC "Create aliqouts" wizard should use an item list or RNA items as inputThe RNAQC "Create aliqouts" wizard should use an item list with RNA items as input

comment:2 by Nicklas Nordborg, 16 hours ago

In [8058]:

References #1657: The RNAQC "Create aliqouts" wizard should use an item list or RNA items as input

Created a new item list: RNAQC pipeline. The counter on the index page has been updated.

comment:3 by Nicklas Nordborg, 16 hours ago

In 8059:

References #1657: The RNAQC "Create aliqouts" wizard should use an item list or RNA items as input

The wizard now select items from the item list and remove them once the aliquots have been registered.

comment:4 by Nicklas Nordborg, 16 hours ago

In 8060:

References #1657: The RNAQC "Create aliqouts" wizard should use an item list or RNA items as input

RNA items are now added to the RNAQC pipeline by the extraction registration wizard.

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