Opened 3 years ago

Closed 3 years ago

#1250 closed enhancement (fixed)

The installation wizard should check/install annotation types needed for SSP

Reported by: Nicklas Nordborg Owned by: Nicklas Nordborg
Priority: major Milestone: Reggie v4.27.1
Component: net.sf.basedb.reggie Keywords:
Cc:

Description

Almost all information that we need is possible to get automatically. The name is specified in reggie-config.xml. The annotations are always STRING annotations for StringTie RAWBIOASSAY items. The enumeration of possible result classes can be found in the RData files. It should not be too hard to extract what we need from them.

Change History (3)

comment:1 Changed 3 years ago by Nicklas Nordborg

In 5955:

References #1250: The installation wizard should check/install annotation types needed for SSP

Added getInfo command to the runSSP.R script which simply print out all possible result classes for the given models.

The installation wizard will call this and then check if the annotations types exists or not. Some extra error handling for R problems are needed. It should now be possible to get information about missing R libraries etc. directly from the installation wizard.

comment:2 Changed 3 years ago by Nicklas Nordborg

In 5957:

References #1250: The installation wizard should check/install annotation types needed for SSP

Added a 'description' attribute to <model> entries in reggie-config.xml so that the annotation types that are created get a description.

comment:3 Changed 3 years ago by Nicklas Nordborg

Resolution: → fixed
Status: new → closed
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