sc.bacello_dbconn {sc.bacello.db}R Documentation

Collect information about the package annotation DB

Description

Some convenience functions for getting a connection object to (or collecting information about) the package annotation DB.

Usage

  sc.bacello_dbconn()
  sc.bacello_dbfile()
  sc.bacello_dbschema(file="", show.indices=FALSE)
  sc.bacello_dbInfo()

Arguments

file A connection, or a character string naming the file to print to (see the file argument of the cat function for the details).
show.indices The CREATE INDEX statements are not shown by default. Use show.indices=TRUE to get them.

Details

sc.bacello_dbconn returns a connection object to the package annotation DB. IMPORTANT: Don't call dbDisconnect on the connection object returned by sc.bacello_dbconn or you will break all the AnnDbObj objects defined in this package!

sc.bacello_dbfile returns the path (character string) to the package annotation DB (this is an SQLite file).

sc.bacello_dbschema prints the schema definition of the package annotation DB.

sc.bacello_dbInfo prints other information about the package annotation DB.

Examples

  ## Show the first three rows.
  dbGetQuery(sc.bacello_dbconn(), "select * from bacello limit 3")

  ## The connection object returned by sc.bacello_dbconn() was created with:
  dbConnect(SQLite(), dbname=sc.bacello_dbfile(), cache_size=64000, synchronous=0)

  sc.bacello_dbschema()

  sc.bacello_dbInfo()
[Package sc.bacello.db version 1.1.0 Index]