R/zzz.R

In kozo2/org.Slycopersicum.eg.db: Genome wide annotation for Solanum lycopersicum

datacache <- new.env(hash=TRUE, parent=emptyenv())

org.Slycopersicum.eg <- function() showQCData("org.Slycopersicum.eg", datacache)
org.Slycopersicum.eg_dbconn <- function() dbconn(datacache)
org.Slycopersicum.eg_dbfile <- function() dbfile(datacache)
org.Slycopersicum.eg_dbschema <- function(file="", show.indices=FALSE) dbschema(datacache, file=file, show.indices=show.indices)
org.Slycopersicum.eg_dbInfo <- function() dbInfo(datacache)

org.Slycopersicum.egORGANISM <- "Solanum lycopersicum"

.onLoad <- function(libname, pkgname)
{
    ## Connect to the SQLite DB
    dbfile <- system.file("extdata", "org.Slycopersicum.eg.sqlite", package=pkgname, lib.loc=libname)
    assign("dbfile", dbfile, envir=datacache)
    dbconn <- dbFileConnect(dbfile)
    assign("dbconn", dbconn, envir=datacache)

    ## Create the OrgDb object
    sPkgname <- sub(".db$","",pkgname)
    txdb <- loadDb(system.file("extdata", paste(sPkgname,
      ".sqlite",sep=""), package=pkgname, lib.loc=libname),
      packageName=pkgname)
    dbNewname <- AnnotationDbi:::dbObjectName(pkgname,"OrgDb")
    ns <- asNamespace(pkgname)
    assign(dbNewname, txdb, envir=ns)
    namespaceExport(ns, dbNewname)
     
    ann_objs <- createAnnObjs.SOLANUM_DB("org.Slycopersicum.eg", "Solanum", dbconn, datacache)
      
    mergeToNamespaceAndExport(ann_objs, pkgname)
    #packageStartupMessage(AnnotationDbi:::annoStartupMessages("org.Slycopersicum.eg.db"))
}

.onUnload <- function(libpath)
{
    dbFileDisconnect(org.Slycopersicum.eg_dbconn())
}