annotate KeggConn.R @ 3:f61ce21ed17c draft

planemo upload for repository https://github.com/workflow4metabolomics/lcmsmatching.git commit 476a081c0da66822f4e77070f5ce59d9f14511f4-dirty

#####################
# CLASS DECLARATION #
#####################

KeggConn <- methods::setRefClass("KeggConn", contains = "RemotedbConn")

##########################
# GET ENTRY CONTENT TYPE #
##########################

KeggConn$methods( getEntryContentType = function() {
	return(BIODB.TXT)
})

#####################
# GET ENTRY CONTENT #
#####################

KeggConn$methods( getEntryContent = function(id) {

	# Initialize return values
	content <- rep(NA_character_, length(id))

	# Request
	content <- vapply(id, function(x) .self$.get.url(get.entry.url(BIODB.KEGG, x, content.type = BIODB.TXT)), FUN.VALUE = '')

	return(content)
})

################
# CREATE ENTRY #
################

KeggConn$methods( createEntry = function(content, drop = TRUE) {
	return(createKeggEntryFromTxt(content, drop = drop))
})