diff ChemSpiderConn.R @ 0:e66bb061af06 draft

planemo upload for repository https://github.com/workflow4metabolomics/lcmsmatching.git commit 3529b25417f8e1a5836474c9adec4b696d35099d-dirty

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ChemSpiderConn.R	Tue Jul 12 12:02:37 2016 -0400
@@ -0,0 +1,60 @@
+if ( ! exists('ChemspiderConn')) { # Do not load again if already loaded
+
+	source('BiodbConn.R')
+	source('ChemspiderCompound.R')
+	
+	#####################
+	# CLASS DECLARATION #
+	#####################
+	
+	ChemspiderConn <- setRefClass("ChemspiderConn", contains = "BiodbConn")
+
+	##########################
+	# GET ENTRY CONTENT TYPE #
+	##########################
+
+	ChemspiderConn$methods( getEntryContentType = function(type) {
+		return(RBIODB.HTML)
+	})
+
+	#####################
+	# GET ENTRY CONTENT #
+	#####################
+	
+	ChemspiderConn$methods( getEntryContent = function(type, id) {
+
+		if (type == RBIODB.COMPOUND) {
+
+			# Initialize return values
+			content <- rep(NA_character_, length(id))
+
+			# Request
+			content <- vapply(id, function(x) .self$.scheduler$getUrl(get.entry.url(RBIODB.CHEMSPIDER, x)), FUN.VALUE = '')
+
+			return(content)
+		}
+
+		return(NULL)
+	})
+	
+	################
+	# CREATE ENTRY #
+	################
+	
+	ChemspiderConn$methods( createEntry = function(type, content, drop = TRUE) {
+		return(if (type == RBIODB.COMPOUND) createChemspiderCompoundFromHtml(content, drop = drop) else NULL)
+	})
+
+	############################
+	# GET CHEMSPIDER IMAGE URL #
+	############################
+	
+	get.chemspider.image.url <- function(id) {
+	
+		url <- paste0('http://www.chemspider.com/ImagesHandler.ashx?w=300&h=300&id=', id)
+
+		return(url)
+	}
+	
+} # end of load safe guard
+