R/getPcUrl.R

Defines functions getPcUrl

Documented in getPcUrl

#' Get base Pathway Commons URL
#' 
#' @return a string with base Pathway Commons URL
#' 
#' @details paxtoolsr will support versions Pathway Commons 5 and later. Old 
#' versions of the webservice will not be not be operational. Users can parse
#' older BioPAX outputs as an alternative. 
#' 
#' @examples 
#' url <- getPcUrl()
#' 
#' @concept paxtoolsr
#' @export
#' 
#' @importFrom httr url_success
getPcUrl <- function() {
    #url <- NULL
    
    baseUrl <- Sys.getenv("PC_URL")
    
    # TODO: Need to get old files from archives 
    #baseUrl <- "http://purl.org/pc2/"
    #curUrl <- paste0(baseUrl, getOption("pc.version"), "/")
    #tmpVersion <- as.numeric(getOption("pc.version")) + 1 
    #nextUrl <- paste0(baseUrl, tmpVersion, "/")
#     
#     if(url_success(curUrl)) {
#         url <- curUrl
#     } 
#     
#     if(url_success(nextUrl)) {
#         url <- nextUrl
#     }     
    
    url <- baseUrl
    
    if(is.null(url)) {
        #stop(paste("ERROR: Pathway Commons webservice cannot be reached. URLs tried:", curUrl, nextUrl))
        stop(paste("ERROR: Pathway Commons webservice cannot be reached. URLs tried:", url))
    }
    
    return(url)
}
cannin/paxtoolsr documentation built on Sept. 12, 2019, 1:43 p.m.