inst/testScripts/setup/01a.downloadAllAnnotationData.R

In HenrikBengtsson/aroma.affymetrix: Analysis of Large Affymetrix Microarray Data Sets

library("R.utils")
verbose <- Arguments$getVerbose(-8, timestamp=TRUE)


verbose && enter(verbose, "Downloading annotation data for all tests")

verbose && enter(verbose, "Scanning tests")
path <- system.file("testScripts", package="aroma.affymetrix")
verbose && cat(verbose, "Path to testScripts: ", path)

pattern <- "downloadAnnotationData.R$"
pathnames <- list.files(path=path, pattern=pattern, full.names=TRUE, recursive=TRUE)

nbrOfTestSets <- length(pathnames)
for (kk in seq_len(nbrOfTestSets)) {
  pathname <- pathnames[kk]
  dropPattern <- sprintf("^%s/", path)
  testSet <- gsub(dropPattern, "", dirname(pathname))
  verbose && enter(verbose, sprintf("Test set #%s ('%s') of %s", kk, testSet, nbrOfTestSets))
  sourceTo(pathname, envir=new.env(), echo=as.logical(verbose))
  verbose && exit(verbose)
} # for (kk ...)

verbose && exit(verbose)


verbose && exit(verbose)