tests/testthat/test-process.input.R

In bedr: Genomic Region Processing using Tools Such as 'BEDTools', 'BEDOPS' and 'Tabix'

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test_that('check input processing i.e. converting to bed and sending to a tmp file', {
	if (check.binary('bedtools', verbose = TRUE)) {
		regions <- get.example.regions();
		regions$a <- bedr.sort.region(regions$a);

		# good region
		expect_equal(length(process.input(regions$a, verbose = FALSE)), 1);
		expect_equal(attributes(process.input(regions$a, verbose = FALSE)[[1]]), list(is.index = TRUE, is.file = FALSE));
	
		expect_equal(length(process.input(index2bed(regions$a), verbose = FALSE)), 1);
		expect_equal(attributes(process.input(index2bed(regions$a), verbose = FALSE)[[1]]), list(is.index = FALSE, is.file = FALSE));
	
		expect_equal(length(process.input('chrY:24052505-24052506', verbose = FALSE)), 1);
		expect_equal(attributes(process.input('chrY:24052505-24052506', verbose = FALSE)[[1]]), list(is.index = TRUE, is.file = FALSE));
		}
	})