tests/testthat/test-is.merged.region.R

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

# The bedr package is copyright (c) 2014 Ontario Institute for Cancer Research (OICR)
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test_that('correctly identifies if regions are merged', {	
	if (check.binary('bedtools', verbose = TRUE)) {
		regions <- get.example.regions();
		regions.a.merged <- c('chr1:10-100',  'chr1:101-210', 'chr1:211-212', 'chr10:50-100', 'chr2:10-60', 'chr20:1-5');
		regions.a.merged.pc0 <- c('chr1:10-100',  'chr1:101-210', 'chr1:211-212', 'chr10:50-100', 'chr2:10-60', 'chr20:1-5');
	
		expect_equal(is.merged.region(regions$a), FALSE);
		expect_equal(is.merged.region(regions.a.merged), TRUE);
		}
	})