def test5(self):
cur_dir = os.path.dirname(os.path.abspath(__file__))
tmp_dir = tempfile.mkdtemp()
h_chrom_number = make_chrom_number_dict(cur_dir +
"/data/test1_svim.txt")
input_bedpe = cur_dir + "/data/test5_svim.txt"
answer_file = cur_dir + "/data/test5_svim_answer.txt"
output = tmp_dir + "/test5_svim.txt"
with open(output, "w") as hout:
simplify_svim(input_bedpe, hout, h_chrom_number)
def test4(self):
cur_dir = os.path.dirname(os.path.abspath(__file__))
tmp_dir = tempfile.mkdtemp()
h_chrom_number = make_chrom_number_dict(cur_dir +
"/data/test1_svim.txt")
input_bedpe = cur_dir + "/data/test4_svim.txt"
answer_file = cur_dir + "/data/test4_svim_answer.txt"
output = tmp_dir + "/test4_svim.txt"
with open(output, "w") as hout:
simplify_svim(input_bedpe, hout, h_chrom_number)
self.assertTrue(filecmp.cmp(output, answer_file, shallow=False))
shutil.rmtree(tmp_dir)
def test7(self):
cur_dir = os.path.dirname(os.path.abspath(__file__))
tmp_dir = tempfile.mkdtemp()
h_chrom_number = make_chrom_number_dict(cur_dir +
"/data/test1_svim.txt")
input_tumor_bedpe = cur_dir + "/data/test7_svim_tumor.txt"
input_simplify_control_bedpe = cur_dir + "/data/test7_svim_control.txt.gz"
answer_file = cur_dir + "/data/test7_svim_answer.txt"
output = tmp_dir + "/test7_svim.txt"
filt_clustered_rearrangement2(input_tumor_bedpe, output,
input_simplify_control_bedpe, 1, 3, 0, 0,
h_chrom_number)
self.assertTrue(filecmp.cmp(output, answer_file, shallow=False))
shutil.rmtree(tmp_dir)