def test_rnasnp_built_cpd(self):
"""
check the performance after a filter added
:return:
"""
snp_file_name = "./snp_line.rnasnp"
rnasnp_list, rnasnp_list_head = RNAsnp.rnasnp_extractor(snp_file_name)
seq_rebuilt = RNAsnp.rebuild_seq(snp_file_name)
# rnasnp_built_cpd(list_rnasnp, head_list_rnasnp, sequence_string, list_codon=gc.codon_list):
codon_pair = RNAsnp.rnasnp_built_cpd(rnasnp_list, rnasnp_list_head, seq_rebuilt)
for key1 in codon_pair.keys():
if codon_pair[key1]:
print key1, str(codon_pair[key1])
def test_rnasnp_built_cpd(self):
"""
check the performance after a filter added
:return:
"""
snp_file_name = "./snp_line.rnasnp"
rnasnp_list, rnasnp_list_head = RNAsnp.rnasnp_extractor(snp_file_name)
seq_rebuilt = RNAsnp.rebuild_seq(snp_file_name)
# rnasnp_built_cpd(list_rnasnp, head_list_rnasnp, sequence_string, list_codon=gc.codon_list):
codon_pair = RNAsnp.rnasnp_built_cpd(rnasnp_list, rnasnp_list_head,
seq_rebuilt)
for key1 in codon_pair.keys():
if codon_pair[key1]:
print key1, str(codon_pair[key1])
def test_get_all_from_one_file(self):
filename_rnasnp = "rnasnp4test.rnasnp"
rnasnp_content, rnasnp_head = RNAsnp.rnasnp_extractor(filename_rnasnp)
self.assertEqual(["A1G"], RNAsnp.get_snp_list(rnasnp_content))
def test_get_all_from_one_file(self):
filename_rnasnp = "rnasnp4test.rnasnp"
rnasnp_content,rnasnp_head = RNAsnp.rnasnp_extractor(filename_rnasnp)
self.assertEqual(["A1G"], RNAsnp.get_snp_list(rnasnp_content))
