def test_stat(self):
input_file = os.path.join(self.test_folder, "input_file")
output_file = os.path.join(self.test_folder, "output_file")
gen_file(input_file, self.example.operon)
so.stat(input_file, output_file)
datas = import_data(output_file)
for data in datas:
if "the number of operons which have sub-operons and " in data:
self.assertEqual(
data,
"\tthe number of operons which have sub-operons and start with tss = 1 (1.0)"
)
if "the number of operons which have sub-operons = " in data:
self.assertEqual(
data,
"\tthe number of operons which have sub-operons = 1 (1.0)")
if "the number of operons which start with tss = " in data:
self.assertEqual(
data,
"\tthe number of operons which start with tss = 1 (1.0)")
if "no associated with CDS: " in data:
self.assertEqual(data, "\tno associated with CDS: 0 (0.0)")
if "monocistronic: " in data:
self.assertEqual(data, "\tmonocistronic: 0 (0.0)")
if "polycistronic: " in data:
self.assertEqual(data, "\tpolycistronic: 1 (1.0)")
def _stat(self, table_path, stat_folder, log):
log.write("Running stat_operon.py to do statistics.\n")
for table in os.listdir(table_path):
if table.endswith("_operon.csv"):
filename = "_".join(["stat", table])
out_stat = os.path.join(stat_folder, filename)
stat(os.path.join(table_path, table), out_stat)
log.write("\t" + out_stat + "\n")
def _stat(self, table_path, stat_folder, log):
log.write("Running stat_operon.py to do statistics.\n")
for table in os.listdir(table_path):
if table.endswith("_operon.csv"):
filename = "_".join(["stat", table])
out_stat = os.path.join(stat_folder, filename)
stat(os.path.join(table_path, table), out_stat)
log.write("\t" + out_stat + "\n")
def test_stat(self):
input_file = os.path.join(self.test_folder, "input_file")
output_file = os.path.join(self.test_folder, "output_file")
gen_file(input_file, self.example.operon)
so.stat(input_file, output_file)
datas = import_data(output_file)
for data in datas:
if "the number of operons which have sub-operons and " in data:
self.assertEqual(data, "\tthe number of operons which have sub-operons and start with tss = 1 (1.0)")
if "the number of operons which have sub-operons = " in data:
self.assertEqual(data, "\tthe number of operons which have sub-operons = 1 (1.0)")
if "the number of operons which start with tss = " in data:
self.assertEqual(data, "\tthe number of operons which start with tss = 1 (1.0)")
if "no associated with CDS: " in data:
self.assertEqual(data, "\tno associated with CDS: 0 (0.0)")
if "monocistronic: " in data:
self.assertEqual(data, "\tmonocistronic: 0 (0.0)")
if "polycistronic: " in data:
self.assertEqual(data, "\tpolycistronic: 1 (1.0)")
def _stat(self, table_path, stat_folder):
for table in os.listdir(table_path):
if table.startswith("operon_") and table.endswith(".csv"):
filename = "_".join(["stat", table])
out_stat = os.path.join(stat_folder, filename)
stat(os.path.join(table_path, table), out_stat)
def _stat(self, table_path, stat_folder):
for table in os.listdir(table_path):
if table.startswith("operon_") and table.endswith(".csv"):
filename = "_".join(["stat", table])
out_stat = os.path.join(stat_folder, filename)
stat(os.path.join(table_path, table), out_stat)