def test1_05_sample_noheader_id_csv_nosummary(self):
name = sys._getframe().f_code.co_name
subprocess.check_call('python paplot mutation "%s/noheader_id/SAMPLE*.csv" %s %s -c %s/noheader_id/csv_nosummary.cfg' % (self.dataset, self.ALT, name, self.dataset), shell=True)
ref = test_utils.load_text(self.REF + "test1_01_sample_header_id_csv_nosummary/data_mutation.js")
alt = test_utils.load_text(self.ALT + name + "/data_mutation.js")
self.assertEqual(ref, alt)
ref = test_utils.load_html(self.REF + "test1_01_sample_header_id_csv_nosummary/graph_mutation.html")
alt = test_utils.load_html(self.ALT + name + "/graph_mutation.html")
self.assertEqual(ref, alt)
def test1_02_stack(self):
name = sys._getframe().f_code.co_name
subprocess.check_call(
'python paplot signature %s/stack/data2.json %s %s -c %s/stack/paplot.cfg'
% (self.dataset, self.ALT, name, self.dataset),
shell=True)
ref = test_utils.load_text(self.REF + name + "/data_signature2.js")
alt = test_utils.load_text(self.ALT + name + "/data_signature2.js")
self.assertEqual(ref, alt)
ref = test_utils.load_html(self.REF + name + "/graph_signature2.html")
alt = test_utils.load_html(self.ALT + name + "/graph_signature2.html")
self.assertEqual(ref, alt)
def test1_04_merge_header_id_tsv(self):
name = sys._getframe().f_code.co_name
subprocess.check_call(
'python paplot ca "%s/header_id/merge.tsv" %s %s -c %s/header_id/tsv.cfg'
% (self.dataset, self.ALT, name, self.dataset),
shell=True)
ref = test_utils.load_text(self.REF + "test1_01_sample_header_id_csv" +
"/data_ca.js")
alt = test_utils.load_text(self.ALT + name + "/data_ca.js")
self.assertEqual(ref, alt)
ref = test_utils.load_html(
self.REF + "test1_01_sample_header_id_csv/graph_ca.html")
alt = test_utils.load_html(self.ALT + name + "/graph_ca.html")
self.assertEqual(ref, alt)
