def test_kgml2Json_2(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/cit00710.xml")
result = simpleKGML1.getCompoundsGraph()
self.assertEqual(
result, {
'C00011': ['C00036', 'C00197', 'C00036'],
'C00074': ['C00036', 'C00036'],
'C00036': ['C00149', 'C00149', 'C00149', 'C00011', 'C00074'],
'C00149': ['C00011', 'C00022', 'C00022', 'C00022'],
'C00049': ['C00036', 'C00036'],
'C00022': ['C00041', 'C00074', 'C00074'],
'C00111': ['C00447'],
'C00279': ['C00447'],
'C00447': ['C05382'],
'C05382': ['C00117', 'C00231'],
'C00118':
['C00117', 'C00231', 'C00354', 'C00111', 'C00279', 'C00231'],
'C00117': ['C00199'],
'C00199': ['C01182'],
'C00231': ['C00199'],
'C00354': ['C00085'],
'C00236': ['C00118', 'C00118'],
'C00197': ['C00236'],
'C00001': ['C00197'],
'C01182': ['C00197'],
'C00085': ['C00279', 'C00231'],
'C00041': ['C00022']
})
print("--- Test End ---\n")
def test_kgml2Json_3(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/hsa00260.xml")
result = simpleKGML1.getCompoundsGraph()
self.assertEqual(
result, {
'C00065': [
'C00740', 'C00037', 'C00168', 'C02291', 'C00022', 'C00022',
'C00168', 'C00097'
],
'C00114': ['C00576'],
'C00576': ['C00719'],
'C00719': ['C01026'],
'C00581': ['C00300'],
'C00197': ['C03232'],
'C01026': ['C00213'],
'C02291': ['C00097'],
'C00037': [
'C00581', 'C00065', 'C00048', 'C03508', 'C00011', 'C01242',
'C00430', 'C00213', 'C00048'
],
'C01005': ['C03232', 'C00065'],
'C00213': ['C00037', 'C00037'],
'C00143': ['C00065'],
'C00188': ['C00109'],
'C02051': ['C00011', 'C01242'],
'C01888': ['C00546', 'C00546'],
'C00258': ['C00168', 'C00631'],
'C00101': ['C00014', 'C00143', 'C02972'],
'C01242': ['C00014', 'C00143', 'C02972'],
'C02972': ['C02051'],
'C00631': ['C00197']
})
print("--- Test End ---\n")
def test_kgml2Json_5(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/hsa00630.xml")
result = simpleKGML1.getCompoundsGraph()
self.assertEqual(
result, {
'C00168': ['C01146', 'C00258', 'C00258'],
'C00417': ['C00311', 'C00158'],
'C01127': ['C00048', 'C00022'],
'C06049': ['C00058'],
'C00160': ['C00048', 'C00048'],
'C00158': ['C00036'],
'C00149': ['C00036'],
'C00988': ['C00160'],
'C00024': ['C00332'],
'C00683': ['C01213'],
'C00100': ['C00683'],
'C01213': ['C00091'],
'C00048': ['C00037', 'C00168'],
'C00065': ['C00037', 'C00168'],
'C00037': ['C00065', 'C00014'],
'C00027': ['C00007'],
'C00025': ['C00064'],
'C18026': ['C20238'],
'C00258': ['C00631'],
'C00033': ['C00024']
})
print("--- Test End ---\n")
def test_kgml2Json_4(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/hsa00750.xml")
result = simpleKGML1.getCompoundsGraph()
self.assertEqual(
result, {
'C06055': ['C06054'],
'C00627': ['C00018', 'C00314'],
'C00647': ['C00018', 'C00534'],
'C00314': ['C00627', 'C00250'],
'C00018': ['C00250'],
'C00250': ['C00018', 'C00847'],
'C00534': ['C00647', 'C00250']
})
print("--- Test End ---\n")
def test_kgml2Json_1(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/ko00010.xml")
result = simpleKGML1.getCompoundsGraph()
self.assertEqual(
result, {
'C00084': ['C00033', 'C00033', 'C00033'],
'C00024': ['C00033', 'C16255', 'C00022'],
'C05125': ['C00084', 'C00068', 'C16255'],
'C00469':
['C00084', 'C00084', 'C00084', 'C00084', 'C00084', 'C00084'],
'C00068': ['C05125', 'C05125'],
'C00022': ['C05125', 'C05125', 'C00024'],
'C15972': ['C00068', 'C16255'],
'C15973': ['C16255', 'C15972'],
'C00186': ['C00022'],
'C00074': ['C00022'],
'C00631': ['C00074', 'C00197', 'C00197'],
'C00118':
['C00236', 'C00111', 'C00236', 'C00197', 'C00197', 'C00197'],
'C05378': ['C00111', 'C00118', 'C05345'],
'C05345': ['C05378', 'C05378', 'C05378'],
'C00031': ['C00668'],
'C00668': ['C05345', 'C01172', 'C01172', 'C00267'],
'C00103': ['C00668', 'C00267'],
'C01172': ['C05345'],
'C00221': ['C01172', 'C01172', 'C01172', 'C01172'],
'C00267': ['C00221', 'C00668', 'C00668', 'C00668', 'C00668'],
'C00197': ['C00236'],
'C06186': ['C06187'],
'C01451': ['C06188'],
'C06187': ['C01172'],
'C06188': ['C01172'],
'C00036': ['C00074', 'C00074'],
'C01159': ['C00197', 'C00631'],
'C00236': ['C01159'],
'C00033': ['C00024']
})
print("--- Test End ---\n")
def test_kgml2Json_5(self):
print("test_kgml2Json")
simpleKGML1 = SimpleKGML("C:/Users/Daniel/Desktop/hsa00630.xml")
dictionary = simpleKGML1.getCompoundsGraph()
print("--- Test End ---\n")
print(
"<p>Semiglobal Alignment (BFT): ",
maxSemiglobal[0][0] if maxSemiglobal[0][0] <= 0 else "+" +
str(maxSemiglobal[0][0]), "<br>", '\n'.join([
"<p class='alignment' style='font-family:Courier'>" + str(i) +
"</p>" for i in maxSemiglobal[0][1:]
]))
print("<br>")
if __name__ == '__main__':
if len(sys.argv) == 2:
params = False
reset_dictionary()
filePath = sys.argv[1]
myKGMLStart = SimpleKGML(filePath)
myKGML = SimpleKGML(filePath)
pathway0 = myKGML.getCompoundsGraph()
pathway0start = myKGMLStart.getWithCentralNodeAsString()
filePath = sys.argv[2]
myKGML = SimpleKGML(filePath)
myKGMLStar = SimpleKGML(filePath)
pathway1 = myKGML.getCompoundsGraph()
pathway1start = myKGMLStar.getWithCentralNodeAsString()
#metabolic_pathways_HTML(pathway0, pathway1)
while True:
print("Menu")
for i in map(lambda x: x + 1, range(4)):
print(i, "-", "Algorithm", i)
i = input("Option: ")
if (i == 1):
])
print "<br>"
print "<h4>Equality Identified</h4>"
identify_equality(graph0, graph1, LOW)
print "<br>"
print "<h4>Differences Identified (from Pathway 1 to Pathway 2)</h4>"
identify_differences(graph0, graph1, FULL)
print "<br>"
print "<h4>Differences Identified (from Pathway 2 to Pathway 1)</h4>"
identify_differences(graph1, graph0, FULL)
if __name__ == '__main__':
if True:
filePath = "C:\\Users\\Lenovo\\Desktop\\TEC\\Rutas\\hsa00030.xml"
myKGMLStart = SimpleKGML(filePath)
myKGML = SimpleKGML(filePath)
pathway0 = myKGML.getCompoundsGraph()
pathway0start = myKGMLStart.getWithCentralNodeAsString()
filePath = "C:\\Users\\Lenovo\\Desktop\\TEC\\Rutas\\bpa00030.xml"
myKGML = SimpleKGML(filePath)
myKGMLStar = SimpleKGML(filePath)
pathway1 = myKGML.getCompoundsGraph()
pathway1start = myKGMLStar.getWithCentralNodeAsString()
#metabolic_pathways_HTML(pathway0, pathway1)
while True:
print "Menu"
for i in map(lambda x: x + 1, range(4)):
print i, "-", "Algorithm", i
i = input("Option: ")
if (i == 1):