def annotate(self, biobrickName):
biobrickName = biobrickName.encode('utf-8')
currentName = tc_getName(self.currentPart)
def replace(): # rename the part
currentName = biobrickName
tc_rename(self.currentPart, currentName)
def label(): # just add an overlay showing the biobrick name
tc_displayText(self.currentPart, biobrickName)
tc_setDisplayLabelColor(ANNOTATOR_HIGHLIGHTCOLOR, "#000000")
if currentName.rstrip(
"1234567890") in TC_DEFAULT_NAMES: # set by tinkercell
replace()
elif registry.isBiobrickName(currentName): # probably set by wikidust
if biobrickName.find(
currentName) != -1: # nevermind, short name by user
label()
else:
replace()
else: # custom name by user
label()
#tc_setTextAttribute(self.currentPart, "biobrickname", biobrickName) #redundant?
partInfo = registry.PartInfo(biobrickName)
# read annotation from a list
annotationList = fromTC(tc_getTextData(self.currentPart, "annotation"))
annotationDict = {}
keys = annotationList[0] #row names
values = annotationList[2][0] #first column
for index in range(len(keys)):
annotationDict[keys[index]] = values[index]
# add info to annotation
for attribute in partInfo:
#TODO add other stuff as text attributes?
if not attribute in REGISTRY_2_TC or not REGISTRY_2_TC[
attribute] in annotationDict:
pass #print "skipping %s because it's not implemented" % attribute
#elif annotationDict[ REGISTRY_2_TC[attribute] ] != "":
# pass #print "skipping %s because it's already set" % attribute
else: # ready to add attribute
annotationDict[REGISTRY_2_TC[attribute]] = partInfo[attribute]
#print "%s.%s = %s" % (currentName, REGISTRY_2_TC[attribute], partInfo[attribute])
# flatten back into a list and save
annotationList = []
rownames = []
for key in annotationDict.keys():
rownames.append(key)
annotationList.append(annotationDict[key])
#print annotationList
tc_setTextData(self.currentPart, "annotation",
toTC([annotationList], rows=rownames))
try:
sequence = partInfo["seq_data"]
sequence = sequence.replace(" ", "")
#print sequence
#tc_setSequence(self.currentPart, sequence)
except KeyError: # no sequence
pass
def annotate(self, biobrickName):
biobrickName = biobrickName.encode('utf-8')
currentName = tc_getName(self.currentPart)
def replace(): # rename the part
currentName = biobrickName
tc_rename(self.currentPart, currentName)
def label(): # just add an overlay showing the biobrick name
tc_displayText(self.currentPart, biobrickName)
tc_setDisplayLabelColor(ANNOTATOR_HIGHLIGHTCOLOR, "#000000")
if currentName.rstrip("1234567890") in TC_DEFAULT_NAMES: # set by tinkercell
replace()
elif registry.isBiobrickName(currentName): # probably set by wikidust
if biobrickName.find(currentName) != -1: # nevermind, short name by user
label()
else:
replace()
else: # custom name by user
label()
#tc_setTextAttribute(self.currentPart, "biobrickname", biobrickName) #redundant?
partInfo = registry.PartInfo(biobrickName)
# read annotation from a list
annotationList = fromTC( tc_getTextData(self.currentPart,"annotation") )
annotationDict = {}
keys = annotationList[0] #row names
values = annotationList[2][0] #first column
for index in range( len(keys) ):
annotationDict[ keys[index] ] = values[index]
# add info to annotation
for attribute in partInfo:
#TODO add other stuff as text attributes?
if not attribute in REGISTRY_2_TC or not REGISTRY_2_TC[attribute] in annotationDict:
pass #print "skipping %s because it's not implemented" % attribute
#elif annotationDict[ REGISTRY_2_TC[attribute] ] != "":
# pass #print "skipping %s because it's already set" % attribute
else: # ready to add attribute
annotationDict[ REGISTRY_2_TC[attribute] ] = partInfo[attribute]
#print "%s.%s = %s" % (currentName, REGISTRY_2_TC[attribute], partInfo[attribute])
# flatten back into a list and save
annotationList = []
rownames = []
for key in annotationDict.keys():
rownames.append(key)
annotationList.append( annotationDict[key] )
#print annotationList
tc_setTextData(self.currentPart, "annotation", toTC([annotationList], rows=rownames))
try:
sequence = partInfo["seq_data"]
sequence = sequence.replace(" ", "")
#print sequence
#tc_setSequence(self.currentPart, sequence)
except KeyError: # no sequence
pass
def runTests():
testNames = ("BBa_F2620", "f2620", "jerry", "ffg34", "g435", "g3454",
"bba_f2620", "bBa f4354")
for name in testNames:
print "%s is a biobrick name: %s" % (name,
registry.isBiobrickName(name))
def runTests():
testNames = ("BBa_F2620", "f2620", "jerry", "ffg34",
"g435", "g3454", "bba_f2620", "bBa f4354")
for name in testNames:
print "%s is a biobrick name: %s" % (name, registry.isBiobrickName(name))