Exemplos de UnaFolder.self_prime em Python

Exemplo n.º 1

Arquivo: models.py Projeto: Gibthon/Gibthon

	def selfPrime(self):
		u = UnaFolder(t = self.fullTm(), safety=3, mg_salt=self.mg, na_salt=self.na)
		ret, image = u.self_prime(str(self.topPrimer()))
		new_image = join(settings.MEDIA_ROOT, split(image)[1])
		os.rename(image, new_image)
		wst = ''
		for warning in u.warnings:
			wst += 'Potential self-priming of 3\' end! Length: ' + str(warning[0]) + ', dG: ' + str(warning[1]) + '<br />'
		return join(settings.MEDIA_URL, split(image)[1]), wst

Exemplo n.º 2

Arquivo: models.py Projeto: derjogi/Gibthon

	def selfPrime(self):
		u = UnaFolder(t = self.fullTm(), safety=3, mg_salt=self.mg, na_salt=self.na)
		ret, image = u.self_prime(str(self.topPrimer()))
		print settings.MEDIA_ROOT
		os.rename(image, settings.MEDIA_ROOT+image[1::])
		wst = ''
		for warning in u.warnings:
			wst += 'Potential self-priming of 3\' end! Length: ' + str(warning[0]) + ', dG: ' + str(warning[1]) + '<br />'
		return settings.MEDIA_URL + image, wst
	
		

Exemplo n.º 3

Arquivo: models.py Projeto: derjogi/Gibthon

	def self_prime_check(self):
		u = UnaFolder(t=self.tm(), safety=self.construct.settings.ss_safety, mg_salt=self.construct.settings.mg_salt, na_salt=self.construct.settings.na_salt)
		ret, image = u.self_prime(str(self.seq()))
		os.rename(image, settings.MEDIA_ROOT+'unafold/p-'+str(self.id))
		self.warning.all().filter(type='sp').delete()
		self.save()
		for warning in u.warnings:
			w = Warning.objects.create(
				primer = self,
				type = 'sp',
				text = 'Potential self-priming of 3\' end! Length: ' + str(warning[0]) + ', dG: ' + str(warning[1]),
			)		

Exemplo n.º 4

 def selfPrime(self):
     u = UnaFolder(t=self.fullTm(),
                   safety=3,
                   mg_salt=self.mg,
                   na_salt=self.na)
     ret, image = u.self_prime(str(self.topPrimer()))
     new_image = join(settings.MEDIA_ROOT, split(image)[1])
     os.rename(image, new_image)
     wst = ''
     for warning in u.warnings:
         wst += 'Potential self-priming of 3\' end! Length: ' + str(
             warning[0]) + ', dG: ' + str(warning[1]) + '<br />'
     return join(settings.MEDIA_URL, split(image)[1]), wst

Exemplo n.º 5

Arquivo: models.py Projeto: mrginglymus/Gibthon

	def self_prime_check(self):
		u = UnaFolder(t=self.tm(), safety=self.construct.settings.ss_safety, mg_salt=self.construct.settings.mg_salt, na_salt=self.construct.settings.na_salt)
		ret, image = u.self_prime(str(self.seq()))
		print os.path.join(settings.MEDIA_ROOT, 'unafold/p-%s' % self.id)
		os.rename(image, os.path.join(settings.MEDIA_ROOT, 'unafold/p-%s' % self.id))
		
		self.warning.all().filter(type='sp').delete()
		self.save()
		for warning in u.warnings:
			w = Warning.objects.create(
				primer = self,
				type = 'sp',
				text = 'Potential self-priming of 3\' end! dG: %s' % warning[1],
			)		

Exemplo n.º 6

Arquivo: models.py Projeto: Schnu/Gibthon

	def self_prime_check(self):
		u = UnaFolder(t=self.tm(), safety=self.construct.settings.ss_safety, mg_salt=self.construct.settings.mg_salt, na_salt=self.construct.settings.na_salt)
		ret, image = u.self_prime(str(self.seq()))
		print os.path.join(settings.MEDIA_ROOT, 'unafold/p-%s' % self.id)
		os.rename(image, os.path.join(settings.MEDIA_ROOT, 'unafold/p-%s' % self.id))
		
		self.warning.all().filter(type='sp').delete()
		self.save()
		for warning in u.warnings:
			w = Warning.objects.create(
				primer = self,
				type = 'sp',
				text = 'Potential self-priming of 3\' end! dG: %s' % warning[1],
			)