snappy 3.2__cp310-cp310-macosx_10_12_x86_64.whl

snappy/twister/__init__.py

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+''' Twister is a program by Mark Bell, Tracy Hall and Saul Schleimer for 
+constructing triangulations of surface bundles and Heegaard splittings from 
+a description of a mapping class of a surface.
+
+Twister is available from:
+	https://github.com/MarkCBell/twister
+
+See the included users guide ./docs/Twister.pdf for instructions for installing, 
+testing and using Twister.
+
+Provides:
+  Surface - A class representing a squared surface with curves drawn on it.
+  DT_drilling_surface - A function returning a standard surface from a knots 
+    Dowker--Thistlethwaite code.
+  DT_handles_surface - A function returning a standard surface from a knots 
+    Dowker--Thistlethwaite code.
+  surface_database - A set of all surfaces in Twister's surface database.
+  version - A string containing the version number of the Twister kernel. '''
+
+from .main import Surface, DT_drilling_surface, DT_handles_surface, surface_database, version

snappy/twister/main.py

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+### Required modules:
+# Some standard modules.
+import os
+from random import choice
+from itertools import combinations
+# Some custom modules.
+import snappy
+from plink import LinkManager
+from .twister_core import build_bundle, build_splitting, twister_version
+
+surface_database_path = os.path.join(os.path.dirname(__file__), 'surfaces')
+surface_database = set(os.listdir(surface_database_path))
+version = twister_version()
+
+def _get_surface(surface):
+	if isinstance(surface, tuple) and len(surface) == 2 and isinstance(surface[0], int) and isinstance(surface[1], int):
+		return LP_surface(surface[0], surface[1])
+	
+	if isinstance(surface, str):
+		# If surface is actually the contents of a surface file.
+		if surface.startswith('# A Twister surface file'):
+			return surface
+		
+		# If surface is in the database.
+		if surface in surface_database:
+			surface = os.path.join(surface_database_path, surface)
+		
+		try:
+			lines = open(surface, 'r').readlines() 
+		except IOError:
+			raise IOError('Unable to open %s' % surface)
+		
+		contents = ''.join(lines)
+		if contents.startswith('% Virtual Link Projection\n'):
+			# We use PLink to handle virtual link projections.
+			LM = LinkManager()
+			LM._from_string(contents)
+			return LM.Twister_surface_file()
+		if contents.startswith('# A Twister surface file'):
+			return contents
+		
+		raise TypeError('Not a Twister surface file.')
+	
+	raise TypeError('Surfaces can only be loaded from a string or pair of integers (genus,boundary).')
+
+def _parse_line(line):
+	data = line.split('#')
+	if data[0] == '': return None
+	return data[0].split(',')
+
+def _parse_surface(surface_contents):
+	# We now compute some properties of the surface. These are useful for error checking.
+	# We could do more error checking to make sure that the surface is valid. But this
+	# would just be repeating code in twister_core.
+	curves = {'annulus':[], 'rectangle':[], 'macro':[]}
+	num_squares = 0;
+	for line in surface_contents.split('\n'):
+		data = _parse_line(line)
+		if data is not None:
+			if len(data) > 2:
+				curves[data[0]].append((data[1], data[2], data[3:]))
+				if data[3:] != []:
+					largest_num = max(map(lambda x: abs(int(x)) + 1, data[3:]))
+					if largest_num > num_squares:
+						num_squares = largest_num
+	
+	vertices = [set([str(i) + d]) for i in range(num_squares) for d in ['NE', 'NW', 'SE', 'SW']]
+	
+	def join(v, a, b):
+		X = [s for s in v if a in s or b in s]
+		if len(X) == 2:
+			v.remove(X[0])
+			v.remove(X[1])
+			v.append(X[0] | X[1])
+	
+	for annulus in curves['annulus']:
+		data = annulus[2]
+		for i in range(len(data)):
+			j = (i+1) % len(data)
+			sign1 = data[i][0] == '-'
+			sign2 = data[j][0] == '-'
+			square1 = str(abs(int(data[i])))
+			square2 = str(abs(int(data[j])))
+			corner1a = 'NW' if data[i][0] == '-' else 'NE'
+			corner2a = 'SW' if data[j][0] == '-' else 'NW'
+			corner1b = 'NE' if data[i][0] == '-' else 'SE'
+			corner2b = 'SE' if data[j][0] == '-' else 'SW'
+			
+			join(vertices, square1 + corner1a, square2 + corner2a)
+			join(vertices, square1 + corner1b, square2 + corner2b)
+	
+	for rectangle in curves['rectangle']:
+		data = rectangle[2]
+		for i in range(len(data)-1):
+			j = (i+1) % len(data)
+			square1 = str(abs(int(data[i])))
+			square2 = str(abs(int(data[j])))
+			corner1a = 'NW' if data[i][0] == '-' else 'NE'
+			corner2a = 'SW' if data[j][0] == '-' else 'NW'
+			corner1b = 'NE' if data[i][0] == '-' else 'SE'
+			corner2b = 'SE' if data[j][0] == '-' else 'SW'
+			
+			join(vertices, square1 + corner1a, square2 + corner2a)
+			join(vertices, square1 + corner1b, square2 + corner2b)
+	
+	end_edges = []
+	for rectangle in curves['rectangle']:
+		data = rectangle[2]
+		
+		square1 = str(abs(int(data[0])))
+		corner1a = 'SW' if data[0][0] == '-' else 'SW'
+		corner1b = 'SE' if data[0][0] == '-' else 'NW'
+		end_edges.append((square1 + corner1a, square1 + corner1b))
+		
+		square2 = str(abs(int(data[-1])))
+		corner2a = 'NW' if data[0][0] == '-' else 'NE'
+		corner2b = 'NE' if data[0][0] == '-' else 'SE'
+		end_edges.append((square2 + corner2a, square2 + corner2b))
+	
+	boundary_components = [set([e]) for e in end_edges]
+	for e1, e2 in combinations(end_edges, r=2):
+		if any(v1 in v and v2 in v for v in vertices for v1 in e1 for v2 in e2):
+			join(boundary_components, e1, e2)
+	
+	return num_squares, curves, vertices, boundary_components
+
+def _compute_intersections(curves):
+	curve_names = [name for (name, inverse_name, data) in curves['annulus']] + [name for (name, inverse_name, data) in curves['rectangle']]
+	data = dict((name, set([abs(int(x)) for x in data])) for (name, inverse_name, data) in curves['annulus'] + curves['rectangle'])
+	
+	rows = [[''] + curve_names]
+	for name in curve_names:
+		row = [name]
+		for name2 in curve_names:
+			row.append(len(data[name].intersection(data[name2])) if name != name2 else 0)
+		rows.append(row)
+	
+	return rows
+
+class Surface:
+	''' Represents a squared surface with a collection of curves on it. '''
+	def __init__(self, surface):
+		''' Creates a new surface from either:
+		- the name of a surface in the surface database,
+		- a path to a surface file,
+		- a path to a plink virtual knot file,
+		- the contents of a surface file, or
+		- the pair (genus, boundary). For information about how this surface
+		\t is created see the doc string of twister.LP_surface(). '''
+		self.surface_contents = _get_surface(surface)
+		self.num_squares, self.curves, vertices, self.boundary_components = _parse_surface(self.surface_contents)
+		
+		self.num_boundary = len(self.boundary_components)
+		self.num_edges = sum(len(x[2]) for x in self.curves['annulus']) + sum(len(x[2]) + 1 for x in self.curves['rectangle'])
+		self.num_vertices = len(vertices)
+		self.Euler_characteristic = self.num_vertices - self.num_edges + self.num_squares
+		self.genus = (2 - self.num_boundary - self.Euler_characteristic) // 2
+		self.intersection_matrix = _compute_intersections(self.curves)
+	
+	def info(self, verbose=False):
+		annuli = ', '.join(a[0] for a in self.curves['annulus'])
+		inv_annuli = ', '.join(a[1] for a in self.curves['annulus'])
+		rectangles = ', '.join(r[0] for r in self.curves['rectangle'])
+		inv_rectangles = ', '.join(r[1] for r in self.curves['rectangle'])
+		macros = ', '.join('%s:%s' % (r[0], r[1]) for r in self.curves['macro'])
+		matrix = '\n'.join(str(row) for row in self.intersection_matrix)
+		print('A Twister surface of genus %d with %d boundary component(s)' % (self.genus, self.num_boundary))
+		print('Loops: %s' % annuli)
+		if verbose: print('Inverse names: %s' % inv_annuli)
+		print('Arcs: %s' % rectangles)
+		if verbose: print('Inverse names: %s' % inv_rectangles)
+		if verbose: print('Macros: %s' % macros)
+		if verbose: print('Intersection matrix:\n%s' % matrix)
+	
+	def random_word(self, n, twists=True, half_twists=True, macros=True, inverses=True):
+		''' Returns a random word of length n in the generators of Mod(S). Setting twists, half_twists or macros to False
+		prevents them from appearing in the word. If all generators are disallowed then the empty word is returned. If 
+		inverses is set to False then no inverse of a generator will be used. '''
+		
+		generators = []
+		if twists: generators += [curve[0] for curve in self.curves['annulus']]
+		if twists and inverses: generators += [curve[1] for curve in self.curves['annulus']]
+		if half_twists: generators += [curve[0] for curve in self.curves['rectangle']]
+		if half_twists and inverses: generators += [curve[1] for curve in self.curves['rectangle']]
+		if macros: generators += [curve[0] for curve in self.curves['macro']]
+		
+		if generators == []: return ''
+		
+		return ''.join([choice(generators) for i in range(n)])
+	
+	def bundle(self, monodromy, name=None, optimize=True, warnings=True, debugging_level=0, return_type='manifold'):
+		''' Generate a surface bundle over a circle with fibre this surface from mapping class group data using the Twister
+		program of Bell, Hall and Schleimer.
+		
+		Arguments:
+		Required:
+		 monodromy - build a surface bundle with specified monodromy
+		Optional:
+		 name - name of the resulting manifold
+		 optimize - try to reduce the number of tetrahedra (default True)
+		 warnings - print Twister warnings (default True)
+		 debugging_level - specifies the amount of debugging information to be shown (default 0)
+		 return_type - specifies how to return the manifold, either as a 'manifold' (default), 'triangulation' or 'string'
+		
+		Monodromy is a word of annulus and rectangle names (or
+		their inverses).  These are read from left to right and determine a
+		sequence of (half) Dehn twists.  When prefixed with an "!" the name
+		specifies a drilling.  For example, "a*B*a*B*A*A*!a*!b" will perform 6
+		twists and then drill twice.
+		
+		Examples:
+		
+		The figure eight knot complement:
+		>>> M = twister.Surface((1,1)).bundle(monodromy='a_0*B1')
+		
+		The minimally twisted six chain link:
+		>>> M = twister.Surface('S_1_1').bundles(monodromy='!a*!b*!a*!b*!a*!b')
+		>>> M.set_peripheral_curves('shortest_meridians', 0)
+		>>> M.dehn_fill((1,0),0) '''
+		
+		if name is None: name = monodromy
+		tri, messages = build_bundle(name, self.surface_contents, monodromy, optimize, True, warnings, debugging_level)
+		
+		# You might want to change what is done with any warning / error messages.
+		# Perhaps they should be returned in the next block?
+		if messages != '': print(messages)
+		
+		if tri is None: 
+			return None
+		
+		return_type = return_type.lower()
+		if return_type == 'manifold':
+			return snappy.Manifold(tri)
+		if return_type == 'triangulation':
+			return snappy.Triangulation(tri)
+		if return_type == 'string':
+			return tri
+		
+		raise TypeError('Return type must be \'manifold\', \'triangulation\' or \'string\'.')
+	
+	def splitting(self, gluing, handles, name=None, optimize=True, warnings=True, debugging_level=0, return_type='manifold'):
+		''' Generate a manifold with Heegaard splitting this surface from mapping class group data using the Twister
+		program of Bell, Hall and Schleimer.
+		
+		Arguments:
+		Required:
+		 gluing - the gluing used to join the upper and lower compression bodies
+		 handles - where to attach 2-handles
+		Optional:
+		 name - name of the resulting manifold
+		 optimize - try to reduce the number of tetrahedra (default True)
+		 warnings - print Twister warnings (default True)
+		 debugging_level - specifies the amount of debugging information to be shown (default 0)
+		 return_type - specifies how to return the manifold, either as a 'manifold' (default), 'triangulation' or 'string'
+		
+		Gluing is a word of annulus and rectangle names (or
+		their inverses).  These are read from left to right and determine a
+		sequence of (half) Dehn twists.  When prefixed with an "!" the name
+		specifies a drilling.  For example, "a*B*a*B*A*A*!a*!b" will perform 6
+		twists and then drill twice.
+		
+		Handles is again a word of annulus names (or inverses).  For example,
+		'a*c*A' means attach three 2-handles, two above and one below.
+		
+		Examples:
+		
+		The genus two splitting of the solid torus:
+		>>> M = twister.Surface('S_2').splitting(gluing='', handles='a*B*c') '''
+		
+		if name is None: name = gluing + ' ' + handles
+		tri, messages = build_splitting(name, self.surface_contents, gluing, handles, optimize, True, warnings, debugging_level)
+		
+		# You might want to change what is done with any warning / error messages.
+		# Perhaps they should be returned in the next block?
+		if messages != '': print(messages)
+		
+		if tri is None: 
+			return None
+		
+		return_type = return_type.lower()
+		if return_type == 'manifold':
+			return snappy.Manifold(tri)
+		if return_type == 'triangulation':
+			return snappy.Triangulation(tri)
+		if return_type == 'string':
+			return tri
+		
+		raise TypeError('Return type must be \'manifold\', \'triangulation\' or \'string\'.')
+
+### Some standard types of surface that can be automatically generated.
+
+def LP_surface(genus, boundary, make_prefix_unique=True):
+	''' Returns the contents of a surface file for the surface S_{genus, boundary}.
+	We generally follow the naming convention given in Figure 13 
+	of the Labruere and Paris paper "Presentations for the punctured 
+	mapping class groups in terms of Artin groups".
+	
+	When genus == 1, the loop a_n is dropped as it is isotopic to the
+	loop a_0.
+	
+	The case of genus == 0, given here, is a small modification of
+	Figure 11 in [LP].
+	
+	You should not use this function directly, rather just call
+	Surface((genus, boundary)). '''
+	
+	contents = ['# A Twister surface file produced by LP_surface.']
+	contents.append('# with generating set for MCG(S_{%d,%d}) following Figure 13 of Labruere and' % (genus, boundary))
+	contents.append('# Paris paper "Presentations for the punctured mapping class groups')
+	contents.append('# in terms of Artin groups".')
+	contents.append('#')
+	
+	padded_length = len(str(max(2*genus, boundary))) if make_prefix_unique else 0
+	
+	square_count = 0
+	
+	if genus == 0:
+		if boundary == 0:
+			square_count += 1
+			contents.append('annulus,a1,A1,-0,+1#')
+			contents.append('annulus,a2,A2,-1,+0#')
+		else:
+			for i in range(boundary):
+				square_count += 1
+				start = 'rectangle,t' + str(i + 1).zfill(padded_length) + ',T' + str(i + 1).zfill(padded_length)
+				connections = ',-' + str(square_count - 1) + ',+' + str(square_count)
+				contents.append(start + connections + '#')
+				
+				if i == boundary - 1:
+					start = 'annulus,a' + str(i + 1).zfill(padded_length) + ',A' + str(i + 1).zfill(padded_length)
+					connections = ',-' + str(square_count) + ',+' + '0'
+					contents.append(start + connections + '#')
+				else:
+					square_count += 1
+					start = 'annulus,a' + str(i + 1).zfill(padded_length) + ',A' + str(i + 1).zfill(padded_length)
+					connections = ',-' + str(square_count - 1) + ',+' + str(square_count)
+					contents.append(start + connections + '#')
+	else:
+		c_loop = -1  # Just a marker.
+		
+		# Start with the a0 loop.
+		next_line = 'annulus,a' + '0'.zfill(padded_length) + ',A' + '0'.zfill(padded_length) + ',+0'
+		contents.append(next_line + '#')
+		
+		# And the b1 loop.
+		start = 'annulus,b' + '1'.zfill(padded_length) + ',B' + '1'.zfill(padded_length)
+		connections = ',-0'
+		
+		if boundary > 1:
+			for i in range(boundary - 1):
+				square_count += 1
+				connections = connections + ',-' + str(square_count)
+				
+				square_count += 1
+				
+				start2 = 'annulus,a' + str(i + 1).zfill(padded_length) + ',A' + str(i + 1).zfill(padded_length)
+				connections2 = ',+' + str(square_count - 1) + ',+' + str(square_count)
+				contents.append(start2 + connections2 + '#')
+				
+				start3 = 'rectangle,t' + str(i + 1).zfill(padded_length) + ',T' + str(i + 1).zfill(padded_length)
+				connections3 = ',-' + str(square_count)
+				contents.append(start3 + connections3 + '#')
+		
+		elif boundary == 1:
+			square_count += 1
+			connections = connections + ',-' + str(square_count)
+			
+			start2 = 'rectangle,t' + '1'.zfill(padded_length) + ',T' + '1'.zfill(padded_length)
+			connections2 = ',+' + str(square_count)
+			contents.append(start2 + connections2 + '#')
+		
+		elif boundary == 0 and genus > 1:
+			square_count += 1
+			connections = connections + ',+' + str(square_count)
+		
+		# Add in an extra a loop (if needed) to isolate the half-twists from the rest of the surface.
+		if genus > 1 and boundary > 0:
+			square_count += 1
+			connections = connections + ',-' + str(square_count)
+			
+			start2 = 'annulus,a' + str(boundary).zfill(padded_length) + ',A' + str(boundary).zfill(padded_length)
+			connections2 = ',+' + str(square_count)
+			contents.append(start2 + connections2 + '#')
+			
+			# Add in the start point for the b2 ... chain.
+			square_count += 1
+			connections = connections + ',+' + str(square_count)
+		
+		contents.append(start + connections + '#')
+		
+		# Now construct the rest of the b loops.
+		for i in range(2, 2 * genus - 1):
+			square_count += 1
+			start = 'annulus,b' + str(i).zfill(padded_length) + ',B' + str(i).zfill(padded_length)
+			connections = ',-' + str(square_count - 1) + ',+' + str(square_count)
+			contents.append(start + connections + '#')
+			if i == 2: c_loop = len(contents)
+		
+		# Don't forget, the last one is different.
+		if genus > 1:
+			square_count += 1
+			start = 'annulus,b' + str(2 * genus - 1).zfill(padded_length) + ',B' + str(2 * genus - 1).zfill(padded_length)
+			connections = ',-' + str(square_count - 1)
+			contents.append(start + connections + '#')
+		
+		# Modify the 3rd b loop to add in the c loop (if needed).
+		if c_loop > -1:
+			next_line = 'annulus,c,C,-' + str(square_count)
+			contents.append(next_line + '#')
+			contents[c_loop] = contents[c_loop][:-1] + ',+' + str(square_count) + '#'
+	
+	return '\n'.join(contents)
+
+def code_to_sign_sequence(code):
+	''' Produces a sign sequence for a given Dowker code. '''
+	
+	def first_non_zero(L): return min(i for i in range(len(L)) if L[i])
+	
+	N = len(code)
+	signs = [abs(n) - 1 for n in code]
+	
+	pairs = list(zip(range(0, 2*N, 2), signs))
+	pairs_dict = dict([(x, y) for x, y in pairs] + [(y, x) for x, y in pairs])
+	full_code = [pairs_dict[i] for i in range(2*N)]
+	
+	seq = full_code * 2  # seq is two copies of full DT involution on crossings numbered 0 to 2N-1.
+	emb, A = [0] * 2*N, [0] * 2*N  # zero emb and A. A will only ever contain zeroes and ones.
+	
+	# Set initial conditions.
+	A[0], A[seq[0]] = 1, 1
+	emb[0], emb[seq[0]] = 1, -1
+	
+	# Determine the possible phi's
+	all_phi = [[0] * 2*N for i in range(2*N)]
+	for i in range(2*N):
+		all_phi[i][i] = 1
+		for j in range(i, i+2*N):
+			all_phi[i][j % (2*N)] = 1 if i == j else -all_phi[i][(j-1) % (2*N)] if i <= seq[j] <= seq[i] else all_phi[i][(j-1) % (2*N)]
+	
+	while any(A):
+		i = first_non_zero(A)  # let i be the index of the first non-zero member of A
+		
+		D = [1] * 2*N
+		D[i:seq[i]+1] = [0] * (seq[i] - i + 1)
+		while any(D):
+			x = first_non_zero(D)  # let x be the index of the first non-zero member of D
+			D[x] = 0
+			
+			if ((i <= seq[x] <= seq[i] and emb[x] != 0 and all_phi[i][x] * all_phi[i][seq[x]] * emb[i] != emb[x]) or ((seq[x] < i or seq[i] < seq[x]) and all_phi[i][x] * all_phi[i][seq[x]] != 1)) and x < i:  # This extra AND conditions shouldn't be needed.
+				raise ValueError('Not a realisable DT-code.')
+			
+			if seq[i] < seq[x] or seq[x] < i:
+				D[seq[x]] = 0
+			elif emb[x] == 0: # emb[x] is already defined
+				assert D[seq[x]] == 0
+				emb[x] = all_phi[i][x] * all_phi[i][seq[x]] * emb[i]
+				emb[seq[x]] = -emb[x]
+				if abs(seq[x]-seq[x-1]) % (2*N) != 1:
+					A[x] = 1
+					A[seq[x]] = 1
+		
+		A[i], A[seq[i]] = 0, 0
+	
+	return [emb[i] for i in range(0, 2*N, 2)]  # Note [emb[pairs_dict[i]] for i in range(0, 2*N, 2)] is also a valid code.
+
+def DT_drilling_surface(code, make_prefix_unique=True):
+	''' Returns a Surface which can be used to construct a triangulation of the
+	complement of the knot with Dowker--Thistlethwaite code 'code'. 
+	
+	Example: DT_drilling_surface([6,10,8,12,4,2]) returns a Surface that can be
+	used to construct the 6_1 knot complement. '''
+	
+	# Note: There are smaller surface files that can be constructed to do this,
+	# but they are significantly more complicated and have less symmetry.
+	code = list(code)
+	signs = code_to_sign_sequence(code)
+	
+	contents = ['# A Twister surface file']
+	contents.append('#')
+	contents.append('# Surface file for knot with Dowker code:')
+	contents.append('#    ' + ','.join(map(str, code)))
+	contents.append('#')
+	contents.append('# To build this knot complement, make a Heegaard splitting with a 2-handle attached above')
+	contents.append('# and below every annulus and drill every rectangle exactly once, making sure to drill all')
+	contents.append('# of the "x" rectangles before drilling ANY of the "y" rectangles.')
+	contents.append('#')
+	
+	num_crossings = len(code)
+	padded_length = len(str(2*num_crossings)) if make_prefix_unique else 0
+	num_squares = num_crossings * 5
+	
+	pairs = list(zip(range(1, 2*num_crossings+1, 2), code))
+	pairs_dict = dict([(x, abs(y)) for (x, y) in pairs] + [(abs(y), x) for (x, y) in pairs])
+	signs_dict = dict([(x, y > 0) for (x, y) in pairs] + [(abs(y), y > 0) for (x, y) in pairs])
+	
+	drill_names = []
+	handle_names = []
+	
+	# First build all the rectangles.
+	for i in range(1, 2*num_crossings+1):
+		if i % 2 == 1:
+			k = i // 2
+			cells = ['-' + str(k * 5 + 1), '+' + str(k * 5 + 2), '+' + str(k * 5 + 3)]
+		else:
+			k = pairs_dict[i] // 2
+			if signs[k] == 1:
+				cells = ['-' + str(k * 5 + 4), '-' + str(k * 5 + 2), '+' + str(k * 5 + 0)]
+			else:
+				cells = ['-' + str(k * 5 + 0), '-' + str(k * 5 + 2), '+' + str(k * 5 + 4)]
+		
+		over = (i % 2 == 0) ^ signs_dict[i]
+		name = ('y' if (i % 2 == 0) ^ signs_dict[i] else 'x') + str(i).zfill(padded_length)
+		inverse_name = name.swapcase()
+		contents.append(','.join(['rectangle', name, inverse_name] + cells) + '#')
+		drill_names.append('!' + name)
+	
+	# Then the required annuli.
+	for i in range(1, 2*num_crossings+1):
+		j = i % (2*num_crossings) + 1
+		if i % 2 == 1:
+			k = i // 2
+			l = pairs_dict[j] // 2
+			if signs[l] == 1:
+				cells = ['-' + str(k * 5 + 3), '+' + str(l * 5 + 4)]
+			else:
+				cells = ['-' + str(k * 5 + 3), '-' + str(l * 5 + 4)]
+		else:
+			k = pairs_dict[i] // 2
+			l = j // 2
+			if signs[k] == 1:
+				cells = ['-' + str(k * 5 + 0), '+' + str(l * 5 + 1)]
+			else:
+				cells = ['+' + str(k * 5 + 0), '+' + str(l * 5 + 1)]
+		
+		name = 'a' + '_' + str(i).zfill(padded_length)
+		inverse_name = name.swapcase()
+		contents.append(','.join(['annulus', name, inverse_name] + cells) + '#')
+		handle_names.append(name)
+		handle_names.append(inverse_name)
+	
+	contents.append('# We also give a macro to drill all of the rectangles in an acceptable order.')
+	contents.append('# And one for attaching all handles too.')
+	drill_names.sort()  # Make sure to sort the rectangle drill names so that all of the "x"'s appear before ANY of the "y"'s.
+	contents.append('macro,s,' + '*'.join(drill_names) + '#')
+	contents.append('macro,h,' + '*'.join(handle_names) + '#')
+	
+	return Surface('\n'.join(contents))
+
+def DT_handles_surface(code, make_prefix_unique=True):
+	''' Returns a Surface which can be used to construct a triangulation of the
+	complement of the knot with Dowker code 'code'. 
+	
+	Example: DT_handles_surface([6,10,8,12,4,2]) returns a Surface that can be
+	used to construct the 6_1 knot complement. '''
+	
+	# Note: There are smaller surface files that can be constructed to do this,
+	# but they are significantly more complicated and have less symmetry.
+	code = list(code)
+	signs = code_to_sign_sequence(code)  # Get the orientation of each intersection
+	
+	contents = ['# A Twister surface file']
+	contents.append('#')
+	contents.append('# Surface file for knot with Dowker code:')
+	contents.append('#    ' + ','.join(map(str, code)))
+	contents.append('#')
+	contents.append('# To build this knot complement, make a Heegaard splitting with a 2-handle attached above')
+	contents.append('# and below the sequence of annuli specified in the macro "h".')
+	contents.append('#')
+	
+	num_crossings = len(code)
+	
+	pairs = list(zip(range(1, 2*num_crossings+1, 2), code))
+	pairs_dict = dict([(x, abs(y)) for (x, y) in pairs] + [(abs(y), x) for (x, y) in pairs])
+	signs_dict = dict([(x, y > 0) for (x, y) in pairs] + [(abs(y), y > 0) for (x, y) in pairs])
+	
+	overcrossing = [signs_dict[i+1] ^ (i % 2 == 1) for i in range(2*num_crossings)]
+	where_switch = list(filter(lambda i: not signs_dict[i+1] ^ signs_dict[((i+1) % (2*num_crossings)) + 1], range(2*num_crossings)))
+	last_true = max(where_switch) + 1
+	
+	num_annuli = len(where_switch)
+	squares_in_crossings = 4 * num_crossings
+	squares_in_links = 2 * num_annuli
+	squares_in_rectangles = 2 * num_annuli
+	
+	num_squares = squares_in_crossings + squares_in_links + squares_in_rectangles
+	padded_length = len(str(num_annuli)) if make_prefix_unique else 0
+	
+	annuli_count = 0
+	squares = []
+	back_squares = []
+	handle_names = []
+	for j in range(2*num_crossings):
+		i = ((j + last_true) % (2*num_crossings))
+		if i % 2 == 0:
+			k = i // 2
+			squares.append('-' + str(4*k+0))
+			squares.append('+' + str(4*k+1))
+			back_squares.append('+' + str(4*k+3))
+			back_squares.append('-' + str(4*k+2))
+		else:
+			k = pairs_dict[i+1] // 2
+			if signs[k] == +1:
+				squares.append('-' + str(4*k+3))
+				squares.append('+' + str(4*k+0))
+				back_squares.append('+' + str(4*k+2))
+				back_squares.append('-' + str(4*k+1))
+			else:
+				squares.append('-' + str(4*k+1))
+				squares.append('+' + str(4*k+2))
+				back_squares.append('+' + str(4*k+0))
+				back_squares.append('-' + str(4*k+3))
+		
+		if i in where_switch:
+			row = 'annulus,a' + str(annuli_count).zfill(padded_length) + ',A' + str(annuli_count).zfill(padded_length) + ','
+			row += '+' + str(squares_in_crossings + 2*annuli_count) + ','
+			row += ','.join(squares) + ','
+			row += '-' + str(squares_in_crossings + 2*((annuli_count+1) % num_annuli)) + ','
+			row += '-' + str(squares_in_crossings + squares_in_links + 2*annuli_count) + ','
+			row += '+' + str(squares_in_crossings + squares_in_links + 2*annuli_count + 1) + ','
+			row += '+' + str(squares_in_crossings + 2*((annuli_count+1) % num_annuli) + 1) + ','
+			row += ','.join(back_squares[::-1]) + ','
+			row += '-' + str(squares_in_crossings + 2*annuli_count + 1)
+			row += '#'
+			
+			contents.append(row)
+			
+			handle_names.append(('a' if overcrossing[i] else 'A') + str(annuli_count).zfill(padded_length))
+			
+			annuli_count += 1
+			squares = []
+			back_squares = []
+	
+	for i in range(num_annuli):
+		row = 'rectangle,t' + str(i).zfill(padded_length) + ',T' + str(i).zfill(padded_length) + ','
+		row += '+' + str(squares_in_crossings + squares_in_links + 2*i) + ','
+		row += '-' + str(squares_in_crossings + squares_in_links + 2*i + 1)
+		row += '#'
+		contents.append(row)
+		
+	
+	num_squares = num_crossings * 5
+	
+	contents.append('# We also give a macro for attaching the required handles.')
+	contents.append('macro,h,' + '*'.join(handle_names) + '#')
+	
+	return Surface('\n'.join(contents))

snappy/twister/surfaces/S_0_1

@@ -0,0 +1,3 @@
+# A Twister surface file
+rectangle,x,X,-0#
+rectangle,y,Y,+0#

snappy/twister/surfaces/S_0_2

@@ -0,0 +1,3 @@
+# A Twister surface file
+annulus,a,A,+0#
+rectangle,x,X,-0#

snappy/twister/surfaces/S_0_4

@@ -0,0 +1,7 @@
+# A Twister surface file
+annulus,a,A,+0,-1,+2,+3#
+annulus,b,B,+1,-4,-3,-5#
+rectangle,w,W,+4#
+rectangle,x,X,-0#
+rectangle,y,Y,+5#
+rectangle,z,Z,-2#