-- Copyright 2011 by Jannis Pohlmann -- Copyright 2012 by Till Tantau -- -- This file may be distributed and/or modified -- -- 1. under the LaTeX Project Public License and/or -- 2. under the GNU Public License -- -- See the file doc/generic/pgf/licenses/LICENSE for more information -- @release $Header$ local SpringElectricalWalshaw2000 = {} -- Imports local declare = require("pgf.gd.interface.InterfaceToAlgorithms").declare --- declare { key = "spring electrical Walshaw 2000 layout", algorithm = SpringElectricalWalshaw2000, preconditions = { connected = true, loop_free = true, simple = true, }, old_graph_model = true, summary = [[" Implementation of a spring electrical graph drawing algorithm based on a paper by Walshaw. "]], documentation = [[" \begin{itemize} \item C. Walshaw. \newblock A multilevel algorithm for force-directed graph drawing. \newblock In J. Marks, editor, \emph{Graph Drawing}, Lecture Notes in Computer Science, 1984:31--55, 2001. \end{itemize} The following modifications compared to the original algorithm were applied: % \begin{itemize} \item An iteration limit was added. \item The natural spring length for all coarse graphs is computed based on the formula presented by Walshaw, so that the natural spring length of the original graph (coarse graph 0) is the same as the value requested by the user. \item Users can define custom node and edge weights. \item Coarsening stops when $|V(G_i+1)|/|V(G_i)| < p$ where $p = 0.75$. \item Coarsening stops when the maximal matching is empty. \item The runtime of the algorithm is improved by use of a quadtree data structure like Hu does in his algorithm. \item A limiting the number of levels of the quadtree is not implemented. \end{itemize} "]] } -- TODO Implement the following keys (or whatever seems appropriate -- and doable for this algorithm): -- - /tikz/desired at -- - /tikz/influence cutoff distance -- - /tikz/spring stiffness (could this be the equivalent to the electric -- charge of nodes? -- - /tikz/natural spring dimension per edge -- -- TODO Implement the following features: -- - clustering of nodes using color classes -- - different cluster layouts (vertical line, horizontal line, -- normal cluster, internally fixed subgraph) local Vector = require "pgf.gd.deprecated.Vector" local QuadTree = require "pgf.gd.force.QuadTree" local CoarseGraph = require "pgf.gd.force.CoarseGraph" local lib = require "pgf.gd.lib" function SpringElectricalWalshaw2000:run() -- Setup parameters local options = self.digraph.options self.iterations = options['iterations'] self.cooling_factor = options['cooling factor'] self.initial_step_length = options['initial step length'] self.convergence_tolerance = options['convergence tolerance'] self.natural_spring_length = options['node distance'] self.spring_constant = options['spring constant'] self.approximate_repulsive_forces = options['approximate remote forces'] self.repulsive_force_order = options['electric force order'] self.coarsen = options['coarsen'] self.downsize_ratio = options['downsize ratio'] self.minimum_graph_size = options['minimum coarsening size'] -- Adjust types self.downsize_ratio = math.max(0, math.min(1, self.downsize_ratio)) self.graph_size = #self.graph.nodes self.graph_density = (2 * #self.graph.edges) / (#self.graph.nodes * (#self.graph.nodes - 1)) -- validate input parameters assert(self.iterations >= 0, 'iterations (value: ' .. self.iterations .. ') need to be greater than 0') assert(self.cooling_factor >= 0 and self.cooling_factor <= 1, 'the cooling factor (value: ' .. self.cooling_factor .. ') needs to be between 0 and 1') assert(self.initial_step_length >= 0, 'the initial step length (value: ' .. self.initial_step_length .. ') needs to be greater than or equal to 0') assert(self.convergence_tolerance >= 0, 'the convergence tolerance (value: ' .. self.convergence_tolerance .. ') needs to be greater than or equal to 0') assert(self.natural_spring_length >= 0, 'the natural spring dimension (value: ' .. self.natural_spring_length .. ') needs to be greater than or equal to 0') assert(self.spring_constant >= 0, 'the spring constant (value: ' .. self.spring_constant .. ') needs to be greater or equal to 0') assert(self.downsize_ratio >= 0 and self.downsize_ratio <= 1, 'the downsize ratio (value: ' .. self.downsize_ratio .. ') needs to be between 0 and 1') assert(self.minimum_graph_size >= 2, 'the minimum coarsening size of coarse graphs (value: ' .. self.minimum_graph_size .. ') needs to be greater than or equal to 2') -- initialize node weights for _,node in ipairs(self.graph.nodes) do if node:getOption('electric charge') ~= nil then node.weight = node:getOption('electric charge') else node.weight = 1 end -- a node is charged if its weight derives from the default setting -- of 1 (where it has no influence on the forces) node.charged = node.weight ~= 1 end -- initialize edge weights for _,edge in ipairs(self.graph.edges) do edge.weight = 1 end -- initialize the coarse graph data structure. note that the algorithm -- is the same regardless whether coarsening is used, except that the -- number of coarsening steps without coarsening is 0 local coarse_graph = CoarseGraph.new(self.graph) -- check if the multilevel approach should be used if self.coarsen then -- coarsen the graph repeatedly until only minimum_graph_size nodes -- are left or until the size of the coarse graph was not reduced by -- at least the downsize ratio configured by the user while coarse_graph:getSize() > self.minimum_graph_size and coarse_graph:getRatio() < (1 - self.downsize_ratio) do coarse_graph:coarsen() end end -- compute the natural spring length for the coarsest graph in a way -- that will result in the desired natural spring length in the -- original graph local spring_length = self.natural_spring_length / math.pow(math.sqrt(4/7), coarse_graph:getLevel()) if self.coarsen then -- generate a random initial layout for the coarsest graph self:computeInitialLayout(coarse_graph.graph, spring_length) -- undo coarsening step by step, applying the force-based sub-algorithm -- to every intermediate coarse graph as well as the original graph while coarse_graph:getLevel() > 0 do -- interpolate the previous coarse graph coarse_graph:interpolate() -- update the natural spring length so that, for the original graph, -- it equals the natural spring dimension configured by the user spring_length = spring_length * math.sqrt(4/7) -- apply the force-based algorithm to improve the layout self:computeForceLayout(coarse_graph.graph, spring_length) end else -- generate a random initial layout for the coarsest graph self:computeInitialLayout(coarse_graph.graph, spring_length) -- apply the force-based algorithm to improve the layout self:computeForceLayout(coarse_graph.graph, spring_length) end end function SpringElectricalWalshaw2000:computeInitialLayout(graph, spring_length) -- TODO how can supernodes and fixed nodes go hand in hand? -- maybe fix the supernode if at least one of its subnodes is -- fixated? -- fixate all nodes that have a 'desired at' option. this will set the -- node.fixed member to true and also set node.pos.x and node.pos.y self:fixateNodes(graph) if #graph.nodes == 2 then if not (graph.nodes[1].fixed and graph.nodes[2].fixed) then local fixed_index = graph.nodes[2].fixed and 2 or 1 local loose_index = graph.nodes[2].fixed and 1 or 2 if not graph.nodes[1].fixed and not graph.nodes[2].fixed then -- both nodes can be moved, so we assume node 1 is fixed at (0,0) graph.nodes[1].pos.x = 0 graph.nodes[1].pos.y = 0 end -- position the loose node relative to the fixed node, with -- the displacement (random direction) matching the spring length local direction = Vector.new{x = lib.random(1, 2), y = lib.random(1, 2)} local distance = 3 * spring_length * self.graph_density * math.sqrt(self.graph_size) / 2 local displacement = direction:normalized():timesScalar(distance) graph.nodes[loose_index].pos = graph.nodes[fixed_index].pos:plus(displacement) else -- both nodes are fixed, initial layout may be far from optimal end else -- function to filter out fixed nodes local function nodeNotFixed(node) return not node.fixed end -- use the random positioning technique local function positioning_func(n) local radius = 3 * spring_length * self.graph_density * math.sqrt(self.graph_size) / 2 return lib.random(-radius, radius) end -- compute initial layout based on the random positioning technique for _,node in ipairs(graph.nodes) do if not node.fixed then node.pos.x = positioning_func(1) node.pos.y = positioning_func(2) end end end end function SpringElectricalWalshaw2000:computeForceLayout(graph, spring_length) -- global (=repulsive) force function local function accurate_repulsive_force(distance, weight) return - self.spring_constant * weight * math.pow(spring_length, self.repulsive_force_order + 1) / math.pow(distance, self.repulsive_force_order) end -- global (=repulsive, approximated) force function local function approximated_repulsive_force(distance, mass) return - mass * self.spring_constant * math.pow(spring_length, self.repulsive_force_order + 1) / math.pow(distance, self.repulsive_force_order) end -- local (spring) force function local function attractive_force(distance, d, weight, charged, repulsive_force) -- for charged nodes, never subtract the repulsive force; we want ALL other -- nodes to be attracted more / repulsed less (not just non-adjacent ones), -- depending on the charge of course if charged then return (distance - spring_length) / d - accurate_repulsive_force(distance, weight) else return (distance - spring_length) / d - (repulsive_force or 0) end end -- define the Barnes-Hut opening criterion function barnes_hut_criterion(cell, particle) local distance = particle.pos:minus(cell.center_of_mass):norm() return cell.width / distance <= 1.2 end -- fixate all nodes that have a 'desired at' option. this will set the -- node.fixed member to true and also set node.pos.x and node.pos.y self:fixateNodes(graph) -- adjust the initial step length automatically if desired by the user local step_length = self.initial_step_length == 0 and spring_length or self.initial_step_length -- convergence criteria local converged = false local i = 0 while not converged and i < self.iterations do -- assume that we are converging converged = true i = i + 1 -- build the quadtree for approximating repulsive forces, if desired local quadtree = nil if self.approximate_repulsive_forces then quadtree = self:buildQuadtree(graph) end local function nodeNotFixed(node) return not node.fixed end -- iterate over all nodes for _,v in ipairs(graph.nodes) do if not v.fixed then -- vector for the displacement of v local d = Vector.new(2) -- repulsive force induced by other nodes local repulsive_forces = {} -- compute repulsive forces if self.approximate_repulsive_forces then -- determine the cells that have an repulsive influence on v local cells = quadtree:findInteractionCells(v, barnes_hut_criterion) -- compute the repulsive force between these cells and v for _,cell in ipairs(cells) do -- check if the cell is a leaf if #cell.subcells == 0 then -- compute the forces between the node and all particles in the cell for _,particle in ipairs(cell.particles) do -- build a table that contains the particle plus all its subparticles -- (particles at the same position) local real_particles = lib.copy(particle.subparticles) table.insert(real_particles, particle) for _,real_particle in ipairs(real_particles) do local delta = real_particle.pos:minus(v.pos) -- enforce a small virtual distance if the node and the cell's -- center of mass are located at (almost) the same position if delta:norm() < 0.1 then delta:update(function (n, value) return 0.1 + lib.random() * 0.1 end) end -- compute the repulsive force vector local repulsive_force = approximated_repulsive_force(delta:norm(), real_particle.mass) local force = delta:normalized():timesScalar(repulsive_force) -- remember the repulsive force for the particle so that we can -- subtract it later when computing the attractive forces with -- adjacent nodes repulsive_forces[real_particle.node] = repulsive_force -- move the node v accordingly d = d:plus(force) end end else -- compute the distance between the node and the cell's center of mass local delta = cell.center_of_mass:minus(v.pos) -- enforce a small virtual distance if the node and the cell's -- center of mass are located at (almost) the same position if delta:norm() < 0.1 then delta:update(function (n, value) return 0.1 + lib.random() * 0.1 end) end -- compute the repulsive force vector local repulsive_force = approximated_repulsive_force(delta:norm(), cell.mass) local force = delta:normalized():timesScalar(repulsive_force) -- TODO for each neighbor of v, check if it is in this cell. -- if this is the case, compute the quadtree force for the mass -- 'node.weight / cell.mass' and remember this as the repulsive -- force of the neighbor; (it is not necessarily at -- the center of mass of the cell, so the result is only an -- approximation of the real repulsive force generated by the -- neighbor) -- move the node v accordingly d = d:plus(force) end end else for _,u in ipairs(graph.nodes) do if u.name ~= v.name then -- compute the distance between u and v local delta = u.pos:minus(v.pos) -- enforce a small virtual distance if the nodes are -- located at (almost) the same position if delta:norm() < 0.1 then delta:update(function (n, value) return 0.1 + lib.random() * 0.1 end) end -- compute the repulsive force vector local repulsive_force = accurate_repulsive_force(delta:norm(), u.weight) local force = delta:normalized():timesScalar(repulsive_force) -- remember the repulsive force so we can later subtract them -- when computing the attractive forces repulsive_forces[u] = repulsive_force -- move the node v accordingly d = d:plus(force) end end end -- compute attractive forces between v and its neighbors for _,edge in ipairs(v.edges) do local u = edge:getNeighbour(v) -- compute the distance between u and v local delta = u.pos:minus(v.pos) -- enforce a small virtual distance if the nodes are -- located at (almost) the same position if delta:norm() < 0.1 then delta:update(function (n, value) return 0.1 + lib.random() * 0.1 end) end -- compute the spring force between them local attr_force = attractive_force(delta:norm(), #v.edges, u.weight, u.charged, repulsive_forces[u]) local force = delta:normalized():timesScalar(attr_force) -- move the node v accordingly d = d:plus(force) end -- remember the previous position of v old_position = v.pos:copy() if d:norm() > 0 then -- reposition v according to the force vector and the current temperature v.pos = v.pos:plus(d:normalized():timesScalar(math.min(step_length, d:norm()))) end -- we need to improve the system energy as long as any of -- the node movements is large enough to assume we're far -- away from the minimum system energy if v.pos:minus(old_position):norm() > spring_length * self.convergence_tolerance then converged = false end end end -- update the step length using the conservative cooling scheme step_length = self.cooling_factor * step_length end end -- Fixes nodes at their specified positions. -- function SpringElectricalWalshaw2000:fixateNodes(graph) local number_of_fixed_nodes = 0 for _,node in ipairs(graph.nodes) do -- read the 'desired at' option of the node local coordinate = node:getOption('desired at') if coordinate then -- parse the coordinate node.pos.x = coordinate.x node.pos.y = coordinate.y -- mark the node as fixed node.fixed = true number_of_fixed_nodes = number_of_fixed_nodes + 1 end end if number_of_fixed_nodes > 1 then self.growth_direction = "fixed" -- do not grow, orientation is now fixed end end function SpringElectricalWalshaw2000:buildQuadtree(graph) -- compute the minimum x and y coordinates of all nodes local min_pos = graph.nodes[1].pos for _,node in ipairs(graph.nodes) do min_pos = Vector.new(2, function (n) return math.min(min_pos[n], node.pos[n]) end) end -- compute maximum x and y coordinates of all nodes local max_pos = graph.nodes[1].pos for _,node in ipairs(graph.nodes) do max_pos = Vector.new(2, function (n) return math.max(max_pos[n], node.pos[n]) end) end -- make sure the maximum position is at least a tiny bit -- larger than the minimum position if min_pos:equals(max_pos) then max_pos = max_pos:plus(Vector.new(2, function (n) return 0.1 + lib.random() * 0.1 end)) end -- make sure to make the quadtree area slightly larger than required -- in theory; for some reason Lua will otherwise think that nodes with -- min/max x/y coordinates are outside the box... weird? yes. min_pos = min_pos:minusScalar(1) max_pos = max_pos:plusScalar(1) -- create the quadtree quadtree = QuadTree.new(min_pos.x, min_pos.y, max_pos.x - min_pos.x, max_pos.y - min_pos.y) -- insert nodes into the quadtree for _,node in ipairs(graph.nodes) do local particle = QuadTree.Particle.new(node.pos, node.weight) particle.node = node quadtree:insert(particle) end return quadtree end -- done return SpringElectricalWalshaw2000