#!/usr/bin/python3 import sys, os.path, re import json, sqlite3 usageInfo = f""" Usage: {sys.argv[0]} [tree1] Creates reduced versions of the tree in the database: - A 'picked nodes' tree: Created from a minimal set of node names read from a file, possibly with some extra randmly-picked children. - An 'images only' tree: Created by removing nodes without an image or presence in the 'picked' tree. - A 'weakly trimmed' tree: Created by removing nodes that lack an image or description, or presence in the 'picked' tree. And, for nodes with 'many' children, removing some more, despite any node descriptions. If tree1 is specified, as 'picked', 'images', or 'trimmed', only that tree is generated. """ if len(sys.argv) > 2 or len(sys.argv) == 2 and re.fullmatch(r"picked|images|trimmed", sys.argv[1]) == None: print(usageInfo, file=sys.stderr) sys.exit(1) tree = sys.argv[1] if len(sys.argv) > 1 else None dbFile = "data.db" pickedNodesFile = "pickedNodes.txt" COMP_NAME_REGEX = re.compile(r"\[.+ \+ .+]") # Used to recognise composite nodes class Node: def __init__(self, id, children, parent, tips, pSupport): self.id = id self.children = children self.parent = parent self.tips = tips self.pSupport = pSupport print("Opening database") dbCon = sqlite3.connect(dbFile) dbCur = dbCon.cursor() def genPickedNodeTree(dbCur, pickedNames, rootName): global COMP_NAME_REGEX PREF_NUM_CHILDREN = 3 # Include extra children up to this limit nodeMap = {} # Maps node names to Nodes print("Getting ancestors") nodeMap = genNodeMap(dbCur, pickedNames, 100) print(f"Result has {len(nodeMap)} nodes") print("Removing composite nodes") removedNames = removeCompositeNodes(nodeMap) print(f"Result has {len(nodeMap)} nodes") print("Removing 'collapsible' nodes") temp = removeCollapsibleNodes(nodeMap, pickedNames) removedNames.update(temp) print(f"Result has {len(nodeMap)} nodes") print("Adding some additional nearby children") namesToAdd = [] iterNum = 0 for (name, node) in nodeMap.items(): iterNum += 1 if iterNum % 100 == 0: print(f"At iteration {iterNum}") # numChildren = len(node.children) if numChildren < PREF_NUM_CHILDREN: children = [row[0] for row in dbCur.execute("SELECT child FROM edges where parent = ?", (name,))] newChildren = [] for n in children: if n in nodeMap or n in removedNames: continue if COMP_NAME_REGEX.fullmatch(n) != None: continue if dbCur.execute("SELECT name from node_imgs WHERE name = ?", (n,)).fetchone() == None and \ dbCur.execute("SELECT name from linked_imgs WHERE name = ?", (n,)).fetchone() == None: continue newChildren.append(n) newChildNames = newChildren[:(PREF_NUM_CHILDREN - numChildren)] node.children.extend(newChildNames) namesToAdd.extend(newChildNames) for name in namesToAdd: parent, pSupport = dbCur.execute("SELECT parent, p_support from edges WHERE child = ?", (name,)).fetchone() (id,) = dbCur.execute("SELECT id FROM nodes WHERE name = ?", (name,)).fetchone() parent = None if parent == "" else parent nodeMap[name] = Node(id, [], parent, 0, pSupport == 1) print(f"Result has {len(nodeMap)} nodes") print("Updating 'tips' values") updateTips(rootName, nodeMap) print("Creating table") addTreeTables(nodeMap, dbCur, "p") def genImagesOnlyTree(dbCur, nodesWithImgOrPicked, pickedNames, rootName): print("Getting ancestors") nodeMap = genNodeMap(dbCur, nodesWithImgOrPicked, 1e4) print(f"Result has {len(nodeMap)} nodes") print("Removing composite nodes") removeCompositeNodes(nodeMap) print(f"Result has {len(nodeMap)} nodes") print("Removing 'collapsible' nodes") removeCollapsibleNodes(nodeMap, pickedNames) print(f"Result has {len(nodeMap)} nodes") print(f"Updating 'tips' values") # Needed for next trimming step updateTips(rootName, nodeMap) print(f"Trimming from nodes with 'many' children") trimIfManyChildren(nodeMap, rootName, 300, pickedNames) print(f"Result has {len(nodeMap)} nodes") print(f"Updating 'tips' values") updateTips(rootName, nodeMap) print("Creating table") addTreeTables(nodeMap, dbCur, "i") def genWeaklyTrimmedTree(dbCur, nodesWithImgDescOrPicked, nodesWithImgOrPicked, rootName): print("Getting ancestors") nodeMap = genNodeMap(dbCur, nodesWithImgDescOrPicked, 1e5) print(f"Result has {len(nodeMap)} nodes") print("Getting nodes to 'strongly keep'") iterNum = 0 nodesFromImgOrPicked = set() for name in nodesWithImgOrPicked: iterNum += 1 if iterNum % 1e4 == 0: print(f"At iteration {iterNum}") # while name != None: if name not in nodesFromImgOrPicked: nodesFromImgOrPicked.add(name) name = nodeMap[name].parent else: break print(f"Node set has {len(nodesFromImgOrPicked)} nodes") print("Removing 'collapsible' nodes") removeCollapsibleNodes(nodeMap, nodesWithImgDescOrPicked) print(f"Result has {len(nodeMap)} nodes") print(f"Updating 'tips' values") # Needed for next trimming step updateTips(rootName, nodeMap) print(f"Trimming from nodes with 'many' children") trimIfManyChildren(nodeMap, rootName, 600, nodesFromImgOrPicked) print(f"Result has {len(nodeMap)} nodes") print(f"Updating 'tips' values") updateTips(rootName, nodeMap) print("Creating table") addTreeTables(nodeMap, dbCur, "t") # Helper functions def genNodeMap(dbCur, nameSet, itersBeforePrint = 1): " Returns a subtree that includes nodes in 'nameSet', as a name-to-Node map " nodeMap = {} iterNum = 0 for name in nameSet: iterNum += 1 if iterNum % itersBeforePrint == 0: print(f"At iteration {iterNum}") # prevName = None while name != None: if name not in nodeMap: # Add node (id, tips) = dbCur.execute("SELECT id, tips from nodes where name = ?", (name,)).fetchone() row = dbCur.execute("SELECT parent, p_support from edges where child = ?", (name,)).fetchone() parent = None if row == None or row[0] == "" else row[0] pSupport = row == None or row[1] == 1 children = [] if prevName == None else [prevName] nodeMap[name] = Node(id, children, parent, 0, pSupport) # Iterate to parent prevName = name name = parent else: # Just add as child if prevName != None: nodeMap[name].children.append(prevName) break return nodeMap def removeCompositeNodes(nodeMap): " Given a tree, removes composite-name nodes, and returns the removed nodes' names " global COMP_NAME_REGEX namesToRemove = set() for (name, node) in nodeMap.items(): parent = node.parent if parent != None and COMP_NAME_REGEX.fullmatch(name) != None: # Connect children to parent nodeMap[parent].children.remove(name) nodeMap[parent].children.extend(node.children) for n in node.children: nodeMap[n].parent = parent nodeMap[n].pSupport &= node.pSupport # Remember for removal namesToRemove.add(name) for name in namesToRemove: del nodeMap[name] return namesToRemove def removeCollapsibleNodes(nodeMap, nodesToKeep = {}): """ Given a tree, removes single-child parents, then only-childs, with given exceptions, and returns the set of removed nodes' names """ namesToRemove = set() # Remove single-child parents for (name, node) in nodeMap.items(): if len(node.children) == 1 and node.parent != None and name not in nodesToKeep: # Connect parent and children parent = node.parent child = node.children[0] nodeMap[parent].children.remove(name) nodeMap[parent].children.append(child) nodeMap[child].parent = parent nodeMap[child].pSupport &= node.pSupport # Remember for removal namesToRemove.add(name) for name in namesToRemove: del nodeMap[name] # Remove only-childs (not redundant because 'nodesToKeep' can cause single-child parents to be kept) namesToRemove.clear() for (name, node) in nodeMap.items(): isOnlyChild = node.parent != None and len(nodeMap[node.parent].children) == 1 if isOnlyChild and name not in nodesToKeep: # Connect parent and children parent = node.parent nodeMap[parent].children = node.children for n in node.children: nodeMap[n].parent = parent nodeMap[n].pSupport &= node.pSupport # Remember for removal namesToRemove.add(name) for name in namesToRemove: del nodeMap[name] # return namesToRemove def trimIfManyChildren(nodeMap, rootName, childThreshold, nodesToKeep = {}): namesToRemove = set() def findTrimmables(nodeName): nonlocal nodeMap, nodesToKeep node = nodeMap[nodeName] if len(node.children) > childThreshold: numToTrim = len(node.children) - childThreshold # Try removing nodes, preferring those with less tips candidatesToTrim = [n for n in node.children if n not in nodesToKeep] childToTips = {n: nodeMap[n].tips for n in candidatesToTrim} candidatesToTrim.sort(key=lambda n: childToTips[n], reverse=True) childrenToRemove = set(candidatesToTrim[-numToTrim:]) node.children = [n for n in node.children if n not in childrenToRemove] # Mark nodes for deletion for n in childrenToRemove: markForRemoval(n) # Recurse on children for n in node.children: findTrimmables(n) def markForRemoval(nodeName): nonlocal nodeMap, namesToRemove namesToRemove.add(nodeName) for child in nodeMap[nodeName].children: markForRemoval(child) findTrimmables(rootName) for nodeName in namesToRemove: del nodeMap[nodeName] def updateTips(nodeName, nodeMap): " Updates the 'tips' values for a node and it's descendants, returning the node's new 'tips' value " node = nodeMap[nodeName] tips = sum([updateTips(childName, nodeMap) for childName in node.children]) tips = max(1, tips) node.tips = tips return tips def addTreeTables(nodeMap, dbCur, suffix): " Adds a tree to the database, as tables nodes_X and edges_X, where X is the given suffix " nodesTbl = f"nodes_{suffix}" edgesTbl = f"edges_{suffix}" dbCur.execute(f"CREATE TABLE {nodesTbl} (name TEXT PRIMARY KEY, id TEXT UNIQUE, tips INT)") dbCur.execute(f"CREATE INDEX {nodesTbl}_idx_nc ON {nodesTbl}(name COLLATE NOCASE)") dbCur.execute(f"CREATE TABLE {edgesTbl} (parent TEXT, child TEXT, p_support INT, PRIMARY KEY (parent, child))") dbCur.execute(f"CREATE INDEX {edgesTbl}_child_idx ON {edgesTbl}(child)") for (name, node) in nodeMap.items(): dbCur.execute(f"INSERT INTO {nodesTbl} VALUES (?, ?, ?)", (name, node.id, node.tips)) for childName in node.children: pSupport = 1 if nodeMap[childName].pSupport else 0 dbCur.execute(f"INSERT INTO {edgesTbl} VALUES (?, ?, ?)", (name, childName, pSupport)) print(f"Finding root node") query = "SELECT name FROM nodes LEFT JOIN edges ON nodes.name = edges.child WHERE edges.parent IS NULL LIMIT 1" (rootName,) = dbCur.execute(query).fetchone() print(f"Found \"{rootName}\"") print('=== Getting picked-nodes ===') pickedNames = set() pickedTreeExists = False if dbCur.execute("SELECT name FROM sqlite_master WHERE type='table' AND name='nodes_p'").fetchone() == None: print(f"Reading from {pickedNodesFile}") with open(pickedNodesFile) as file: for line in file: name = line.rstrip() row = dbCur.execute("SELECT name from nodes WHERE name = ?", (name,)).fetchone() if row == None: row = dbCur.execute("SELECT name from names WHERE alt_name = ?", (name,)).fetchone() if row != None: pickedNames.add(row[0]) if len(pickedNames) == 0: raise Exception("ERROR: No picked names found") else: pickedTreeExists = True print("Picked-node tree already exists") if tree == 'picked': sys.exit() for (name,) in dbCur.execute("SELECT name FROM nodes_p"): pickedNames.add(name) print(f"Found {len(pickedNames)} names") if (tree == 'picked' or tree == None) and not pickedTreeExists: print("=== Generating picked-nodes tree ===") genPickedNodeTree(dbCur, pickedNames, rootName) if tree != 'picked': print("=== Finding 'non-low significance' nodes ===") nodesWithImgOrPicked = set() nodesWithImgDescOrPicked = set() print("Finding nodes with descs") for (name,) in dbCur.execute("SELECT name FROM wiki_ids"): # Can assume the wiki_id has a desc nodesWithImgDescOrPicked.add(name) print("Finding nodes with images") for (name,) in dbCur.execute("SELECT name FROM node_imgs"): nodesWithImgDescOrPicked.add(name) nodesWithImgOrPicked.add(name) print("Adding picked nodes") for name in pickedNames: nodesWithImgDescOrPicked.add(name) nodesWithImgOrPicked.add(name) if tree == 'images' or tree == None: print("=== Generating images-only tree ===") genImagesOnlyTree(dbCur, nodesWithImgOrPicked, pickedNames, rootName) if tree == 'trimmed' or tree == None: print("=== Generating weakly-trimmed tree ===") genWeaklyTrimmedTree(dbCur, nodesWithImgDescOrPicked, nodesWithImgOrPicked, rootName) print("Closing database") dbCon.commit() dbCon.close()