//---------------------------------------------------------------------- // File: kd_dump.cc // Programmer: David Mount // Description: Dump and Load for kd- and bd-trees // Last modified: 01/04/05 (Version 1.0) //---------------------------------------------------------------------- // Copyright (c) 1997-2005 University of Maryland and Sunil Arya and // David Mount. All Rights Reserved. // // This software and related documentation is part of the Approximate // Nearest Neighbor Library (ANN). This software is provided under // the provisions of the Lesser GNU Public License (LGPL). See the // file ../ReadMe.txt for further information. // // The University of Maryland (U.M.) and the authors make no // representations about the suitability or fitness of this software for // any purpose. It is provided "as is" without express or implied // warranty. //---------------------------------------------------------------------- // History: // Revision 0.1 03/04/98 // Initial release // Revision 1.0 04/01/05 // Moved dump out of kd_tree.cc into this file. // Added kd-tree load constructor. //---------------------------------------------------------------------- // This file contains routines for dumping kd-trees and bd-trees and // reloading them. (It is an abuse of policy to include both kd- and // bd-tree routines in the same file, sorry. There should be no problem // in deleting the bd- versions of the routines if they are not // desired.) //---------------------------------------------------------------------- #include "kd_tree.h" // kd-tree declarations #include "bd_tree.h" // bd-tree declarations using namespace std; // make std:: available //---------------------------------------------------------------------- // Constants //---------------------------------------------------------------------- const int STRING_LEN = 500; // maximum string length const double EPSILON = 1E-5; // small number for float comparison enum ANNtreeType {KD_TREE, BD_TREE}; // tree types (used in loading) //---------------------------------------------------------------------- // Procedure declarations //---------------------------------------------------------------------- static ANNkd_ptr annReadDump( // read dump file istream &in, // input stream ANNtreeType tree_type, // type of tree expected ANNpointArray &the_pts, // new points (if applic) ANNidxArray &the_pidx, // point indices (returned) int &the_dim, // dimension (returned) int &the_n_pts, // number of points (returned) int &the_bkt_size, // bucket size (returned) ANNpoint &the_bnd_box_lo, // low bounding point ANNpoint &the_bnd_box_hi); // high bounding point static ANNkd_ptr annReadTree( // read tree-part of dump file istream &in, // input stream ANNtreeType tree_type, // type of tree expected ANNidxArray the_pidx, // point indices (modified) int &next_idx); // next index (modified) //---------------------------------------------------------------------- // ANN kd- and bd-tree Dump Format // The dump file begins with a header containing the version of // ANN, an optional section containing the points, followed by // a description of the tree. The tree is printed in preorder. // // Format: // #ANN [END_OF_LINE] // points (point coordinates: this is optional) // 0 ... (point indices and coordinates) // 1 ... // ... // tree // ... (lower end of bounding box) // ... (upper end of bounding box) // If the tree is null, then a single line "null" is // output. Otherwise the nodes of the tree are printed // one per line in preorder. Leaves and splitting nodes // have the following formats: // Leaf node: // leaf ... // Splitting nodes: // split // // For bd-trees: // // Shrinking nodes: // shrink // // // ... (repeated n_bnds times) //---------------------------------------------------------------------- void ANNkd_tree::Dump( // dump entire tree ANNbool with_pts, // print points as well? ostream &out) // output stream { out << "#ANN " << ANNversion << "\n"; out.precision(ANNcoordPrec); // use full precision in dumping if (with_pts) { // print point coordinates out << "points " << dim << " " << n_pts << "\n"; for (int i = 0; i < n_pts; i++) { out << i << " "; annPrintPt(pts[i], dim, out); out << "\n"; } } out << "tree " // print tree elements << dim << " " << n_pts << " " << bkt_size << "\n"; annPrintPt(bnd_box_lo, dim, out); // print lower bound out << "\n"; annPrintPt(bnd_box_hi, dim, out); // print upper bound out << "\n"; if (root == NULL) // empty tree? out << "null\n"; else { root->dump(out); // invoke printing at root } out.precision(0); // restore default precision } void ANNkd_split::dump( // dump a splitting node ostream &out) // output stream { out << "split " << cut_dim << " " << cut_val << " "; out << cd_bnds[ANN_LO] << " " << cd_bnds[ANN_HI] << "\n"; child[ANN_LO]->dump(out); // print low child child[ANN_HI]->dump(out); // print high child } void ANNkd_leaf::dump( // dump a leaf node ostream &out) // output stream { if (this == KD_TRIVIAL) { // canonical trivial leaf node out << "leaf 0\n"; // leaf no points } else{ out << "leaf " << n_pts; for (int j = 0; j < n_pts; j++) { out << " " << bkt[j]; } out << "\n"; } } void ANNbd_shrink::dump( // dump a shrinking node ostream &out) // output stream { out << "shrink " << n_bnds << "\n"; for (int j = 0; j < n_bnds; j++) { out << bnds[j].cd << " " << bnds[j].cv << " " << bnds[j].sd << "\n"; } child[ANN_IN]->dump(out); // print in-child child[ANN_OUT]->dump(out); // print out-child } //---------------------------------------------------------------------- // Load kd-tree from dump file // This rebuilds a kd-tree which was dumped to a file. The dump // file contains all the basic tree information according to a // preorder traversal. We assume that the dump file also contains // point data. (This is to guarantee the consistency of the tree.) // If not, then an error is generated. // // Indirectly, this procedure allocates space for points, point // indices, all nodes in the tree, and the bounding box for the // tree. When the tree is destroyed, all but the points are // deallocated. // // This routine calls annReadDump to do all the work. //---------------------------------------------------------------------- ANNkd_tree::ANNkd_tree( // build from dump file istream &in) // input stream for dump file { int the_dim; // local dimension int the_n_pts; // local number of points int the_bkt_size; // local number of points ANNpoint the_bnd_box_lo; // low bounding point ANNpoint the_bnd_box_hi; // high bounding point ANNpointArray the_pts; // point storage ANNidxArray the_pidx; // point index storage ANNkd_ptr the_root; // root of the tree the_root = annReadDump( // read the dump file in, // input stream KD_TREE, // expecting a kd-tree the_pts, // point array (returned) the_pidx, // point indices (returned) the_dim, the_n_pts, the_bkt_size, // basic tree info (returned) the_bnd_box_lo, the_bnd_box_hi); // bounding box info (returned) // create a skeletal tree SkeletonTree(the_n_pts, the_dim, the_bkt_size, the_pts, the_pidx); bnd_box_lo = the_bnd_box_lo; bnd_box_hi = the_bnd_box_hi; root = the_root; // set the root } ANNbd_tree::ANNbd_tree( // build bd-tree from dump file istream &in) : ANNkd_tree() // input stream for dump file { int the_dim; // local dimension int the_n_pts; // local number of points int the_bkt_size; // local number of points ANNpoint the_bnd_box_lo; // low bounding point ANNpoint the_bnd_box_hi; // high bounding point ANNpointArray the_pts; // point storage ANNidxArray the_pidx; // point index storage ANNkd_ptr the_root; // root of the tree the_root = annReadDump( // read the dump file in, // input stream BD_TREE, // expecting a bd-tree the_pts, // point array (returned) the_pidx, // point indices (returned) the_dim, the_n_pts, the_bkt_size, // basic tree info (returned) the_bnd_box_lo, the_bnd_box_hi); // bounding box info (returned) // create a skeletal tree SkeletonTree(the_n_pts, the_dim, the_bkt_size, the_pts, the_pidx); bnd_box_lo = the_bnd_box_lo; bnd_box_hi = the_bnd_box_hi; root = the_root; // set the root } //---------------------------------------------------------------------- // annReadDump - read a dump file // // This procedure reads a dump file, constructs a kd-tree // and returns all the essential information needed to actually // construct the tree. Because this procedure is used for // constructing both kd-trees and bd-trees, the second argument // is used to indicate which type of tree we are expecting. //---------------------------------------------------------------------- static ANNkd_ptr annReadDump( istream &in, // input stream ANNtreeType tree_type, // type of tree expected ANNpointArray &the_pts, // new points (returned) ANNidxArray &the_pidx, // point indices (returned) int &the_dim, // dimension (returned) int &the_n_pts, // number of points (returned) int &the_bkt_size, // bucket size (returned) ANNpoint &the_bnd_box_lo, // low bounding point (ret'd) ANNpoint &the_bnd_box_hi) // high bounding point (ret'd) { int j; char str[STRING_LEN]; // storage for string char version[STRING_LEN]; // ANN version number ANNkd_ptr the_root = NULL; //------------------------------------------------------------------ // Input file header //------------------------------------------------------------------ in >> str; // input header if (strcmp(str, "#ANN") != 0) { // incorrect header annError("Incorrect header for dump file", ANNabort); } in.getline(version, STRING_LEN); // get version (ignore) //------------------------------------------------------------------ // Input the points // An array the_pts is allocated and points are read from // the dump file. //------------------------------------------------------------------ in >> str; // get major heading if (strcmp(str, "points") == 0) { // points section in >> the_dim; // input dimension in >> the_n_pts; // number of points // allocate point storage the_pts = annAllocPts(the_n_pts, the_dim); for (int i = 0; i < the_n_pts; i++) { // input point coordinates ANNidx idx; // point index in >> idx; // input point index if (idx < 0 || idx >= the_n_pts) { annError("Point index is out of range", ANNabort); } for (j = 0; j < the_dim; j++) { in >> the_pts[idx][j]; // read point coordinates } } in >> str; // get next major heading } else { // no points were input annError("Points must be supplied in the dump file", ANNabort); } //------------------------------------------------------------------ // Input the tree // After the basic header information, we invoke annReadTree // to do all the heavy work. We create our own array of // point indices (so we can pass them to annReadTree()) // but we do not deallocate them. They will be deallocated // when the tree is destroyed. //------------------------------------------------------------------ if (strcmp(str, "tree") == 0) { // tree section in >> the_dim; // read dimension in >> the_n_pts; // number of points in >> the_bkt_size; // bucket size the_bnd_box_lo = annAllocPt(the_dim); // allocate bounding box pts the_bnd_box_hi = annAllocPt(the_dim); for (j = 0; j < the_dim; j++) { // read bounding box low in >> the_bnd_box_lo[j]; } for (j = 0; j < the_dim; j++) { // read bounding box low in >> the_bnd_box_hi[j]; } the_pidx = new ANNidx[the_n_pts]; // allocate point index array int next_idx = 0; // number of indices filled // read the tree and indices the_root = annReadTree(in, tree_type, the_pidx, next_idx); if (next_idx != the_n_pts) { // didn't see all the points? annError("Didn't see as many points as expected", ANNwarn); } } else { annError("Illegal dump format. Expecting section heading", ANNabort); } return the_root; } //---------------------------------------------------------------------- // annReadTree - input tree and return pointer // // annReadTree reads in a node of the tree, makes any recursive // calls as needed to input the children of this node (if internal). // It returns a pointer to the node that was created. An array // of point indices is given along with a pointer to the next // available location in the array. As leaves are read, their // point indices are stored here, and the point buckets point // to the first entry in the array. // // Recall that these are the formats. The tree is given in // preorder. // // Leaf node: // leaf ... // Splitting nodes: // split // // For bd-trees: // // Shrinking nodes: // shrink // // // ... (repeated n_bnds times) //---------------------------------------------------------------------- static ANNkd_ptr annReadTree( istream &in, // input stream ANNtreeType tree_type, // type of tree expected ANNidxArray the_pidx, // point indices (modified) int &next_idx) // next index (modified) { char tag[STRING_LEN]; // tag (leaf, split, shrink) int n_pts; // number of points in leaf int cd; // cut dimension ANNcoord cv; // cut value ANNcoord lb; // low bound ANNcoord hb; // high bound int n_bnds; // number of bounding sides int sd; // which side in >> tag; // input node tag if (strcmp(tag, "null") == 0) { // null tree return NULL; } //------------------------------------------------------------------ // Read a leaf //------------------------------------------------------------------ if (strcmp(tag, "leaf") == 0) { // leaf node in >> n_pts; // input number of points int old_idx = next_idx; // save next_idx if (n_pts == 0) { // trivial leaf return KD_TRIVIAL; } else { for (int i = 0; i < n_pts; i++) { // input point indices in >> the_pidx[next_idx++]; // store in array of indices } } return new ANNkd_leaf(n_pts, &the_pidx[old_idx]); } //------------------------------------------------------------------ // Read a splitting node //------------------------------------------------------------------ else if (strcmp(tag, "split") == 0) { // splitting node in >> cd >> cv >> lb >> hb; // read low and high subtrees ANNkd_ptr lc = annReadTree(in, tree_type, the_pidx, next_idx); ANNkd_ptr hc = annReadTree(in, tree_type, the_pidx, next_idx); // create new node and return return new ANNkd_split(cd, cv, lb, hb, lc, hc); } //------------------------------------------------------------------ // Read a shrinking node (bd-tree only) //------------------------------------------------------------------ else if (strcmp(tag, "shrink") == 0) { // shrinking node if (tree_type != BD_TREE) { annError("Shrinking node not allowed in kd-tree", ANNabort); } in >> n_bnds; // number of bounding sides // allocate bounds array ANNorthHSArray bds = new ANNorthHalfSpace[n_bnds]; for (int i = 0; i < n_bnds; i++) { in >> cd >> cv >> sd; // input bounding halfspace // copy to array bds[i] = ANNorthHalfSpace(cd, cv, sd); } // read inner and outer subtrees ANNkd_ptr ic = annReadTree(in, tree_type, the_pidx, next_idx); ANNkd_ptr oc = annReadTree(in, tree_type, the_pidx, next_idx); // create new node and return return new ANNbd_shrink(n_bnds, bds, ic, oc); } else { annError("Illegal node type in dump file", ANNabort); exit(0); // to keep the compiler happy } }