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/* tour.c */
/*
* ggobi
* Copyright (C) AT&T, Duncan Temple Lang, Dianne Cook 1999-2005
*
* ggobi is free software; you may use, redistribute, and/or modify it
* under the terms of the Common Public License, which is distributed
* with the source code and displayed on the ggobi web site,
* www.ggobi.org. For more information, contact the authors:
*
* Deborah F. Swayne dfs@research.att.com
* Di Cook dicook@iastate.edu
* Duncan Temple Lang duncan@wald.ucdavis.edu
* Andreas Buja andreas.buja@wharton.upenn.edu
*/
#include "stdlib.h"
#include <gtk/gtk.h>
#ifdef USE_STRINGS_H
#include <strings.h>
#endif
#include <math.h>
#include <stdlib.h>
/*#include <time.h>
#include <sys/time.h>*/
#include <unistd.h>
#include "vars.h"
#include "externs.h"
void
zero_tau (vector_f tau, gint projdim) {
gint k;
for (k=0; k<projdim; k++)
tau.els[k] = 0.0;
}
void
zero_tinc(vector_f tinc, gint projdim) {
gint k;
for (k=0; k<projdim; k++)
tinc.els[k] = 0.0;
}
void
zero_lambda(vector_f lambda, gint projdim) {
gint k;
for (k=0; k<projdim; k++)
lambda.els[k] = 0.0;
}
void
norm(gdouble *x, gint n)
{
gint j;
gdouble xn = 0;
for (j=0; j<n; j++)
xn = xn + (x[j]*x[j]);
xn = sqrt(xn);
for (j=0; j<n; j++)
x[j] = x[j]/xn;
}
gdouble
calc_norm(gdouble *x, gint n)
{
gint j;
gdouble xn = 0;
for (j=0; j<n; j++)
xn = xn + (x[j]*x[j]);
xn = sqrt(xn);
return(xn);
}
gdouble
inner_prod(gdouble *x1, gdouble *x2, gint n)
{
gdouble xip;
gint j;
xip = 0.;
for (j=0; j<n; j++)
xip = xip + x1[j]*x2[j];
return(xip);
}
/* orthonormalizes vector 2 on vector */
gboolean
gram_schmidt(gdouble *x1, gdouble *x2, gint n)
{
gint j;
gdouble ip;
gdouble tol=0.99;
gboolean ok = true;
ip = inner_prod(x1, x2, n);
if (fabs(ip) < tol) { /* If the two vectors are not orthogonal already */
for (j=0; j<n; j++)
x2[j] = x2[j] - ip*x1[j];
norm(x2, n);
}
else if (fabs(ip) > 1.0-tol)
ok = false; /* If the two vectors are close to being equal */
return(ok);
}
/* checks columns of matrix are orthonormal */
gboolean checkcolson(gdouble **ut, gint datadim, gint projdim) {
gint j, k;
gdouble tol = 0.01;
gboolean ok = true;/* true means cols are o.n. */
for (j=0; j<projdim; j++) {
if (fabs(1.-calc_norm(ut[j], datadim)) > tol) {
ok = false;
return(ok);
}
}
for (j=0; j<projdim-1; j++) {
for (k=j+1; k<projdim; k++) {
if (fabs(inner_prod(ut[j],ut[k],datadim)) > tol) {
ok = false;
return(ok);
}
}
}
return(ok);
}
gboolean checkequiv(gdouble **Fa, gdouble **Fz, gint datadim, gint projdim) {
gint j;
gdouble ftmp, tol = 0.0001;
gboolean ok = true; /* false = the two are the same */
for (j=0; j<projdim; j++) {
ftmp = inner_prod(Fa[j], Fz[j], datadim);
/* printf("checkequiv %f \n",ftmp);*/
/* if ftmp is close to zero it says the4 two vectors are close
to being identical */
if (fabs(1.-ftmp) < tol) {
ok = false;
return(ok);
}
}
return(ok);
}
/* matrix multiplication UV */
gboolean matmult_uv(gdouble **ut, gdouble **vt, gint ur, gint uc,
gint vr, gint vc, gdouble **ot) {
gint i, j, k;
gboolean ok = true;
if (uc != vr) {
ok = false;
return(ok);
}
for (j=0; j<ur; j++) {
for (k=0; k<vc; k++) {
ot[k][j] = 0.0;
for (i=0; i<uc; i++) {
ot[k][j] += (ut[i][j]*vt[k][i]);
}
}
}
return(ok);
}
/* matrix multiplication U'V */
gboolean matmult_utv(gdouble **ut, gdouble **vt, gint ur, gint uc,
gint vr, gint vc, gdouble **ot) {
gint i, j, k;
gboolean ok = true;
if (ur != vr) {
ok = false;
return(ok);
}
for (j=0; j<uc; j++) {
for (k=0; k<vc; k++) {
ot[k][j] = 0.0;
for (i=0; i<ur; i++) {
ot[k][j] += (ut[j][i]*vt[k][i]);
}
}
}
return(ok);
}
/* matrix multiplication UV */
gboolean matmult_uvt(gdouble **ut, gdouble **vt, gint ur, gint uc,
gint vr, gint vc, gdouble **ot) {
gint i, j, k;
gboolean ok = true;
if (uc != vc) {
ok = false;
return(ok);
}
for (j=0; j<ur; j++) {
for (k=0; k<vr; k++) {
ot[k][j] = 0.0;
for (i=0; i<uc; i++) {
ot[k][j] += (ut[i][j]*vt[i][k]);
}
}
}
return(ok);
}
/* copy matrix ot=out matrix, it=in matrix */
void copy_mat(gdouble **ot, gdouble **it, gint nr, gint datadim) {
gint j, k;
for (j=0; j<nr; j++)
for (k=0; k<datadim; k++)
ot[k][j] = it[k][j];
}
/* orthonormalize x2 on x1, just by diagonals should be enough for this
tour code */
void
matgram_schmidt(gdouble **x1, gdouble **x2, gint nr, gint datadim)
{
gint j, k;
gdouble ip;
for (j=0; j<datadim; j++) {
norm(x1[j], nr);
norm(x2[j], nr);
ip = inner_prod(x1[j], x2[j], nr);
for (k=0; k<nr; k++)
x2[j][k] = x2[j][k] - ip*x1[j][k];
norm(x2[j], nr);
}
}
void
eigen_clear (array_d Ga, array_d Gz, vector_f lambda, vector_f tau,
vector_f tinc, gint datadim)
{
/* GGobiData *d = dsp->d;
gint datadim = d->ncols;*/
gint j, k;
for (j=0; j<datadim; j++) {
for (k=0; k<datadim; k++) {
Ga.vals[j][k] = 0.;
Gz.vals[j][k] = 0.;
}
lambda.els[j] = 0.;
tau.els[j] = 0.;
tinc.els[j] = 0.;
}
}
/* Fa = starting projection
* Fz = target projection
* F = interpolated projection
* datadim = num vars
* projdim = proj dim
*/
gint tour_path(array_d Fa, array_d Fz, array_d F, gint datadim, gint projdim,
array_d Ga, array_d Gz, array_d G, vector_f lambda, array_d tv,
array_d Va, array_d Vz, vector_f tau, vector_f tinc, gfloat *pdist_az,
gfloat *ptang)
{
gint i, j, k;
gdouble tol = 0.01;
gdouble tmpd1 = 0.0, tmpd2 = 0.0, tmpd =0.0;
gboolean doit = true;
paird *pairs = (paird *) g_malloc (projdim * sizeof (paird));
gfloat *e = (gfloat *) g_malloc (projdim * sizeof (gfloat));
gint dI; /* dimension of intersection of base pair */
gfloat **ptinc = (gfloat **) g_malloc (2 * sizeof (gfloat *));
gfloat dist_az = *pdist_az;
gfloat tang = *ptang;
zero_tau(tau, projdim);
zero_tinc(tinc, projdim);
zero_lambda(lambda, projdim);
for (i=0; i<projdim; i++)
for (j=0; j<datadim; j++)
{
Ga.vals[i][j] = 0.0;
Gz.vals[i][j] = 0.0;
G.vals[i][j] = 0.0;
Va.vals[i][j] = 0.0;
}
dist_az = 0.0;
tang = 0.0;
/* 2 is hard-wired because it relates to cos, sin
and nothing else. */
for (i=0; i<2; i++)
ptinc[i] = (gfloat *) g_malloc (projdim * sizeof (gfloat));
/* Check that Fa and Fz are both orthonormal. */
if (!checkcolson(Fa.vals, datadim, projdim)) {
/*g_printerr("Columns of Fa are not orthonormal: get new Fa\n");
g_printerr ("Fa: ");
for (i=0; i<datadim; i++) g_printerr ("%f ", Fa.vals[0][i]);
g_printerr ("\n ");
for (i=0; i<datadim; i++) g_printerr ("%f ", Fa.vals[1][i]);
g_printerr ("\n");*/
return(1);
}
if (!checkcolson(Fz.vals, datadim, projdim)) {
/*g_printerr("Columns of Fz are not orthonormal: generating new Fz\n");*/
return(2);
}
/* Check that Fa and Fz are the same */
if (!checkequiv(Fa.vals, Fz.vals, datadim, projdim)) {
/*g_printerr("Fa equiv Fz: generating random Fz\n");*/
return(3);
}
/* Do SVD of Fa'Fz: span(Fa,Fz).*/
if (doit) {
if (!matmult_utv(Fa.vals, Fz.vals, datadim, projdim, datadim,
projdim, tv.vals))
printf("#cols != #rows in the two matrices");
/* tv comes in as a projdimxprojdim asymmetric matrix */
dsvd(tv.vals, projdim, projdim, lambda.els, Va.vals);
/* tv gets overwritten with the left-hand reduction, u,
which is then stored in Va,
Vz gets the right-hand reduction, v */
/* dec: switched order of Va and Vz,
assuming Vz to be transpose, so forcing
a transpose of this matrix to be used. Also
it turns out that Va comes back as a transpose.
Very strange, but this is what it takes to
get results consistent with R coding, and
that is clearly correct. */
for (i=0; i<projdim; i++)
for (j=0; j<projdim; j++)
Vz.vals[i][j] = tv.vals[j][i];
for (i=0; i<projdim; i++)
for (j=0; j<projdim; j++)
tv.vals[i][j] = Va.vals[j][i];
for (i=0; i<projdim; i++)
for (j=0; j<projdim; j++)
Va.vals[i][j] = tv.vals[i][j];
/* Check span of <Fa,Fz>
If dimension of the intersection is equal to dimension of proj,
dI=ndim, we should stop here, and set Ft to be Fa but this is
equivalent to setting the lambda's to be 1.0 at this stage.*/
dI = 0;
for (i=0; i<projdim; i++) {
if (lambda.els[i] > 1.0-tol) {
dI++;
lambda.els[i] = 1.0;
}
}
/* Compute principal angles */
for (i=0; i<projdim; i++) {
tau.els[i] = (gfloat) acos((gdouble) lambda.els[i]);
}
/* Calculate principal directions */
if (projdim > dI) { /* Span is ok - proceed */
/* Rotate Fa to get Ga */
for (i=0; i<datadim; i++)
for (j=0; j<projdim; j++)
tv.vals[j][i] = 0.0;
arrayd_copy(&Va, &tv);
if (!matmult_uv(Fa.vals, tv.vals, datadim, projdim, projdim,
projdim, Ga.vals))
printf("Could not multiply u and v, cols!=rows \n");
for (j=0; j<projdim; j++)
norm(Ga.vals[j], datadim);
for (i=0; i<projdim-1; i++) {
for (j=i+1; j<projdim; j++)
if (!gram_schmidt(Ga.vals[i], Ga.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*Ga[%d] equivalent to Ga[%d]\n",i,j);*/
#else
;
#endif
}
/* Rotate Fz to get Gz */
for (i=0; i<datadim; i++)
for (j=0; j<projdim; j++)
tv.vals[j][i] = 0.0;
arrayd_copy(&Vz, &tv);
if (!matmult_uv(Fz.vals, tv.vals, datadim, projdim, projdim,
projdim, Gz.vals))
printf("Could not multiply u and v, cols!=rows \n");
for (j=0; j<projdim; j++)
norm(Gz.vals[j], datadim);
for (i=0; i<projdim-1; i++) {
for (j=i+1; j<projdim; j++)
if (!gram_schmidt(Gz.vals[i], Gz.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*Gz[%d] equivalent to Gz[%d]\n",i,j);*/
#else
;
#endif
}
/* orthonormalize Gz on Ga to make a frame of rotation */
for (i=0; i<projdim; i++)
if (!gram_schmidt(Ga.vals[i], Gz.vals[i], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*Ga[%d] equivalent to Gz[%d]\n",i,i);*/
#else
;
#endif
for (j=0; j<projdim; j++)
norm(Gz.vals[j], datadim);
for (i=0; i<projdim-1; i++) {
for (j=i+1; j<projdim; j++)
if (!gram_schmidt(Gz.vals[i], Gz.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*Gz[%d] equivalent to Gz[%d]\n",i,j);*/
#else
;
#endif
}
}
/* else { * Span not ok, cannot do interp path, so reinitialize *
arrayd_copy(&Fa, &Ga);
arrayd_copy(&Fa, &Gz);
for (i=0; i<projdim; i++)
tau.els[i] = 0.0;
* Need to clean this up - It seems this never occurs *
} Don't think this is needed */
/* Construct current basis*/
for (i=0; i<projdim; i++)
tinc.els[i]=0.0;
for (i=0; i<projdim; i++) {
ptinc[0][i] = (gfloat) cos((gdouble) tinc.els[i]);
ptinc[1][i] = (gfloat) sin((gdouble) tinc.els[i]);
}
for (i=0; i<projdim; i++) {
tmpd1 = ptinc[0][i];
tmpd2 = ptinc[1][i];
for (j=0; j<datadim; j++) {
tmpd = Ga.vals[i][j]*tmpd1 + Gz.vals[i][j]*tmpd2;
G.vals[i][j] = tmpd;
}
}
/* rotate in space of plane to match Fa basis */
matmult_uvt(G.vals, Va.vals, datadim, projdim, projdim, projdim, F.vals);
/* orthonormal to correct round-off errors */
for (i=0; i<projdim; i++)
norm(F.vals[i], datadim);
for (k=0; k<projdim-1; k++)
for (j=k+1; j<projdim; j++)
if (!gram_schmidt(F.vals[k], F.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*F[%d] equivalent to F[%d]\n",k,j);*/
#else
;
#endif
/* Calculate Euclidean norm of principal angles.*/
tmpd = 0.0;
for (i=0; i<projdim; i++)
tmpd += ((gdouble)tau.els[i]*(gdouble)tau.els[i]);
dist_az = (gfloat)sqrt(tmpd);
if (dist_az < 0.0001) {
/* printf("returning before standardizing tau's\n");
for (i=0; i<projdim; i++)
printf("tau %d %f ",i,tau.els[i]);
printf("\n");*/
/* zero_tau(tau, projdim);
zero_tinc(tinc, projdim);
zero_lambda(lambda, projdim);
for (i=0; i<projdim; i++)
for (j=0; j<datadim; j++)
{
Ga.vals[i][j] = 0.0;
Gz.vals[i][j] = 0.0;
G.vals[i][j] = 0.0;
Va.vals[i][j] = 0.0;
Fz.vals[i][j] = 0.0;
}
dist_az = 0.0;
tang = 0.0;
*pdist_az = dist_az;
*ptang = tang;*/
arrayd_copy(&Fa, &F);
return(3);
}
for (i=0; i<projdim; i++) {
if (tau.els[i] > tol) {
tau.els[i] /= dist_az;
}
else
tau.els[i] = 0.0;
}
*pdist_az = dist_az;
*ptang = tang;
}
else {
arrayd_copy(&Fa, &F);
arrayd_copy(&Fa, &Ga);
arrayd_copy(&Fz, &Gz);
arrayd_copy(&Fz, &Va);
arrayd_copy(&Fa, &G);
*pdist_az = dist_az;
*ptang = tang;
}
/* printf("dist_az %f \n",dist_az);*/
/* free temporary arrays */
g_free ((gpointer) pairs);
for (j=0; j<2; j++)
g_free (ptinc[j]);
g_free (ptinc);
g_free (e);
return(0);
} /* path */
/* Generate the interpolation frame. No preprojection is done */
void tour_reproject(vector_f tinc, array_d G, array_d Ga, array_d Gz,
array_d F, array_d Va, gint datadim, gint projdim)
{
gint i, j, k;
gdouble tmpd1, tmpd2, tmpd;
gfloat **ptinc = (gfloat **) g_malloc (2 * sizeof (gfloat *));
for (i=0; i<2; i++)
ptinc[i] = (gfloat *) g_malloc (projdim * sizeof (gfloat));
for (i=0; i<projdim; i++) {
ptinc[0][i] = (gfloat) cos((gdouble) tinc.els[i]);
ptinc[1][i] = (gfloat) sin((gdouble) tinc.els[i]);
}
for (i=0; i<projdim; i++) {
tmpd1 = ptinc[0][i];
tmpd2 = ptinc[1][i];
for (j=0; j<datadim; j++) {
tmpd = Ga.vals[i][j]*tmpd1 + Gz.vals[i][j]*tmpd2;
G.vals[i][j] = tmpd;
}
}
/* rotate in space of plane to match Fa basis */
matmult_uvt(G.vals, Va.vals, datadim, projdim, projdim, projdim, F.vals);
/* orthonormalize to correct round-off errors */
for (i=0; i<projdim; i++)
norm(F.vals[i], datadim);
for (k=0; k<projdim; k++)
for (j=k+1; j<projdim; j++)
if (!gram_schmidt(F.vals[k], F.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*F[%d] equivalent to F[%d]\n",k,j);*/
#else
;
#endif
for (j=0; j<2; j++)
g_free (ptinc[j]);
g_free (ptinc);
}
/* this routine increments the interpolation */
void
increment_tour(vector_f tinc, vector_f tau,
gfloat dist_az, gfloat delta, gfloat *ptang, gint projdim)
{
int i;
gboolean attheend = false;
gfloat tang = *ptang;
/* time_t bt;
struct tm *nowtm;
struct timeval tv;
bt = time(NULL);
nowtm = localtime(&bt);
gettimeofday(&tv,NULL);*/
tang += delta;
if (tang >= dist_az)
attheend = true;
if (!attheend) {
for (i=0; i<projdim; i++)
tinc.els[i] = (tang*tau.els[i]);
}
*ptang = tang;
}
gboolean
reached_target(gfloat tang, gfloat dist_az, gint basmeth,
gfloat *indxval, gfloat *oindxval)
{
gboolean arewethereyet = false;
if (basmeth == 0) { /* Note: I don't need to do something different
if the basis method is different. The pp
optimization provides the best target plane
it can find, so we simply interpolate to it.
We don't need to check index values along
the way. It does get to this maximum
quickly. BUT Aesthetically it is more pleasing
to do this check so that the index value
never gets smaller during optimize.*/
if (tang >= dist_az)
arewethereyet = true;
}
else if (basmeth == 1) {
if (*indxval <= *oindxval)
{
arewethereyet = true;
}
/* if (tang >= dist_az)
arewethereyet = true;
*/
}
return(arewethereyet);
}
gboolean
reached_target2(vector_f tinc, vector_f tau, gint basmeth,
gfloat *indxval, gfloat *oindxval, gint projdim)
{
gboolean arewethereyet = false;
gfloat tol=0.01;
gint i;
if (basmeth == 1) {
if (*indxval < *oindxval)
{
arewethereyet = true;
*indxval = *oindxval;
}
else
*oindxval = *indxval;
}
else {
for (i=0; i<projdim; i++)
if (fabs(tinc.els[i]-tau.els[i]) < tol)
arewethereyet = true;
}
return(arewethereyet);
}
void
do_last_increment(vector_f tinc, vector_f tau, gfloat dist_az, gint projdim)
{
int j;
for (j=0; j<projdim; j++)
tinc.els[j] = tau.els[j]*dist_az;
}
void speed_set (gfloat slidepos, gfloat *st, gfloat *dlt)
{
gfloat step = *st;
gfloat delta = *dlt;
if (slidepos < 5.)
{
step = 0.0;
delta = 0.0;
}
else
{
/* if (slidepos < 50)
step = ((gfloat) slidepos - 5.) / 2000.;
else if ((slidepos >= 50))
step = (gfloat) pow((double)(slidepos-50)/100.,(gdouble)1.5) + 0.0225;
*/
if (slidepos < 30.)
step = (slidepos - 5.)/2000.;
else if (slidepos >= 30. && slidepos < 90.)
step = (gfloat) pow((double)(slidepos-30.)/100.,(gdouble)1.5) + 0.0125;
else
step = (gfloat) pow((double)(slidepos)/100.,(gdouble)2.0) - 0.81 + 0.477;
delta = (step*M_PI_2)/(10.0);
}
*st = step;
*dlt = delta;
}
void
gt_basis (array_d Fz, gint nactive, vector_i active_vars,
gint datadim, gint projdim)
/*
* Generate d random p dimensional vectors to form new ending basis
*/
{
gint i, j, k, check = 1, nvals = nactive*projdim, ntimes;
gdouble frunif[2];
gdouble r, fac, frnorm[2];
gboolean oddno;
if ((nvals % 2) == 1)
oddno = true;
else
oddno=false;
if (oddno)
ntimes = nvals/2+1;
else
ntimes = nvals/2;
/*
* Method suggested by Press, Flannery, Teukolsky, and Vetterling (1986)
* "Numerical Recipes" p.202-3, for generating random normal variates .
*/
/* Zero out Fz before filling; this might fix a bug we are
encountering with returning from a receive tour.
*/
for (j=0; j<datadim; j++)
for (k=0; k<projdim; k++)
Fz.vals[k][j] = 0.0 ;
if (nactive > projdim) {
for (j=0; j<ntimes; j++) {
while (check) {
rnorm2(&frunif[0], &frunif[1]);
r = frunif[0] * frunif[0] + frunif[1] * frunif[1];
if (r < 1)
{
check = 0;
fac = sqrt(-2. * log(r) / r);
frnorm[0] = frunif[0] * fac;
frnorm[1] = frunif[1] * fac;
}
}
check = 1;
if (projdim == 1) {
if (oddno && j == ntimes-1) {
Fz.vals[0][active_vars.els[2*j]] = frnorm[0];
}
else {
Fz.vals[0][active_vars.els[2*j]] = frnorm[0];
Fz.vals[0][active_vars.els[2*j+1]] = frnorm[1];
}
}
else if (projdim == 2) {
Fz.vals[0][active_vars.els[j]] = frnorm[0];
Fz.vals[1][active_vars.els[j]] = frnorm[1];
}
}
for (k=0; k<projdim; k++)
norm(Fz.vals[k], datadim);
/*
* Orthogonalize the basis on the first using Gram-Schmidt
*/
if (projdim > 1) {
for (k=0; k<projdim-1; k++)
for (j=k+1; j<projdim; j++)
if (!gram_schmidt(Fz.vals[k], Fz.vals[j], datadim))
#ifdef EXCEPTION_HANDLING
g_printerr("");/*Fz[%d] equivalent to Fz[%d]\n",k,j);*/
#else
;
#endif
}
}
else /* if there is only one variable */
{
for (i=0; i<projdim; i++)
Fz.vals[i][active_vars.els[i]] = 1.;
}
}
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