Fixes more misery in function skipstr, where pointers were incremented

[gromacs/rigid-bodies.git] / src / gmxlib / matio.c

/*
 * 
 *                This source code is part of
 * 
 *                 G   R   O   M   A   C   S
 * 
 *          GROningen MAchine for Chemical Simulations
 * 
 *                        VERSION 3.2.0
 * Written by David van der Spoel, Erik Lindahl, Berk Hess, and others.
 * Copyright (c) 1991-2000, University of Groningen, The Netherlands.
 * Copyright (c) 2001-2004, The GROMACS development team,
 * check out http://www.gromacs.org for more information.

 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 * 
 * If you want to redistribute modifications, please consider that
 * scientific software is very special. Version control is crucial -
 * bugs must be traceable. We will be happy to consider code for
 * inclusion in the official distribution, but derived work must not
 * be called official GROMACS. Details are found in the README & COPYING
 * files - if they are missing, get the official version at www.gromacs.org.
 * 
 * To help us fund GROMACS development, we humbly ask that you cite
 * the papers on the package - you can find them in the top README file.
 * 
 * For more info, check our website at http://www.gromacs.org
 * 
 * And Hey:
 * GROningen Mixture of Alchemy and Childrens' Stories
 */
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif

#include <stdio.h>
#include <ctype.h>
#include "sysstuff.h"
#include "futil.h"
#include "string2.h"
#include "macros.h"
#include "smalloc.h"
#include "gmx_fatal.h"
#include "matio.h"
#include "statutil.h"
#include "gmxfio.h"
#include "maths.h"

#define round(a) (int)(a+0.5)

static const char mapper[] = "ABCDEFGHIJKLMNOPQRSTUVWXYZabcdefghijklmnopqrstuvwxyz0123456789!@#$%^&*()-_=+{}|;:',<.>/?";
#define NMAP (long int)strlen(mapper)

#define MAX_XPM_LINELENGTH 4096

real **mk_matrix(int nx, int ny, bool b1D)
{
  int  i;
  real **m;
  
  snew(m,nx);
  if (b1D)
    snew(m[0], nx*ny);
  
  for(i=0; (i<nx); i++)
    if (b1D)
      m[i] = &(m[0][i*ny]);
    else
      snew(m[i],ny);
  
  return m;
}

void done_matrix(int nx, real ***m)
{
  int i;
  
  for(i=0; (i<nx); i++)
    sfree((*m)[i]);
  sfree(*m);
  *m = NULL;
}

void clear_matrix(int nx, int ny, real **m)
{
  int x, y;
  
  for(x=0; x<nx; x++)
    for(y=0; y<ny; y++)
      m[x][y]=0;
}

bool matelmt_cmp(t_xpmelmt e1, t_xpmelmt e2) 
{ 
  return (e1.c1 == e2.c1) && (e1.c2 == e2.c2);
}
    
t_matelmt searchcmap(int n,t_mapping map[],t_xpmelmt c)
{
  int i;
  
  for(i=0; (i<n); i++)
    if (matelmt_cmp(map[i].code, c))
      return i;
  
  return -1;
}

int getcmap(FILE *in,const char *fn,t_mapping **map)
{
  int       i,n;
  char      line[STRLEN];
  char      code[STRLEN],desc[STRLEN];
  double    r,g,b;
  t_mapping *m;
  
  if (fgets2(line,STRLEN-1,in) == NULL)
    gmx_fatal(FARGS,"Not enough lines in colormap file %s"
                "(just wanted to read number of entries)",fn);
  sscanf(line,"%d",&n);
  snew(m,n);
  for(i=0; (i<n); i++) {
    if (fgets2(line,STRLEN-1,in) == NULL)
      gmx_fatal(FARGS,"Not enough lines in colormap file %s"
                  "(should be %d, found only %d)",fn,n+1,i);
    sscanf(line,"%s%s%lf%lf%lf",code,desc,&r,&g,&b);
    m[i].code.c1=code[0];
    m[i].code.c2=0;
    m[i].desc=strdup(desc);
    m[i].rgb.r=r;
    m[i].rgb.g=g;
    m[i].rgb.b=b;
  }
  *map=m;
  
  return n;
}

int readcmap(const char *fn,t_mapping **map)
{
  FILE      *in;
  int       n;
  
  in=libopen(fn);
  n=getcmap(in,fn,map);
  gmx_fio_fclose(in);
  
  return n;
}

void printcmap(FILE *out,int n,t_mapping map[])
{
  int i;
  
  fprintf(out,"%d\n",n);
  for(i=0; (i<n); i++)
    fprintf(out,"%c%c  %20s  %10g  %10g  %10g\n",
            map[i].code.c1?map[i].code.c1:' ',
            map[i].code.c2?map[i].code.c2:' ',
            map[i].desc,map[i].rgb.r,map[i].rgb.g,map[i].rgb.b);
}

void writecmap(const char *fn,int n,t_mapping map[])
{
  FILE *out;
  
  out=gmx_fio_fopen(fn,"w");
  printcmap(out,n,map);
  gmx_fio_fclose(out);
}

void do_wmap(FILE *out,int i0,int imax,
             int nlevels,t_rgb rlo,t_rgb rhi,real lo,real hi)
{
  int  i,nlo;
  real r,g,b;
  
  for(i=0; (i<imax); i++) {
    nlo=nlevels-i;
    r=(nlo*rlo.r+i*rhi.r)/nlevels;
    g=(nlo*rlo.g+i*rhi.g)/nlevels;
    b=(nlo*rlo.b+i*rhi.b)/nlevels;
    fprintf(out,"%c %10.3g %10g  %10g  %10g\n",
            mapper[i+i0],(nlo*lo+i*hi)/nlevels,r,g,b);
  }
}

static char *fgetline(char **line,int llmax,int *llalloc,FILE *in)
{
  char *fg;

  if (llmax > *llalloc)
  {
      srenew(*line,llmax+1);
      *llalloc=llmax;
  }
  fg=fgets(*line,llmax,in);
  trim(*line);

  return fg;
}

void skipstr(char *line)
{
  int i,c;
  
  ltrim(line);
  c=0;
  while((line[c] != ' ') && (line[c] != '\0'))
    c++;
  i=c; 
  while(line[c] != '\0')
    {
      line[c-i] = line[c];
      c++;
    }
  line[i-c] = '\0';
}

char *line2string(char **line)
{
  int i;
  
  if (*line != NULL) {
    while (((*line)[0] != '\"' ) && ( (*line)[0] != '\0' ))
      (*line)++;
                       
    if ((*line)[0] != '\"')
      return NULL;
    (*line)++;
  
      i=0;
    while (( (*line)[i] != '\"' ) && ( (*line)[i] != '\0' ))
      i++;
    
    if ((*line)[i] != '\"')
      *line=NULL;
    else
      (*line)[i] = 0;
  }
    
  return *line;
}

void parsestring(char *line,const char *label, char *string)
{
  if (strstr(line,label)) {
    if (strstr(line,label) < strchr(line,'\"')) {
      line2string(&line);
      strcpy(string,line);
    }
  }
}

void read_xpm_entry(FILE *in,t_matrix *mm)
{
  t_mapping *map;
  char *line=NULL,*str,buf[256];
  int i,m,col_len,nch,n_axis_x,n_axis_y,llmax;
  int llalloc=0;
  unsigned int r,g,b;
  double u;
  bool bGetOnWithIt;
  t_xpmelmt c;

  mm->flags=0;
  mm->title[0]=0;
  mm->legend[0]=0;
  mm->label_x[0]=0;
  mm->label_y[0]=0;
  mm->matrix=NULL;
  mm->axis_x=NULL;
  mm->axis_y=NULL;
  mm->bDiscrete=FALSE;

  llmax = STRLEN;

  while ((NULL != fgetline(&line,llmax,&llalloc,in)) && 
         (strncmp(line,"static",6) != 0)) {
    parsestring(line,"title",(mm->title));
    parsestring(line,"legend",(mm->legend));
    parsestring(line,"x-label",(mm->label_x));
    parsestring(line,"y-label",(mm->label_y));
    parsestring(line,"type",buf);
  }
  if (buf[0] && (strcasecmp(buf,"Discrete")==0))
    mm->bDiscrete=TRUE;
   
  if (debug)
    fprintf(debug,"%s %s %s %s\n",
            mm->title,mm->legend,mm->label_x,mm->label_y);

  if  (strncmp(line,"static",6) != 0)
    gmx_input("Invalid XPixMap");
  /* Read sizes */
  bGetOnWithIt=FALSE;
  while (!bGetOnWithIt && (NULL != fgetline(&line,llmax,&llalloc,in))) {
    while (( line[0] != '\"' ) && ( line[0] != '\0' ))
      line++;

    if  ( line[0] == '\"' ) {
      line2string(&line);
      sscanf(line,"%d %d %d %d",&(mm->nx),&(mm->ny),&(mm->nmap),&nch);
      if (nch > 2)
        gmx_fatal(FARGS,"Sorry can only read xpm's with at most 2 caracters per pixel\n");
      llmax = max(STRLEN,mm->nx+10);
      bGetOnWithIt=TRUE;
    }
  }
  if (debug)
    fprintf(debug,"mm->nx %d mm->ny %d mm->nmap %d nch %d\n",
           mm->nx,mm->ny,mm->nmap,nch);
  
  /* Read color map */
  snew(map,mm->nmap);
  m=0;
  while ((m < mm->nmap) && (NULL != fgetline(&line,llmax,&llalloc,in))) {
    line=strchr(line,'\"');
    if  (line) {
      line++;
      /* Read xpm color map entry */
      map[m].code.c1 = line[0];
      if (nch==1)
        map[m].code.c2 = 0;
      else
        map[m].code.c2 = line[1];
      line += nch;
      str = strchr(line,'#');
      if (str) {
        str++;
        col_len = 0;
        while (isxdigit(str[col_len]))
          col_len++;
        if (col_len==6) {
          sscanf(line,"%*s #%2x%2x%2x",&r,&g,&b);
          map[m].rgb.r=r/255.0;
          map[m].rgb.g=g/255.0;
          map[m].rgb.b=b/255.0;
        } else if (col_len==12) {
          sscanf(line,"%*s #%4x%4x%4x",&r,&g,&b);
          map[m].rgb.r=r/65535.0;
          map[m].rgb.g=g/65535.0;
          map[m].rgb.b=b/65535.0;
        } else
          gmx_file("Unsupported or invalid colormap in X PixMap");
      } else {
        str = strchr(line,'c');
        if (str)
          str += 2;
        else
          gmx_file("Unsupported or invalid colormap in X PixMap");
        fprintf(stderr,"Using white for color \"%s",str);
        map[m].rgb.r = 1;
        map[m].rgb.g = 1;
        map[m].rgb.b = 1;
      }
      line=strchr(line,'\"');
      line++;
      line2string(&line);
      map[m].desc = strdup(line);
      m++;
    }
  }
  if  ( m != mm->nmap ) 
    gmx_fatal(FARGS,"Number of read colors map entries (%d) does not match the number in the header (%d)",m,mm->nmap);
  mm->map = map;

  /* Read axes, if there are any */ 
  n_axis_x=0;
  n_axis_y=0;
  bGetOnWithIt=FALSE;
  do {
    if (strstr(line,"x-axis")) {
      line=strstr(line,"x-axis");
      skipstr(line);
      if (mm->axis_x==NULL)
        snew(mm->axis_x,mm->nx + 1);
      while (sscanf(line,"%lf",&u)==1) {
        if (n_axis_x > mm->nx) {
          gmx_fatal(FARGS,"Too many x-axis labels in xpm (max %d)",mm->nx);
        } else if (n_axis_x == mm->nx) {
          mm->flags |= MAT_SPATIAL_X;
        }
        mm->axis_x[n_axis_x] = u;
        n_axis_x++;
        skipstr(line);
      }
    }
    else if (strstr(line,"y-axis")) {
      line=strstr(line,"y-axis");
      skipstr(line);
      if (mm->axis_y==NULL)
        snew(mm->axis_y,mm->ny + 1);
      while (sscanf(line,"%lf",&u)==1) {
        if (n_axis_y > mm->ny) {
          gmx_file("Too many y-axis labels in xpm");
        } else if (n_axis_y == mm->ny) {
          mm->flags |= MAT_SPATIAL_Y;
        }
        mm->axis_y[n_axis_y] = u;
        n_axis_y++;
        skipstr(line);
      }
    }
  } while ((line[0] != '\"') && (NULL != fgetline(&line,llmax,&llalloc,in)));

  /* Read matrix */
  snew(mm->matrix,mm->nx);
  for(i=0; i<mm->nx; i++)
    snew(mm->matrix[i],mm->ny);
  m=mm->ny-1;
  do {
    if(m%(1+mm->ny/100)==0) 
      fprintf(stderr,"%3d%%\b\b\b\b",(100*(mm->ny-m))/mm->ny);
    while ((line[0] != '\"') && (line[0] != '\0'))
      line++;
    if (line[0] != '\"')
      gmx_fatal(FARGS,"Not enough caracters in row %d of the matrix\n",m+1);
    else {
      line++;
      for(i=0; i<mm->nx; i++) {
        c.c1=line[nch*i];
        if (nch==1)
          c.c2=0;
        else
          c.c2=line[nch*i+1];
        mm->matrix[i][m]=searchcmap(mm->nmap,mm->map,c);
        }
      m--;
    }
  } while ((m>=0) && (NULL != fgetline(&line,llmax,&llalloc,in)));
  if (m>=0)
    gmx_incons("Not enough rows in the matrix");

  /* This code makes me cry. DvdS 2010-07-08 */
  /*sfree(line);*/
}

int read_xpm_matrix(const char *fnm,t_matrix **matrix)
{
  FILE *in;
  char *line=NULL;
  int nmat;
  int llalloc=0;

  in=gmx_fio_fopen(fnm,"r");
  
  nmat=0;
  while (NULL != fgetline(&line,STRLEN,&llalloc,in)) {
    if (strstr(line,"/* XPM */")) {
      srenew(*matrix,nmat+1);
      read_xpm_entry(in,&(*matrix)[nmat]);
      nmat++;
    }
  }
  gmx_fio_fclose(in);

  if (nmat==0)
    gmx_file("Invalid XPixMap");

  sfree(line);

  return nmat;
}

real **matrix2real(t_matrix *matrix,real **mat)
{
  t_mapping *map;
  double tmp;
  real *rmap;
  int i,j,nmap;

  nmap=matrix->nmap;
  map=matrix->map;
  snew(rmap,nmap);
  
  for(i=0; i<nmap; i++) {
    if ((map[i].desc==NULL) || (sscanf(map[i].desc,"%lf",&tmp)!=1)) {
      fprintf(stderr,"Could not convert matrix to reals,\n"
              "color map entry %d has a non-real description: \"%s\"\n",
              i,map[i].desc);
      sfree(rmap);
      return NULL;
    } 
    rmap[i]=tmp;
  }
  
  if (mat==NULL) {
    snew(mat,matrix->nx);
    for(i=0; i<matrix->nx; i++)
      snew(mat[i],matrix->ny);
  }
  for(i=0; i<matrix->nx; i++)
    for(j=0; j<matrix->ny; j++) 
      mat[i][j]=rmap[matrix->matrix[i][j]];

  sfree(rmap);

  fprintf(stderr,"Converted a %dx%d matrix with %d levels to reals\n",
          matrix->nx,matrix->ny,nmap);

  return mat;
}

void write_xpm_header(FILE *out,
                      const char *title,const char *legend,
                      const char *label_x,const char *label_y,
                      bool bDiscrete)
{
  fprintf(out,  "/* XPM */\n");
  fprintf(out,  "/* Generated by %s */\n",Program());
  fprintf(out,  "/* This file can be converted to EPS by the GROMACS program xpm2ps */\n");
  fprintf(out,  "/* title:   \"%s\" */\n",title);
  fprintf(out,  "/* legend:  \"%s\" */\n",legend);
  fprintf(out,  "/* x-label: \"%s\" */\n",label_x);
  fprintf(out,  "/* y-label: \"%s\" */\n",label_y);
  if (bDiscrete) 
    fprintf(out,"/* type:    \"Discrete\" */\n");
  else
    fprintf(out,"/* type:    \"Continuous\" */\n");
}

static int calc_nmid(int nlevels,real lo,real mid,real hi)
{
  /* Take care that we have at least 1 entry in the mid to hi range
   */
  return min(max(0,((mid-lo)/(hi-lo))*(nlevels-1)),nlevels-1);
}

void write_xpm_map3(FILE *out,int n_x,int n_y,int *nlevels,
                    real lo,real mid,real hi,
                    t_rgb rlo,t_rgb rmid,t_rgb rhi)
{
  int    i,nmid;
  real   r,g,b,clev_lo,clev_hi;

  if (*nlevels > NMAP*NMAP) {
    fprintf(stderr,"Warning, too many levels (%d) in matrix, using %d only\n",
            *nlevels,(int)(NMAP*NMAP));
    *nlevels=NMAP*NMAP;
  }
  else if (*nlevels < 2) {
    fprintf(stderr,"Warning, too few levels (%d) in matrix, using 2 instead\n",
            *nlevels);
    *nlevels=2;
  }   
  if (!((mid >= lo) && (mid < hi)))
    gmx_fatal(FARGS,"Lo: %f, Mid: %f, Hi: %f\n",lo,mid,hi);

  fprintf(out,"static char *gromacs_xpm[] = {\n");
  fprintf(out,"\"%d %d   %d %d\",\n",
          n_x,n_y,*nlevels,(*nlevels <= NMAP) ? 1 : 2);

  nmid    = calc_nmid(*nlevels,lo,mid,hi);
  clev_lo = nmid;
  clev_hi = (*nlevels - 1 - nmid);
  for(i=0; (i<nmid); i++) {
    r   = rlo.r+(i*(rmid.r-rlo.r)/clev_lo);
    g   = rlo.g+(i*(rmid.g-rlo.g)/clev_lo);
    b   = rlo.b+(i*(rmid.b-rlo.b)/clev_lo);
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%.3g\" */,\n",
            mapper[i % NMAP],
            (*nlevels <= NMAP) ? ' ' : mapper[i/NMAP],
            (unsigned int)round(255*r),
            (unsigned int)round(255*g),
            (unsigned int)round(255*b),
            ((nmid - i)*lo + i*mid)/clev_lo);
  }
  for(i=0; (i<(*nlevels-nmid)); i++) {
    r   = rmid.r+(i*(rhi.r-rmid.r)/clev_hi);
    g   = rmid.g+(i*(rhi.g-rmid.g)/clev_hi);
    b   = rmid.b+(i*(rhi.b-rmid.b)/clev_hi);
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%.3g\" */,\n",
            mapper[(i+nmid) % NMAP],
            (*nlevels <= NMAP) ? ' ' : mapper[(i+nmid)/NMAP],
            (unsigned int)round(255*r),
            (unsigned int)round(255*g),
            (unsigned int)round(255*b),
            ((*nlevels - 1 - nmid - i)*mid + i*hi)/clev_hi);
  }
}

static void pr_simple_cmap(FILE *out,real lo,real hi,int nlevel,t_rgb rlo,
                           t_rgb rhi,int i0)
{
  int    i;
  real   r,g,b,fac;

  for(i=0; (i<nlevel); i++) {
    fac = (i+1.0)/(nlevel);
    r   = rlo.r+fac*(rhi.r-rlo.r);
    g   = rlo.g+fac*(rhi.g-rlo.g);
    b   = rlo.b+fac*(rhi.b-rlo.b);
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%.3g\" */,\n",
            mapper[(i+i0) % NMAP],
            (nlevel <= NMAP) ? ' ' : mapper[(i+i0)/NMAP],
            (unsigned int)round(255*r),
            (unsigned int)round(255*g),
            (unsigned int)round(255*b),
            lo+fac*(hi-lo));
  }
}
     
static void pr_discrete_cmap(FILE *out,int *nlevel,int i0)
{
  t_rgb  rgbd[16] = {
    { 1.0, 1.0, 1.0 }, /* white */
    { 1.0, 0.0, 0.0 }, /* red */
    { 1.0, 1.0, 0.0 }, /* yellow */
    { 0.0, 0.0, 1.0 }, /* blue */
    { 0.0, 1.0, 0.0 }, /* green */
    { 1.0, 0.0, 1.0 }, /* purple */
    { 1.0, 0.4, 0.0 }, /* orange */
    { 0.0, 1.0, 1.0 }, /* cyan */
    { 1.0, 0.4, 0.4 }, /* pink */
    { 1.0, 1.0, 0.0 }, /* yellow */
    { 0.4, 0.4, 1.0 }, /* lightblue */
    { 0.4, 1.0, 0.4 }, /* lightgreen */
    { 1.0, 0.4, 1.0 }, /* lightpurple */
    { 1.0, 0.7, 0.4 }, /* lightorange */
    { 0.4, 1.0, 1.0 }, /* lightcyan */
    { 0.0, 0.0, 0.0 }  /* black */
  };
  
  int    i,n;
  
  *nlevel = min(16,*nlevel);
  n = *nlevel;
  for(i=0; (i<n); i++) {
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%3d\" */,\n",
            mapper[(i+i0) % NMAP],
            (n <= NMAP) ? ' ' : mapper[(i+i0)/NMAP],
            (unsigned int)round(255*rgbd[i].r),
            (unsigned int)round(255*rgbd[i].g),
            (unsigned int)round(255*rgbd[i].b),
            i);
  }
}
     


void write_xpm_map_split(FILE *out,int n_x,int n_y,
                         int *nlevel_top,real lo_top,real hi_top,
                         t_rgb rlo_top,t_rgb rhi_top,
                         bool bDiscreteColor,
                         int *nlevel_bot,real lo_bot,real hi_bot,
                         t_rgb rlo_bot,t_rgb rhi_bot)
{
  int    i,ntot;
  real   r,g,b,fac;

  ntot = *nlevel_top + *nlevel_bot;
  if (ntot > NMAP) 
    gmx_fatal(FARGS,"Warning, too many levels (%d) in matrix",ntot);
  
  fprintf(out,"static char *gromacs_xpm[] = {\n");
  fprintf(out,"\"%d %d   %d %d\",\n",n_x,n_y,ntot,1);

  if (bDiscreteColor) 
    pr_discrete_cmap(out,nlevel_bot,0);
  else
    pr_simple_cmap(out,lo_bot,hi_bot,*nlevel_bot,rlo_bot,rhi_bot,0);
    
  pr_simple_cmap(out,lo_top,hi_top,*nlevel_top,rlo_top,rhi_top,*nlevel_bot);
}


void write_xpm_map(FILE *out,int n_x, int n_y,int *nlevels,real lo,real hi,
                   t_rgb rlo,t_rgb rhi)
{
  int    i,nlo;
  real   invlevel,r,g,b;

  if (*nlevels > NMAP*NMAP) {
    fprintf(stderr,"Warning, too many levels (%d) in matrix, using %d only\n",
            *nlevels,(int)(NMAP*NMAP));
    *nlevels=NMAP*NMAP;
  }
  else if (*nlevels < 2) {
    fprintf(stderr,"Warning, too few levels (%d) in matrix, using 2 instead\n",*nlevels);
    *nlevels=2;
  }

  fprintf(out,"static char *gromacs_xpm[] = {\n");
  fprintf(out,"\"%d %d   %d %d\",\n",
          n_x,n_y,*nlevels,(*nlevels <= NMAP) ? 1 : 2);

  invlevel=1.0/(*nlevels-1);
  for(i=0; (i<*nlevels); i++) {
    nlo=*nlevels-1-i;
    r=(nlo*rlo.r+i*rhi.r)*invlevel;
    g=(nlo*rlo.g+i*rhi.g)*invlevel;
    b=(nlo*rlo.b+i*rhi.b)*invlevel;
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%.3g\" */,\n",
            mapper[i % NMAP],(*nlevels <= NMAP) ? ' ' : mapper[i/NMAP],
            (unsigned int)round(255*r),
            (unsigned int)round(255*g),
            (unsigned int)round(255*b),
            (nlo*lo+i*hi)*invlevel);
  }
}

void write_xpm_axis(FILE *out, const char *axis, bool bSpatial, int n,
                    real *label)
{
  int i;

  if (label) {
    for(i=0;i<(bSpatial ? n+1 : n);i++) {
      if (i % 80 == 0) {
        if (i) 
          fprintf(out,"*/\n");
        fprintf(out,"/* %s-axis:  ",axis);
      }
      fprintf(out,"%g ",label[i]);
    }
    fprintf(out,"*/\n");
  }
}

void write_xpm_data(FILE *out, int n_x, int n_y, real **matrix, 
                    real lo, real hi, int nlevels)
{
  int i,j,c;
  real invlevel;

  invlevel=(nlevels-1)/(hi-lo);
  for(j=n_y-1; (j>=0); j--) {
    if(j%(1+n_y/100)==0) 
      fprintf(stderr,"%3d%%\b\b\b\b",(100*(n_y-j))/n_y);
    fprintf(out,"\"");
    for(i=0; (i<n_x); i++) {
      c=gmx_nint((matrix[i][j]-lo)*invlevel);
      if (c<0) c=0;
      if (c>=nlevels) c=nlevels-1;
      if (nlevels <= NMAP)
        fprintf(out,"%c",mapper[c]);
      else
        fprintf(out,"%c%c",mapper[c % NMAP],mapper[c / NMAP]);
    }
    if (j > 0)
      fprintf(out,"\",\n");
    else
      fprintf(out,"\"\n");
  }
}

void write_xpm_data3(FILE *out,int n_x,int n_y,real **matrix, 
                    real lo,real mid,real hi,int nlevels)
{
  int  i,j,c=0,nmid;
  real invlev_lo,invlev_hi;

  nmid = calc_nmid(nlevels,lo,mid,hi);
  invlev_hi=(nlevels-1-nmid)/(hi-mid);
  invlev_lo=(nmid)/(mid-lo);
  
  for(j=n_y-1; (j>=0); j--) {
    if(j%(1+n_y/100)==0) 
      fprintf(stderr,"%3d%%\b\b\b\b",(100*(n_y-j))/n_y);
    fprintf(out,"\"");
    for(i=0; (i<n_x); i++) {
      if (matrix[i][j] >= mid)
        c=nmid+gmx_nint((matrix[i][j]-mid)*invlev_hi);
      else if (matrix[i][j] >= lo)
        c=gmx_nint((matrix[i][j]-lo)*invlev_lo);
      else
        c = 0;
        
      if (c<0) 
        c=0;
      if (c>=nlevels) 
        c=nlevels-1;
      if (nlevels <= NMAP)
        fprintf(out,"%c",mapper[c]);
      else
        fprintf(out,"%c%c",mapper[c % NMAP],mapper[c / NMAP]);
    }
    if (j > 0)
      fprintf(out,"\",\n");
    else
      fprintf(out,"\"\n");
  }
}

void write_xpm_data_split(FILE *out,int n_x,int n_y,real **matrix, 
                          real lo_top,real hi_top,int nlevel_top,
                          real lo_bot,real hi_bot,int nlevel_bot)
{
  int  i,j,c;
  real invlev_top,invlev_bot;

  invlev_top=(nlevel_top-1)/(hi_top-lo_top);
  invlev_bot=(nlevel_bot-1)/(hi_bot-lo_bot);
  
  for(j=n_y-1; (j>=0); j--) {
    if(j % (1+n_y/100)==0) 
      fprintf(stderr,"%3d%%\b\b\b\b",(100*(n_y-j))/n_y);
    fprintf(out,"\"");
    for(i=0; (i<n_x); i++) {
      if (i < j) {
        c = nlevel_bot+round((matrix[i][j]-lo_top)*invlev_top);
        if ((c < nlevel_bot) || (c >= nlevel_bot+nlevel_top)) 
          gmx_fatal(FARGS,"Range checking i = %d, j = %d, c = %d, bot = %d, top = %d matrix[i,j] = %f",i,j,c,nlevel_bot,nlevel_top,matrix[i][j]);
      }
      else if (i > j) {
        c = round((matrix[i][j]-lo_bot)*invlev_bot);
        if ((c < 0) || (c >= nlevel_bot+nlevel_bot))
          gmx_fatal(FARGS,"Range checking i = %d, j = %d, c = %d, bot = %d, top = %d matrix[i,j] = %f",i,j,c,nlevel_bot,nlevel_top,matrix[i][j]);
      }
      else
        c = nlevel_bot;
      
      fprintf(out,"%c",mapper[c]);
    }
    if (j > 0)
      fprintf(out,"\",\n");
    else
      fprintf(out,"\"\n");
  }
}

void write_xpm_m(FILE *out, t_matrix m)
{
  /* Writes a t_matrix struct to .xpm file */ 
     
  int       i,j;
  bool      bOneChar;
  t_xpmelmt c;
  
  bOneChar=(m.map[0].code.c2 == 0);
  write_xpm_header(out,m.title,m.legend,m.label_x,m.label_y,
                   m.bDiscrete);
  fprintf(out,"static char *gromacs_xpm[] = {\n");
  fprintf(out,"\"%d %d   %d %d\",\n",m.nx,m.ny,m.nmap,bOneChar ? 1 : 2);
  for(i=0; (i<m.nmap); i++) 
    fprintf(out,"\"%c%c c #%02X%02X%02X \" /* \"%s\" */,\n",
            m.map[i].code.c1,
            bOneChar ? ' ' : m.map[i].code.c2,
            (unsigned int)round(m.map[i].rgb.r*255),
            (unsigned int)round(m.map[i].rgb.g*255),
            (unsigned int)round(m.map[i].rgb.b*255),m.map[i].desc);
  write_xpm_axis(out,"x",m.flags & MAT_SPATIAL_X,m.nx,m.axis_x);
  write_xpm_axis(out,"y",m.flags & MAT_SPATIAL_Y,m.ny,m.axis_y);
  for(j=m.ny-1; (j>=0); j--) {
    if(j%(1+m.ny/100)==0) 
      fprintf(stderr,"%3d%%\b\b\b\b",(100*(m.ny-j))/m.ny);
    fprintf(out,"\"");
    if (bOneChar)
      for(i=0; (i<m.nx); i++)
        fprintf(out,"%c",m.map[m.matrix[i][j]].code.c1);
    else
      for(i=0; (i<m.nx); i++) {
        c=m.map[m.matrix[i][j]].code;
        fprintf(out,"%c%c",c.c1,c.c2);
      }
    if (j > 0)
      fprintf(out,"\",\n");
    else
      fprintf(out,"\"\n");
  }
}

void write_xpm3(FILE *out,unsigned int flags,
                const char *title,const char *legend,
                const char *label_x,const char *label_y,
                int n_x,int n_y,real axis_x[],real axis_y[],
                real *matrix[],real lo,real mid,real hi,
                t_rgb rlo,t_rgb rmid,t_rgb rhi,int *nlevels)
{
  /* See write_xpm.
   * Writes a colormap varying as rlo -> rmid -> rhi.
   */

  if (hi <= lo) 
    gmx_fatal(FARGS,"hi (%g) <= lo (%g)",hi,lo);

  write_xpm_header(out,title,legend,label_x,label_y,FALSE);
  write_xpm_map3(out,n_x,n_y,nlevels,lo,mid,hi,rlo,rmid,rhi);
  write_xpm_axis(out,"x",flags & MAT_SPATIAL_X,n_x,axis_x);
  write_xpm_axis(out,"y",flags & MAT_SPATIAL_Y,n_y,axis_y);
  write_xpm_data3(out,n_x,n_y,matrix,lo,mid,hi,*nlevels);
}

void write_xpm_split(FILE *out,unsigned int flags,
                     const char *title,const char *legend,
                     const char *label_x,const char *label_y,
                     int n_x,int n_y,real axis_x[],real axis_y[],
                     real *matrix[],
                     real lo_top,real hi_top,int *nlevel_top,
                     t_rgb rlo_top,t_rgb rhi_top,
                     real lo_bot,real hi_bot,int *nlevel_bot,
                     bool bDiscreteColor,
                     t_rgb rlo_bot,t_rgb rhi_bot)
{
  /* See write_xpm.
   * Writes a colormap varying as rlo -> rmid -> rhi.
   */

  if (hi_top <= lo_top) 
    gmx_fatal(FARGS,"hi_top (%g) <= lo_top (%g)",hi_top,lo_top);
  if (hi_bot <= lo_bot) 
    gmx_fatal(FARGS,"hi_bot (%g) <= lo_bot (%g)",hi_bot,lo_bot);
  if (bDiscreteColor && (*nlevel_bot >= 16)) 
    gmx_impl("Can not plot more than 16 discrete colors");
    
  write_xpm_header(out,title,legend,label_x,label_y,FALSE);
  write_xpm_map_split(out,n_x,n_y,nlevel_top,lo_top,hi_top,rlo_top,rhi_top,
                      bDiscreteColor,nlevel_bot,lo_bot,hi_bot,rlo_bot,rhi_bot);
  write_xpm_axis(out,"x",flags & MAT_SPATIAL_X,n_x,axis_x);
  write_xpm_axis(out,"y",flags & MAT_SPATIAL_Y,n_y,axis_y);
  write_xpm_data_split(out,n_x,n_y,matrix,lo_top,hi_top,*nlevel_top,
                       lo_bot,hi_bot,*nlevel_bot);
}

void write_xpm(FILE *out,unsigned int flags,
               const char *title,const char *legend,
               const char *label_x,const char *label_y,
               int n_x,int n_y,real axis_x[],real axis_y[],
               real *matrix[],real lo,real hi,
               t_rgb rlo,t_rgb rhi,int *nlevels)
{
  /* out        xpm file
   * title      matrix title
   * legend     label for the continuous legend
   * label_x    label for the x-axis
   * label_y    label for the y-axis
   * n_x, n_y   size of the matrix
   * axis_x[]   the x-ticklabels
   * axis_y[]   the y-ticklables
   * *matrix[]  element x,y is matrix[x][y]
   * lo         output lower than lo is set to lo
   * hi         output higher than hi is set to hi
   * rlo        rgb value for level lo
   * rhi        rgb value for level hi
   * nlevels    number of color levels for the output
   */

  if (hi <= lo) 
    gmx_fatal(FARGS,"hi (%f) <= lo (%f)",hi,lo);

  write_xpm_header(out,title,legend,label_x,label_y,FALSE);
  write_xpm_map(out,n_x,n_y,nlevels,lo,hi,rlo,rhi);
  write_xpm_axis(out,"x",flags & MAT_SPATIAL_X,n_x,axis_x);
  write_xpm_axis(out,"y",flags & MAT_SPATIAL_Y,n_y,axis_y);
  write_xpm_data(out,n_x,n_y,matrix,lo,hi,*nlevels);
}