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// =============================================================== //
// //
// File : ali_pathmap.cxx //
// Purpose : //
// //
// Institute of Microbiology (Technical University Munich) //
// http://www.arb-home.de/ //
// //
// =============================================================== //
#include "ali_pathmap.hxx"
ALI_PATHMAP::ALI_PATHMAP(unsigned long w, unsigned long h)
{
width = w;
height = h;
height_real = (h / 2) + 1;
pathmap = (unsigned char **) CALLOC((unsigned int) (height_real * w), sizeof(unsigned char));
up_pointers = (ALI_TARRAY < ali_pathmap_up_pointer > ****) CALLOC((unsigned int) w, sizeof(ALI_TARRAY < ali_pathmap_up_pointer > *));
optimized = (unsigned char **) CALLOC((unsigned int) ((w / 8) + 1), sizeof(unsigned char));
if (pathmap == 0 || up_pointers == 0 || optimized == 0)
ali_fatal_error("Out of memory");
}
ALI_PATHMAP::~ALI_PATHMAP()
{
free(pathmap);
if (up_pointers) {
for (unsigned long l = 0; l < width; l++)
if ((*up_pointers)[l])
free((*up_pointers)[l]);
free(up_pointers);
}
free(optimized);
}
void ALI_PATHMAP::set(unsigned long x, unsigned long y, unsigned char val, ALI_TARRAY < ali_pathmap_up_pointer > *up_pointer) {
// Set a value in the pathmap
if (x >= width || y >= height)
ali_fatal_error("Out of range", "ALI_PATHMAP::set()");
if (val & ALI_LUP) {
if ((*up_pointers)[x] == 0) {
(*up_pointers)[x] = (ALI_TARRAY < ali_pathmap_up_pointer > **)
CALLOC((unsigned int) height,
sizeof(ALI_TARRAY < ali_pathmap_up_pointer > *));
if ((*up_pointers)[x] == 0)
ali_fatal_error("Out of memory");
(*optimized)[x / 8] &= (unsigned char) ~(0x01 << (7 - (x % 8)));
}
if ((*optimized)[x / 8] & (0x01 << (7 - (x % 8))))
ali_fatal_error("Try to change optimized value", "ALI_PATHMAP::set()");
(*up_pointers)[x][y] = up_pointer;
}
if (y & 0x01)
val &= 0x0f;
else
val <<= 4;
(*pathmap)[x * height_real + (y >> 1)] |= val;
}
void ALI_PATHMAP::get(unsigned long x, unsigned long y, unsigned char *val, ALI_TARRAY < ali_pathmap_up_pointer > **up_pointer) {
// Get a value from the pathmap
*up_pointer = 0;
if (x >= width || y >= height) {
ali_fatal_error("Out of range", "ALI_PATHMAP::get()");
}
if (y & 0x01)
*val = (*pathmap)[x * height_real + (y >> 1)] & 0x0f;
else
*val = (*pathmap)[x * height_real + (y >> 1)] >> 4;
if (*val & ALI_LUP) {
if ((*optimized)[x / 8] & (0x01 << (7 - (x % 8)))) {
unsigned long l;
unsigned long counter;
for (l = 0, counter = 0; l < y / 2; l++) {
if ((*pathmap)[x * height_real + l] & ALI_LUP)
counter++;
if (((*pathmap)[x * height_real + l] >> 4) & ALI_LUP)
counter++;
}
if (y & 0x01 && ((*pathmap)[x * height_real + l] >> 4) & ALI_LUP)
counter++;
*up_pointer = (*up_pointers)[x][counter];
} else
*up_pointer = (*up_pointers)[x][y];
}
}
void ALI_PATHMAP::optimize(unsigned long x) {
// optimize the pathmap (the dynamic field with up_pointers)
unsigned long l, counter;
ALI_TARRAY < ali_pathmap_up_pointer > *(*buffer)[];
if ((*up_pointers)[x] == 0 || (*optimized)[x / 8] & (0x01 << (7 - (x % 8))))
return;
for (l = 0, counter = 0; l < height; l++)
if ((*up_pointers)[x][l] != 0)
counter++;
if (counter == 0) {
free((*up_pointers)[x]);
(*up_pointers)[x] = 0;
return;
}
(*optimized)[x / 8] |= (unsigned char) (0x01 << (7 - (x % 8)));
buffer = (ALI_TARRAY < ali_pathmap_up_pointer > *(*)[])
CALLOC((unsigned int) counter + 1,
sizeof(ALI_TARRAY < ali_pathmap_up_pointer > *));
if (buffer == 0)
ali_fatal_error("Out of memory");
for (l = 0, counter = 0; l < height; l++)
if ((*up_pointers)[x][l] != 0)
(*buffer)[counter++] = (*up_pointers)[x][l];
(*buffer)[counter] = 0;
free((*up_pointers)[x]);
(*up_pointers)[x] = (ALI_TARRAY < ali_pathmap_up_pointer > **) buffer;
}
void ALI_PATHMAP::print()
{
ali_pathmap_up_pointer up;
unsigned long x, y, i;
unsigned char val;
printf("PATH_MATRIX:\n");
for (y = 0; y < height; y++) {
for (x = 0; x < width; x++) {
if (y & 0x01)
val = (*pathmap)[x * height_real + y / 2] & 0x0f;
else
val = (*pathmap)[x * height_real + y / 2] >> 4;
printf("%d ", val);
}
printf("\n");
}
printf("UP_POINTERS:\n");
for (x = 0; x < width; x++) {
if ((*up_pointers)[x]) {
printf("%3ld : ", x);
if ((*optimized)[x / 8] & 0x01 << (7 - (x % 8))) {
for (y = 0; (*up_pointers)[x][y] != 0; y++) {
printf("(");
for (i = 0; i < (*up_pointers)[x][y]->size(); i++) {
up = (*up_pointers)[x][y]->get(i);
printf("%ld:%d ", up.start, up.operation);
}
printf(") ");
}
}
else {
for (y = 0; y < height; y++) {
printf("(");
if ((*up_pointers)[x][y]) {
for (i = 0; i < (*up_pointers)[x][y]->size(); i++) {
up = (*up_pointers)[x][y]->get(i);
printf("%ld:%d ", up.start, up.operation);
}
}
printf(") ");
}
}
printf("\n");
}
}
}
/* ------------------------------------------------------------
*
* TEST PART
*
#include "ali_tarray.hxx"
ALI_TARRAY<ali_pathmap_up_pointer> *array1, *array2;
void init_pathmap(ALI_PATHMAP *pmap)
{
pmap->set(0,0,ALI_LEFT);
pmap->set(0,1,ALI_DIAG);
pmap->set(0,2,ALI_UP);
pmap->set(0,3,ALI_LUP,array1);
pmap->set(0,4,ALI_LEFT);
pmap->set(0,5,ALI_DIAG);
pmap->set(0,6,ALI_UP);
pmap->set(0,7,ALI_LUP,array2);
pmap->set(1,0,ALI_LEFT|ALI_DIAG);
pmap->set(1,1,ALI_LEFT|ALI_UP);
pmap->set(1,2,ALI_LEFT|ALI_LUP,array2);
pmap->set(1,3,ALI_LEFT|ALI_DIAG);
pmap->set(1,4,ALI_LEFT|ALI_UP);
pmap->set(1,5,ALI_LEFT|ALI_LUP,array1);
pmap->set(30,23,ALI_LEFT);
pmap->set(30,24,ALI_DIAG);
pmap->set(30,25,ALI_UP);
pmap->set(30,26,ALI_LUP,array1);
pmap->set(30,27,ALI_LEFT);
pmap->set(30,28,ALI_DIAG);
pmap->set(30,29,ALI_UP);
pmap->set(30,30,ALI_LUP,array2);
pmap->set(29,25,ALI_LEFT|ALI_DIAG);
pmap->set(29,26,ALI_LEFT|ALI_UP);
pmap->set(29,27,ALI_LEFT|ALI_LUP,array2);
pmap->set(29,28,ALI_LEFT|ALI_DIAG);
pmap->set(29,29,ALI_LEFT|ALI_UP);
pmap->set(29,30,ALI_LEFT|ALI_LUP,array1);
}
void print_array(ALI_TARRAY<ali_pathmap_up_pointer> *array)
{
unsigned long l;
ali_pathmap_up_pointer up;
if (array == 0)
return;
printf("<");
for (l = 0; l < array->size(); l++) {
up = array->get(l);
printf("%d:%d ",up.start,up.operation);
}
printf(">");
}
void check_pathmap(ALI_PATHMAP *pmap)
{
unsigned long l;
unsigned char val;
ALI_TARRAY<ali_pathmap_up_pointer> *array_of_pointer;
printf("******************\n");
for (l = 0; l < 8; l++) {
pmap->get(0,l,&val,&array_of_pointer);
printf("(0,%d) %d ",l,val);
print_array(array_of_pointer);
printf("\n");
}
for (l = 0; l < 6; l++) {
pmap->get(1,l,&val,&array_of_pointer);
printf("(1,%d) %d ",l,val);
print_array(array_of_pointer);
printf("\n");
}
for (l = 23; l < 31; l++) {
pmap->get(29,l,&val,&array_of_pointer);
printf("(29,%d) %d ",l,val);
print_array(array_of_pointer);
printf("\n");
}
for (l = 25; l < 31; l++) {
pmap->get(30,l,&val,&array_of_pointer);
printf("(30,%d) %d ",l,val);
print_array(array_of_pointer);
printf("\n");
}
}
main()
{
ali_pathmap_up_pointer up;
ALI_PATHMAP *pmap;
array1 = new ALI_TARRAY<ali_pathmap_up_pointer>(3);
up.start = 1; up.operation = ALI_LEFT;
array1->set(0,up);
up.start = 3; up.operation = ALI_DIAG;
array1->set(1,up);
up.start = 5; up.operation = ALI_LEFT;
array1->set(2,up);
array2 = new ALI_TARRAY<ali_pathmap_up_pointer>(4);
up.start = 2; up.operation = ALI_DIAG;
array2->set(0,up);
up.start = 4; up.operation = ALI_LEFT;
array2->set(1,up);
up.start = 8; up.operation = ALI_DIAG;
array2->set(2,up);
up.start = 16; up.operation = ALI_LEFT;
array2->set(3,up);
pmap = new ALI_PATHMAP(31,31);
init_pathmap(pmap);
pmap->print();
check_pathmap(pmap);
pmap->optimize(0);
pmap->optimize(1);
pmap->optimize(30);
pmap->optimize(29);
pmap->print();
check_pathmap(pmap);
}
------------------------------------------------------------ */
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