/****************************************************************************
 *
 * MODULE:       r.li.ritchness
 *
 * PURPOSE:      calculates richness diversity index
 *
 * AUTHOR(S):    Serena Pallecchi student of Computer Science University of Pisa
 *               (Italy) Commission from Faunalia Pontedera (PI) www.faunalia.it
 *               Rewrite: Markus Metz
 *
 * COPYRIGHT:
 *               This program is free software under the GPL (>=v2)
 *               Read the COPYING file that comes with GRASS for details.
 *
 ***************************************************************************/

#include <stdlib.h>
#include <fcntl.h>
#include <math.h>

#include <grass/gis.h>
#include <grass/raster.h>
#include <grass/glocale.h>

#include "../r.li.daemon/daemon.h"
#include "../r.li.daemon/avlDefs.h"
#include "../r.li.daemon/avl.h"

rli_func richness;
int calculate(int fd, struct area_entry *ad, double *result);
int calculateD(int fd, struct area_entry *ad, double *result);
int calculateF(int fd, struct area_entry *ad, double *result);

int main(int argc, char *argv[])
{
    struct Option *raster, *conf, *output;
    struct GModule *module;

    G_gisinit(argv[0]);
    module = G_define_module();
    module->description = _("Calculates richness index on a raster map");
    G_add_keyword(_("raster"));
    G_add_keyword(_("landscape structure analysis"));
    G_add_keyword(_("diversity index"));

    /* define options */

    raster = G_define_standard_option(G_OPT_R_INPUT);

    conf = G_define_standard_option(G_OPT_F_INPUT);
    conf->key = "config";
    conf->description = _("Configuration file");
    conf->required = YES;

    output = G_define_standard_option(G_OPT_R_OUTPUT);

    if (G_parser(argc, argv))
        exit(EXIT_FAILURE);

    return calculateIndex(conf->answer, richness, NULL, raster->answer,
                          output->answer);
}

int richness(int fd, char **par UNUSED, struct area_entry *ad, double *result)
{
    int ris = RLI_OK;
    double indice = 0;

    switch (ad->data_type) {
    case CELL_TYPE: {
        ris = calculate(fd, ad, &indice);
        break;
    }
    case DCELL_TYPE: {
        ris = calculateD(fd, ad, &indice);
        break;
    }
    case FCELL_TYPE: {
        ris = calculateF(fd, ad, &indice);
        break;
    }
    default: {
        G_fatal_error("data type unknown");
        return RLI_ERRORE;
    }
    }

    if (ris != RLI_OK) {
        return RLI_ERRORE;
    }

    *result = indice;

    return RLI_OK;
}

int calculate(int fd, struct area_entry *ad, double *result)
{
    CELL *buf;
    CELL corrCell;
    CELL precCell;

    int i, j;
    int mask_fd = -1, *mask_buf = NULL;
    int ris = 0;
    int masked = FALSE;
    long m = 0;
    long area = 0;
    avl_tree albero = NULL;
    generic_cell uc;

    uc.t = CELL_TYPE;

    /* open mask if needed */
    if (ad->mask == 1) {
        if ((mask_fd = open(ad->mask_name, O_RDONLY, 0755)) < 0)
            return RLI_ERRORE;
        mask_buf = G_malloc(ad->cl * sizeof(int));
        if (mask_buf == NULL) {
            G_fatal_error("malloc mask_buf failed");
            return RLI_ERRORE;
        }
        masked = TRUE;
    }

    Rast_set_c_null_value(&precCell, 1);
    for (j = 0; j < ad->rl; j++) { /* for each row */
        if (masked) {
            if (read(mask_fd, mask_buf, (ad->cl * sizeof(int))) < 0) {
                G_fatal_error("mask read failed");
                return RLI_ERRORE;
            }
        }

        buf = RLI_get_cell_raster_row(fd, j + ad->y, ad);

        for (i = 0; i < ad->cl; i++) { /* for each cell in the row */
            corrCell = buf[i + ad->x];

            if ((masked) && (mask_buf[i] == 0)) {
                Rast_set_c_null_value(&corrCell, 1);
            }
            else {
                /* total sample area */
                area++;
            }

            if (!(Rast_is_null_value(&precCell, uc.t)) &&
                corrCell != precCell) {

                if (albero == NULL) {
                    uc.val.c = precCell;
                    albero = avl_make(uc, (long)1);
                    if (albero == NULL) {
                        G_fatal_error("avl_make error");
                        return RLI_ERRORE;
                    }
                    m++;
                }
                else {
                    uc.val.c = precCell;
                    ris = avl_add(&albero, uc, (long)1);
                    switch (ris) {
                    case AVL_ERR: {
                        G_fatal_error("avl_add error");
                        return RLI_ERRORE;
                    }
                    case AVL_ADD: {
                        m++;
                        break;
                    }
                    case AVL_PRES: {
                        break;
                    }
                    default: {
                        G_fatal_error("avl_make unknown error");
                        return RLI_ERRORE;
                    }
                    }
                }
            } /* endif not equal cells */
            precCell = corrCell;
        }
    }

    /* last closing */
    if (!(Rast_is_null_value(&precCell, uc.t))) {
        if (albero == NULL) {
            uc.val.c = precCell;
            albero = avl_make(uc, (long)1);
            if (albero == NULL) {
                G_fatal_error("avl_make error");
                return RLI_ERRORE;
            }
            m++;
        }
        else {
            uc.val.c = precCell;
            ris = avl_add(&albero, uc, (long)1);
            switch (ris) {
            case AVL_ERR: {
                G_fatal_error("avl_add error");
                return RLI_ERRORE;
            }
            case AVL_ADD: {
                m++;
                break;
            }
            case AVL_PRES: {
                break;
            }
            default: {
                G_fatal_error("avl_add unknown error");
                return RLI_ERRORE;
            }
            }
        }
    }

    if (area)
        *result = m;
    else
        Rast_set_d_null_value(result, 1);

    avl_destroy(albero);
    if (masked) {
        close(mask_fd);
        G_free(mask_buf);
    }

    return RLI_OK;
}

int calculateD(int fd, struct area_entry *ad, double *result)
{
    DCELL *buf;
    DCELL corrCell;
    DCELL precCell;

    int i, j;
    int mask_fd = -1, *mask_buf = NULL;
    int ris = 0;
    int masked = FALSE;
    long m = 0;
    long area = 0;
    avl_tree albero = NULL;
    generic_cell uc;

    uc.t = DCELL_TYPE;

    /* open mask if needed */
    if (ad->mask == 1) {
        if ((mask_fd = open(ad->mask_name, O_RDONLY, 0755)) < 0)
            return RLI_ERRORE;
        mask_buf = G_malloc(ad->cl * sizeof(int));
        if (mask_buf == NULL) {
            G_fatal_error("malloc mask_buf failed");
            return RLI_ERRORE;
        }
        masked = TRUE;
    }

    Rast_set_d_null_value(&precCell, 1);
    for (j = 0; j < ad->rl; j++) { /* for each row */
        if (masked) {
            if (read(mask_fd, mask_buf, (ad->cl * sizeof(int))) < 0) {
                G_fatal_error("mask read failed");
                return RLI_ERRORE;
            }
        }

        buf = RLI_get_dcell_raster_row(fd, j + ad->y, ad);

        for (i = 0; i < ad->cl; i++) { /* for each dcell in the row */
            corrCell = buf[i + ad->x];

            if ((masked) && (mask_buf[i] == 0)) {
                Rast_set_d_null_value(&corrCell, 1);
            }
            else {
                /* total sample area */
                area++;
            }

            if (!(Rast_is_null_value(&precCell, uc.t)) &&
                corrCell != precCell) {

                if (albero == NULL) {
                    uc.val.dc = precCell;
                    albero = avl_make(uc, (long)1);
                    if (albero == NULL) {
                        G_fatal_error("avl_make error");
                        return RLI_ERRORE;
                    }
                    m++;
                }
                else {
                    uc.val.dc = precCell;
                    ris = avl_add(&albero, uc, (long)1);
                    switch (ris) {
                    case AVL_ERR: {
                        G_fatal_error("avl_add error");
                        return RLI_ERRORE;
                    }
                    case AVL_ADD: {
                        m++;
                        break;
                    }
                    case AVL_PRES: {
                        break;
                    }
                    default: {
                        G_fatal_error("avl_make unknown error");
                        return RLI_ERRORE;
                    }
                    }
                }
            } /* endif not equal dcells */
            precCell = corrCell;
        }
    }

    /* last closing */
    if (!(Rast_is_null_value(&precCell, uc.t))) {
        if (albero == NULL) {
            uc.val.dc = precCell;
            albero = avl_make(uc, (long)1);
            if (albero == NULL) {
                G_fatal_error("avl_make error");
                return RLI_ERRORE;
            }
            m++;
        }
        else {
            uc.val.dc = precCell;
            ris = avl_add(&albero, uc, (long)1);
            switch (ris) {
            case AVL_ERR: {
                G_fatal_error("avl_add error");
                return RLI_ERRORE;
            }
            case AVL_ADD: {
                m++;
                break;
            }
            case AVL_PRES: {
                break;
            }
            default: {
                G_fatal_error("avl_add unknown error");
                return RLI_ERRORE;
            }
            }
        }
    }

    if (area)
        *result = m;
    else
        Rast_set_d_null_value(result, 1);

    avl_destroy(albero);
    if (masked) {
        close(mask_fd);
        G_free(mask_buf);
    }

    return RLI_OK;
}

int calculateF(int fd, struct area_entry *ad, double *result)
{
    FCELL *buf;
    FCELL corrCell;
    FCELL precCell;

    int i, j;
    int mask_fd = -1, *mask_buf = NULL;
    int ris = 0;
    int masked = FALSE;
    long m = 0;
    long area = 0;
    avl_tree albero = NULL;
    generic_cell uc;

    uc.t = FCELL_TYPE;

    /* open mask if needed */
    if (ad->mask == 1) {
        if ((mask_fd = open(ad->mask_name, O_RDONLY, 0755)) < 0)
            return RLI_ERRORE;
        mask_buf = G_malloc(ad->cl * sizeof(int));
        if (mask_buf == NULL) {
            G_fatal_error("malloc mask_buf failed");
            return RLI_ERRORE;
        }
        masked = TRUE;
    }

    Rast_set_f_null_value(&precCell, 1);
    for (j = 0; j < ad->rl; j++) { /* for each row */
        if (masked) {
            if (read(mask_fd, mask_buf, (ad->cl * sizeof(int))) < 0) {
                G_fatal_error("mask read failed");
                return RLI_ERRORE;
            }
        }

        buf = RLI_get_fcell_raster_row(fd, j + ad->y, ad);

        for (i = 0; i < ad->cl; i++) { /* for each fcell in the row */

            corrCell = buf[i + ad->x];

            if ((masked) && (mask_buf[i] == 0)) {
                Rast_set_f_null_value(&corrCell, 1);
            }
            else {
                /* total sample area */
                area++;
            }

            if (!(Rast_is_null_value(&precCell, uc.t)) &&
                corrCell != precCell) {

                if (albero == NULL) {
                    uc.val.fc = precCell;
                    albero = avl_make(uc, (long)1);
                    if (albero == NULL) {
                        G_fatal_error("avl_make error");
                        return RLI_ERRORE;
                    }
                    m++;
                }
                else {
                    uc.val.fc = precCell;
                    ris = avl_add(&albero, uc, (long)1);
                    switch (ris) {
                    case AVL_ERR: {
                        G_fatal_error("avl_add error");
                        return RLI_ERRORE;
                    }
                    case AVL_ADD: {
                        m++;
                        break;
                    }
                    case AVL_PRES: {
                        break;
                    }
                    default: {
                        G_fatal_error("avl_make unknown error");
                        return RLI_ERRORE;
                    }
                    }
                }

            } /* endif not equal fcells */
            precCell = corrCell;
        }
    }

    /* last closing */
    if (!(Rast_is_null_value(&precCell, uc.t))) {
        if (albero == NULL) {
            uc.val.fc = precCell;
            albero = avl_make(uc, (long)1);
            if (albero == NULL) {
                G_fatal_error("avl_make error");
                return RLI_ERRORE;
            }
            m++;
        }
        else {
            uc.val.fc = precCell;
            ris = avl_add(&albero, uc, (long)1);
            switch (ris) {
            case AVL_ERR: {
                G_fatal_error("avl_add error");
                return RLI_ERRORE;
            }
            case AVL_ADD: {
                m++;
                break;
            }
            case AVL_PRES: {
                break;
            }
            default: {
                G_fatal_error("avl_add unknown error");
                return RLI_ERRORE;
            }
            }
        }
    }

    if (area)
        *result = m;
    else
        Rast_set_d_null_value(result, 1);

    avl_destroy(albero);
    if (masked) {
        close(mask_fd);
        G_free(mask_buf);
    }

    return RLI_OK;
}
