NT_join.cxx

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// =============================================================== //
//                                                                 //
//   File      : NT_join.cxx                                       //
//   Purpose   :                                                   //
//                                                                 //
//   Institute of Microbiology (Technical University Munich)       //
//   http://www.arb-home.de/                                       //
//                                                                 //
// =============================================================== //

#include "NT_local.h"
#include <item_sel_list.h>
#include <awt_sel_boxes.hxx>
#include <aw_awar.hxx>
#include <aw_root.hxx>
#include <aw_msg.hxx>
#include <arb_progress.h>
#include <arbdbt.h>

#define AWAR_SPECIES_JOIN_FIELD "/tmp/NT/species_join/field"
#define AWAR_SPECIES_JOIN_SEP   "/tmp/NT/species_join/separator"
#define AWAR_SPECIES_JOIN_SEP2  "/tmp/NT/species_join/separator_sequences"

static GB_ERROR nt_species_join(GBDATA *dest, GBDATA *source, int deep, char *sep, char *sep2) {
    GB_TYPES dtype = GB_read_type(dest);
    GB_TYPES stype = GB_read_type(source);
    if (dtype != stype) return NULp;

    GB_ERROR error = NULp;

    switch (dtype) {
        case GB_DB:
            for (GBDATA *gb_source_field = GB_child(source);
                 !error && gb_source_field;
                 gb_source_field = GB_nextChild(gb_source_field))
            {
                const char *source_field = GB_read_key_pntr(gb_source_field);
                if (!strcmp(source_field, "name")) continue;

                GBDATA *gb_dest_field = GB_entry(dest, source_field);
                if (gb_dest_field) { // if destination exists -> recurse
                    error = nt_species_join(gb_dest_field, gb_source_field, 0, sep, sep2);
                }
                else {
                    GB_TYPES type = GB_read_type(gb_source_field);

                    if (type == GB_DB) {
                        GBDATA *gb_dest_container     = GB_create_container(dest, source_field);
                        if (!gb_dest_container) error = GB_await_error();
                        else    error                 = nt_species_join(gb_dest_container, gb_source_field, 0, sep, sep2);
                    }
                    else {
                        gb_dest_field             = GB_create(dest, source_field, GB_read_type(gb_source_field));
                        if (!gb_dest_field) error = GB_await_error();
                        else error                = GB_copy_dropProtectMarksAndTempstate(gb_dest_field, gb_source_field);
                    }
                }
            }
            break;

        case GB_STRING: {
            char *sf = GB_read_string(source);
            char *df = GB_read_string(dest);
            if (strcmp(sf, df) != 0) {
                char *s = sep;
                const char *spacers = " ";
                if (deep) {
                    s = sep2;
                    spacers = ".- ";
                }
                int i;
                // remove trailing spacers;
                for (i = strlen(df)-1; i>=0; i--) {
                    if (strchr(spacers, df[i])) df[i] = 0;
                }
                // remove leading spacers
                int end = strlen(sf);
                for (i=0; i<end; i++) {
                    if (!strchr(spacers, sf[i])) break;
                }
                char *str = new char [strlen(sf) + strlen(df) + strlen(s) + 1];
                sprintf(str, "%s%s%s", df, s, sf+i);
                error = GB_write_string(dest, str);
                delete [] str;
            }
            free(sf);
            free(df);
            break;
        }
        default: {
            break;
        }
    }
    return error;
}

static void species_rename_join(AW_window *aww) {
    char     *field = aww->get_root()->awar(AWAR_SPECIES_JOIN_FIELD)->read_string();
    char     *sep   = aww->get_root()->awar(AWAR_SPECIES_JOIN_SEP)->read_string();
    char     *sep2  = aww->get_root()->awar(AWAR_SPECIES_JOIN_SEP2)->read_string();
    GB_ERROR  error = GB_begin_transaction(GLOBAL.gb_main);

    if (!error) {
        GB_HASH *hash = GBS_create_hash(1000, GB_MIND_CASE);
        long     maxs = GBT_count_marked_species(GLOBAL.gb_main);

        arb_progress progress("Joining species", maxs);

        GBDATA *gb_next = NULp;
        for (GBDATA *gb_species = GBT_first_marked_species(GLOBAL.gb_main);
             gb_species && !error;
             gb_species = gb_next)
        {
            gb_next = GBT_next_marked_species(gb_species);

            GBDATA *gb_field = GB_entry(gb_species, field);
            if (gb_field) {
                char   *field_value = GB_read_as_string(gb_field);
                GBDATA *gb_old      = (GBDATA *)GBS_read_hash(hash, field_value);

                if (!gb_old) {
                    GBS_write_hash(hash, field_value, (long)gb_species);
                }
                else {
                    error = nt_species_join(gb_old, gb_species, 0, sep, sep2);
                    if (!error) error = GB_delete(gb_species);
                }
                free(field_value);
            }
            progress.inc_and_check_user_abort(error);
        }

        GBS_free_hash(hash);
    }
    GB_end_transaction_show_error(GLOBAL.gb_main, error, aw_message);

    free(sep2);
    free(sep);
    free(field);
}


AW_window *NT_create_species_join_window(AW_root *root) {
    static AW_window_simple *aws = NULp;
    if (!aws) {
        root->awar_string(AWAR_SPECIES_JOIN_FIELD, "name", AW_ROOT_DEFAULT);
        root->awar_string(AWAR_SPECIES_JOIN_SEP, "#", AW_ROOT_DEFAULT);
        root->awar_string(AWAR_SPECIES_JOIN_SEP2, "#", AW_ROOT_DEFAULT);

        aws = new AW_window_simple;
        aws->init(root, "SPECIES_JOIN", "JOIN SPECIES");
        aws->load_xfig("join_species.fig");

        aws->at("close");
        aws->callback(AW_POPDOWN);
        aws->create_button("CLOSE", "CLOSE", "C");

        aws->at("help"); aws->callback(makeHelpCallback("species_join.hlp"));
        aws->create_button("HELP", "HELP", "H");

        aws->at("sym");
        aws->create_input_field(AWAR_SPECIES_JOIN_SEP);

        aws->at("symseq");
        aws->create_input_field(AWAR_SPECIES_JOIN_SEP2);

        aws->at("go");
        aws->callback(species_rename_join);
        aws->help_text("species_join.hlp");
        aws->create_button("GO", "GO", "G");

        create_itemfield_selection_button(aws, FieldSelDef(AWAR_SPECIES_JOIN_FIELD, GLOBAL.gb_main, SPECIES_get_selector(), FIELD_FILTER_STRING_READABLE, "field to compare"), "field");
    }
    return aws;
}