source: tags/initial/STAT/st_window.hxx

#ifndef st_window_hxx_included
#define st_window_hxx_included

#define ST_ML_AWAR "tmp/st_ml/"
#define ST_ML_AWAR_CSP                  ST_ML_AWAR "name"
#define ST_ML_AWAR_ALIGNMENT            ST_ML_AWAR "alignment"
#define ST_ML_AWAR_CQ_BUCKET_SIZE       ST_ML_AWAR "bucket_size"

#define ST_ML_AWAR_CQ_FILTER_NAME       ST_ML_AWAR "filter/name"
#define ST_ML_AWAR_CQ_FILTER_ALIGNMENT  ST_ML_AWAR "filter/alignment"
#define ST_ML_AWAR_CQ_FILTER_FILTER     ST_ML_AWAR "filter/filter"
#define ST_ML_AWAR_CQ_MARKED_ONLY       ST_ML_AWAR "marked_only"
#define ST_ML_AWAR_CQ_DEST_FIELD        ST_ML_AWAR "dest_field"
#define ST_ML_AWAR_CQ_REPORT            ST_ML_AWAR "report"

class ST_ML;
class AP_tree;
class AWT_csp;

AW_window *st_create_main_window(AW_root *aw_root, ST_ML *st_ml,AW_CB0 refresh_func,AW_window *win);
ST_ML *new_ST_ML(GBDATA *gb_main);
int st_is_inited(ST_ML *st_ml);

typedef unsigned char ST_ML_Color;
enum st_report_enum {
    ST_QUALITY_REPORT_NONE,
    ST_QUALITY_REPORT_TEMP,
    ST_QUALITY_REPORT_YES };


AP_tree *st_ml_convert_species_name_to_node(ST_ML *st_ml,const char *species_name);

ST_ML_Color *st_ml_get_color_string(ST_ML *st_ml, char *species_name, AP_tree *node, int start_ali_pos, int end_ali_pos);
int st_ml_update_ml_likelihood(ST_ML *st_ml, char *result[4], int *latest_update, char *species_name, AP_tree *node);

AW_window *st_create_quality_check_window(AW_root *aw_root,GBDATA *gb_main);

GB_ERROR st_ml_check_sequence_quality(GBDATA *gb_main,
                                      const char *tree_name,
                                      const char *alignment_name,
                                      AWT_csp *awt_csp,
                                      int bucket_size, int marked_only,
                                      st_report_enum    report,
                                      const char *filter_string,
                                      const char *dest_field);


#endif