#include "dbui.h"
#include <awtc_next_neighbours.hxx>
#include <probe_gui.hxx>
#include <item_sel_list.h>
#include <info_window.h>
#include <db_query.h>
#include <awt_sel_boxes.hxx>
#include <awt_config_manager.hxx>
#include <awt_prompt.hxx>
#include <AW_rename.hxx>
#include <aw_awar_defs.hxx>
#include <aw_root.hxx>
#include <aw_msg.hxx>
#include <aw_question.hxx>
#include <arb_defs.h>
#include <arb_strbuf.h>
#include <arb_progress.h>
#include <algorithm>
#include <cmath>
#include <map>

Include dependency graph for ui_species.cxx:

Classes
class	KeySorter

class	NN_GlobalData

Macros
#define	ui_assert(cond) arb_assert(cond)

#define	AWAR_FIELD_REORDER_ORDER "tmp/adreorder/order"

#define	AWAR_FIELD_REORDER_SOURCE_TMPL "tmp/adreorder/%s/source"

#define	AWAR_FIELD_REORDER_DEST_TMPL "tmp/adreorder/%s/dest"

#define	AWAR_FIELD_CREATE_NAME_TMPL "tmp/adfield/%s/name"

#define	AWAR_FIELD_CREATE_TYPE_TMPL "tmp/adfield/%s/type"

#define	AWAR_FIELD_DELETE_TMPL "tmp/adfield/%s/source"

#define	AWAR_FIELD_CONVERT_SOURCE_TMPL "tmp/adconvert/%s/source"

#define	AWAR_FIELD_CONVERT_TYPE_TMPL "tmp/adconvert/%s/type"

#define	AWAR_NN_COMPLEMENT AWAR_NN_BASE "complement"

#define	AWAR_NN_RANGE_START AWAR_NN_BASE "range_start"

#define	AWAR_NN_RANGE_END AWAR_NN_BASE "range_end"

#define	AWAR_NN_MIN_SCORE AWAR_NN_BASE "min_scored"

#define	AWAR_NN_MAX_HITS AWAR_NN_BASE "max_hits"

#define	AWAR_NN_BASE_SELECTED AWAR_NN_BASE "selected/"

#define	AWAR_NN_SELECTED_HIT_COUNT "tmp/" AWAR_NN_BASE_SELECTED "hit_count"

#define	AWAR_NN_SELECTED_AUTO_SEARCH "tmp/" AWAR_NN_BASE_SELECTED "auto_search"

#define	AWAR_NN_SELECTED_AUTO_MARK "tmp/" AWAR_NN_BASE_SELECTED "auto_mark"

#define	AWAR_NN_BASE_LISTED AWAR_NN_BASE "listed/"

#define	AWAR_NN_LISTED_DEST_FIELD AWAR_NN_BASE_LISTED "dest_field"

#define	AWAR_NN_LISTED_SCORED_ENTRIES AWAR_NN_BASE_LISTED "scored_entries"

Enumerations
enum	ReorderMode { ORDER_ALPHA, ORDER_TYPE, ORDER_FREQ, RIGHT_BEHIND_LEFT, REVERSE_ORDER }

Functions
const char *	itemAwar (const char *name_template, ItemSelector &itype)

static void	init_itemspecific_DBUI_awars (AW_root *aw_root, ItemSelector &itype)

static void	move_species_to_extended (AW_window aww, GBDATA gb_main)

static GB_ERROR	species_create_handler (const char dest, GBDATA gb_main)

static void	species_create_cb (AW_window , GBDATA gb_main)

static GBDATA *	expect_species_selected (AW_root aw_root, GBDATA gb_main, char **give_name=NULp)

static void	species_copy_cb (AW_window aww, GBDATA gb_main)

static GB_ERROR	species_rename_handler (const char new_fullname, GBDATA gb_species)

static void	species_rename_cb (AW_window aww, GBDATA gb_main)

static void	species_delete_cb (AW_window aww, GBDATA gb_main)

static long	count_field_occurrence (BoundItemSel bsel, const char field_name)

static void	reorder_keys (AW_window aws, ReorderMode mode, Itemfield_Selection sel_left, Itemfield_Selection *sel_right)

static void	reorder_right_behind_left (AW_window aws, Itemfield_Selection selleft, Itemfield_Selection *selright)

static void	reverse_key_order (AW_window aws, Itemfield_Selection selleft, Itemfield_Selection *selright)

static void	sort_keys (AW_window aws, Itemfield_Selection selleft, Itemfield_Selection *selright)

static void	reorder_up_down (AW_window aws, Itemfield_Selection sel_right, int dir)

static void	hide_field_cb (AW_window aws, Itemfield_Selection item_sel, int hide)

static void	field_delete_cb (AW_window aws, Itemfield_Selection item_sel)

static void	field_create_cb (AW_window aws, BoundItemSel bound_selector)

void	insert_fieldtype_toggles (AW_window *aws)

static void	field_convert_commit_cb (AW_window aws, BoundItemSel bound_selector)

static void	field_convert_update_typesel_cb (AW_root root, BoundItemSel bound_selector)

static AW_window *	create_field_convert_window (AW_root root, BoundItemSel bound_selector)

int	get_and_fix_range_from_awar (AW_awar *awar)

static PosRange	get_nn_range_from_awars (AW_root *aw_root)

char *	read_sequence_region (GBDATA *gb_data, const PosRange &range)

static void	awtc_nn_search_all_listed (AW_window *aww)

static void	awtc_mark_hits (AW_window *)

static void	awtc_nn_search (AW_window *)

static void	awtc_move_hits (AW_window *aww)

static unsigned	nn_perform_delayed_autosearch_cb (AW_root *)

static void	nn_trigger_delayed_autosearch_cb (AW_root *awr)

static void	nn_auto_search_changed_cb (AW_root *awr)

static void	nn_searchRel_awar_changed_cb (AW_root *awr)

static void	create_next_neighbours_vars (AW_root *aw_root)

static void	setup_next_neighbour_config (AWT_config_definition &cdef, bool for_listed)

static void	create_common_next_neighbour_fields (AW_window *aws, bool for_listed)

static AW_window *	create_next_neighbours_listed_window (AW_root aw_root, DbQuery query)

static AW_window *	create_next_neighbours_selected_window (AW_root aw_root, DbQuery query)

static AW_window *	popup_new_speciesOrganismWindow (AW_root aw_root, GBDATA gb_main, bool organismWindow, int detach_id)

static void	popup_detached_speciesOrganismWindow (AW_window aw_parent, const InfoWindow infoWin)

static void	popup_speciesOrganismWindow (AW_root aw_root, GBDATA gb_main, bool organismWindow)

Variables
static NN_GlobalData	NN_GLOBAL

static bool	autosearch_triggered = false

static AW_window *	nn_of_sel_win = NULp

static AWT_config_mapping_def	next_neighbour_config_mapping []

static DbQuery *	GLOBAL_species_query = NULp

Macro Definition Documentation

#define ui_assert ( cond ) arb_assert(cond)

Definition at line 41 of file ui_species.cxx.

Referenced by awtc_nn_search_all_listed(), NN_GlobalData::get_query(), NN_GlobalData::get_result_list(), KeySorter::index_of(), DBUI::insert_field_admin_menuitems(), KeySorter::KeySorter(), reorder_keys(), NN_GlobalData::set_query(), NN_GlobalData::set_result_list(), and KeySorter::~KeySorter().

#define AWAR_FIELD_REORDER_ORDER "tmp/adreorder/order"

Definition at line 44 of file ui_species.cxx.

Referenced by DBUI::create_dbui_awars(), DBUI::create_fields_reorder_window(), and sort_keys().

#define AWAR_FIELD_REORDER_SOURCE_TMPL "tmp/adreorder/%s/source"

Definition at line 47 of file ui_species.cxx.

Referenced by DBUI::create_fields_reorder_window(), init_itemspecific_DBUI_awars(), and reorder_keys().

#define AWAR_FIELD_REORDER_DEST_TMPL "tmp/adreorder/%s/dest"

Definition at line 48 of file ui_species.cxx.

Referenced by DBUI::create_fields_reorder_window(), init_itemspecific_DBUI_awars(), reorder_keys(), and reorder_up_down().

#define AWAR_FIELD_CREATE_NAME_TMPL "tmp/adfield/%s/name"

Definition at line 49 of file ui_species.cxx.

Referenced by DBUI::create_field_create_window(), field_create_cb(), and init_itemspecific_DBUI_awars().

#define AWAR_FIELD_CREATE_TYPE_TMPL "tmp/adfield/%s/type"

Definition at line 50 of file ui_species.cxx.

Referenced by DBUI::create_field_create_window(), field_create_cb(), and init_itemspecific_DBUI_awars().

#define AWAR_FIELD_DELETE_TMPL "tmp/adfield/%s/source"

Definition at line 51 of file ui_species.cxx.

Referenced by DBUI::create_field_delete_window(), field_delete_cb(), hide_field_cb(), and init_itemspecific_DBUI_awars().

#define AWAR_FIELD_CONVERT_SOURCE_TMPL "tmp/adconvert/%s/source"

Definition at line 52 of file ui_species.cxx.

Referenced by create_field_convert_window(), field_convert_commit_cb(), field_convert_update_typesel_cb(), and init_itemspecific_DBUI_awars().

#define AWAR_FIELD_CONVERT_TYPE_TMPL "tmp/adconvert/%s/type"

Definition at line 53 of file ui_species.cxx.

Referenced by create_field_convert_window(), field_convert_commit_cb(), field_convert_update_typesel_cb(), and init_itemspecific_DBUI_awars().

#define AWAR_NN_COMPLEMENT AWAR_NN_BASE "complement"

Definition at line 57 of file ui_species.cxx.

Referenced by awtc_nn_search(), awtc_nn_search_all_listed(), create_common_next_neighbour_fields(), and create_next_neighbours_vars().

#define AWAR_NN_RANGE_START AWAR_NN_BASE "range_start"

Definition at line 58 of file ui_species.cxx.

Referenced by create_common_next_neighbour_fields(), create_next_neighbours_vars(), and get_nn_range_from_awars().

#define AWAR_NN_RANGE_END AWAR_NN_BASE "range_end"

Definition at line 59 of file ui_species.cxx.

Referenced by create_common_next_neighbour_fields(), create_next_neighbours_vars(), and get_nn_range_from_awars().

#define AWAR_NN_MIN_SCORE AWAR_NN_BASE "min_scored"

Definition at line 60 of file ui_species.cxx.

Referenced by awtc_nn_search(), awtc_nn_search_all_listed(), create_common_next_neighbour_fields(), and create_next_neighbours_vars().

#define AWAR_NN_MAX_HITS AWAR_NN_BASE "max_hits"

Definition at line 61 of file ui_species.cxx.

Referenced by awtc_nn_search(), awtc_nn_search_all_listed(), create_common_next_neighbour_fields(), and create_next_neighbours_vars().

#define AWAR_NN_BASE_SELECTED AWAR_NN_BASE "selected/"

Definition at line 64 of file ui_species.cxx.

#define AWAR_NN_SELECTED_HIT_COUNT "tmp/" AWAR_NN_BASE_SELECTED "hit_count"

Definition at line 65 of file ui_species.cxx.

Referenced by awtc_nn_search(), create_next_neighbours_selected_window(), and create_next_neighbours_vars().

#define AWAR_NN_SELECTED_AUTO_SEARCH "tmp/" AWAR_NN_BASE_SELECTED "auto_search"

Definition at line 66 of file ui_species.cxx.

Referenced by create_next_neighbours_selected_window(), create_next_neighbours_vars(), nn_auto_search_changed_cb(), nn_searchRel_awar_changed_cb(), and setup_next_neighbour_config().

#define AWAR_NN_SELECTED_AUTO_MARK "tmp/" AWAR_NN_BASE_SELECTED "auto_mark"

Definition at line 67 of file ui_species.cxx.

Referenced by awtc_nn_search(), create_next_neighbours_selected_window(), create_next_neighbours_vars(), and setup_next_neighbour_config().

#define AWAR_NN_BASE_LISTED AWAR_NN_BASE "listed/"

Definition at line 70 of file ui_species.cxx.

#define AWAR_NN_LISTED_DEST_FIELD AWAR_NN_BASE_LISTED "dest_field"

Definition at line 71 of file ui_species.cxx.

Referenced by awtc_nn_search_all_listed(), create_next_neighbours_listed_window(), and create_next_neighbours_vars().

#define AWAR_NN_LISTED_SCORED_ENTRIES AWAR_NN_BASE_LISTED "scored_entries"

Definition at line 72 of file ui_species.cxx.

Referenced by awtc_nn_search_all_listed(), create_next_neighbours_listed_window(), create_next_neighbours_vars(), and setup_next_neighbour_config().

Enumeration Type Documentation

enum ReorderMode

Enumerator
ORDER_ALPHA
ORDER_TYPE
ORDER_FREQ
RIGHT_BEHIND_LEFT
REVERSE_ORDER

Definition at line 74 of file ui_species.cxx.

Function Documentation

const char* itemAwar	(	const char *	name_template,
		ItemSelector &	itype
	)

inline

Definition at line 89 of file ui_species.cxx.

References GBS_global_string(), and MutableItemSelector::item_name.

Referenced by create_field_convert_window(), DBUI::create_field_create_window(), DBUI::create_field_delete_window(), DBUI::create_fields_reorder_window(), field_convert_commit_cb(), field_convert_update_typesel_cb(), field_create_cb(), field_delete_cb(), hide_field_cb(), init_itemspecific_DBUI_awars(), reorder_keys(), and reorder_up_down().

static void init_itemspecific_DBUI_awars	(	AW_root *	aw_root,
		ItemSelector &	itype
	)

static

static void move_species_to_extended	(	AW_window *	aww,
		GBDATA *	gb_main
	)

static

static GB_ERROR species_create_handler	(	const char *	dest,
		GBDATA *	gb_main
	)

static

Definition at line 139 of file ui_species.cxx.

References AW_root::awar(), AWAR_SPECIES_NAME, error(), GB_await_error(), GB_begin_transaction(), GB_end_transaction(), gb_species_data, GBS_global_string(), GBT_find_or_create_species_rel_species_data(), GBT_find_species_rel_species_data(), GBT_get_species_data(), NULp, AW_root::SINGLETON, and AW_awar::write_string().

Referenced by species_create_cb().

static void species_create_cb	(	AW_window *	,
		GBDATA *	gb_main
	)

static

Definition at line 165 of file ui_species.cxx.

References AWT_activate_prompt(), and species_create_handler().

Referenced by popup_new_speciesOrganismWindow().

static GBDATA* expect_species_selected	(	AW_root *	aw_root,
		GBDATA *	gb_main,
		char **	give_name = `NULp`
	)

static

Definition at line 169 of file ui_species.cxx.

References aw_message(), AW_root::awar(), AWAR_SPECIES_NAME, GBS_global_string(), GBT_find_species(), AW_awar::read_string(), and ta.

Referenced by species_copy_cb(), species_delete_cb(), and species_rename_cb().

static void species_copy_cb	(	AW_window *	aww,
		GBDATA *	gb_main
	)

static

Definition at line 185 of file ui_species.cxx.

References aw_message(), AW_root::awar(), AWAR_SPECIES_NAME, AWTC_makeUniqueShortName(), GB_transaction::close(), error(), expect_species_selected(), GB_await_error(), GB_copy_dropProtectMarksAndTempstate(), GB_create_container(), GB_get_father(), gb_species_data, GBS_global_string(), GBT_write_string(), AW_window::get_root(), NULp, ta, and AW_awar::write_string().

Referenced by popup_new_speciesOrganismWindow().

static GB_ERROR species_rename_handler	(	const char *	new_fullname,
		GBDATA *	gb_species
	)

static

Definition at line 219 of file ui_species.cxx.

References ARB_in_expert_mode(), aw_ask_sure(), AW_root::awar(), AWAR_SPECIES_NAME, AWTC_recreate_name(), GB_transaction::close(), error(), GB_read_char_pntr(), GB_search(), GB_STRING, GB_write_string(), GBT_get_name(), NULp, AW_root::SINGLETON, ta, and AW_awar::write_string().

Referenced by species_rename_cb().

static void species_rename_cb	(	AW_window *	aww,
		GBDATA *	gb_main
	)

static

Definition at line 250 of file ui_species.cxx.

References AWT_activate_prompt(), expect_species_selected(), GB_read_char_pntr(), GB_search(), GB_STRING, AW_window::get_root(), species_rename_handler(), and ta.

Referenced by popup_new_speciesOrganismWindow().

static void species_delete_cb	(	AW_window *	aww,
		GBDATA *	gb_main
	)

static

Definition at line 266 of file ui_species.cxx.

References aw_ask_sure(), aw_message(), AW_root::awar(), AWAR_SPECIES_NAME, GB_transaction::close(), error(), expect_species_selected(), GB_delete(), GBS_global_string(), AW_window::get_root(), NULp, ta, and AW_awar::write_string().

Referenced by popup_new_speciesOrganismWindow().

static long count_field_occurrence	(	BoundItemSel *	bsel,
		const char *	field_name
	)

static

Definition at line 286 of file ui_species.cxx.

References GB_entry(), MutableBoundItemSel::gb_main, MutableItemSelector::get_first_item, MutableItemSelector::get_first_item_container, MutableItemSelector::get_next_item, MutableItemSelector::get_next_item_container, NULp, QUERY_ALL_ITEMS, and MutableBoundItemSel::selector.

static void reorder_keys	(	AW_window *	aws,
		ReorderMode	mode,
		Itemfield_Selection *	sel_left,
		Itemfield_Selection *	sel_right
	)

static

Definition at line 486 of file ui_species.cxx.

References aw_message(), AW_root::awar(), AWAR_FIELD_REORDER_DEST_TMPL, AWAR_FIELD_REORDER_SOURCE_TMPL, KeySorter::bubble_sort(), MutableItemSelector::change_key_path, GB_begin_transaction(), GB_commit_transaction(), GB_CREATE_CONTAINER, gb_main, GB_search(), GBT_get_changekey(), AW_DB_selection::get_gb_main(), AW_selection_list::get_index_of_selected(), AW_window::get_root(), Itemfield_Selection::get_selector(), AW_selection::get_sellist(), KeySorter::index_of(), init_itemspecific_DBUI_awars(), itemAwar(), KeySorter::move_to(), NULp, AW_awar::read_char_pntr(), REVERSE_ORDER, KeySorter::reverse_order(), RIGHT_BEHIND_LEFT, KeySorter::save_changes(), AW_selection_list::select_element_at(), swap(), ui_assert, and warning().

Referenced by reorder_right_behind_left(), reverse_key_order(), and sort_keys().

static void reorder_right_behind_left	(	AW_window *	aws,
		Itemfield_Selection *	selleft,
		Itemfield_Selection *	selright
	)

static

Definition at line 544 of file ui_species.cxx.

References reorder_keys(), and RIGHT_BEHIND_LEFT.

Referenced by DBUI::create_fields_reorder_window().

static void reverse_key_order	(	AW_window *	aws,
		Itemfield_Selection *	selleft,
		Itemfield_Selection *	selright
	)

static

Definition at line 545 of file ui_species.cxx.

References reorder_keys(), and REVERSE_ORDER.

Referenced by DBUI::create_fields_reorder_window().

static void sort_keys	(	AW_window *	aws,
		Itemfield_Selection *	selleft,
		Itemfield_Selection *	selright
	)

static

Definition at line 547 of file ui_species.cxx.

References AW_root::awar(), AWAR_FIELD_REORDER_ORDER, AW_window::get_root(), AW_awar::read_int(), and reorder_keys().

Referenced by DBUI::create_fields_reorder_window().

static void reorder_up_down	(	AW_window *	aws,
		Itemfield_Selection *	sel_right,
		int	dir
	)

static

static void hide_field_cb	(	AW_window *	aws,
		Itemfield_Selection *	item_sel,
		int	hide
	)

static

static void field_delete_cb	(	AW_window *	aws,
		Itemfield_Selection *	item_sel
	)

static

static void field_create_cb	(	AW_window *	aws,
		BoundItemSel *	bound_selector
	)

static

void insert_fieldtype_toggles ( AW_window * aws )

inline

Definition at line 779 of file ui_species.cxx.

References GB_BITS, GB_FLOAT, GB_INT, GB_STRING, and AW_window::insert_toggle().

Referenced by create_field_convert_window(), and DBUI::create_field_create_window().

static void field_convert_commit_cb	(	AW_window *	aws,
		BoundItemSel *	bound_selector
	)

static

Definition at line 821 of file ui_species.cxx.

References aw_message(), AW_root::awar(), AWAR_FIELD_CONVERT_SOURCE_TMPL, AWAR_FIELD_CONVERT_TYPE_TMPL, error(), GB_end_transaction_show_error(), gb_main, MutableBoundItemSel::gb_main, GB_push_transaction(), GBT_convert_changekey(), AW_window::get_root(), itemAwar(), AW_awar::read_char_pntr(), AW_awar::read_int(), and MutableBoundItemSel::selector.

Referenced by create_field_convert_window().

static void field_convert_update_typesel_cb	(	AW_root *	root,
		BoundItemSel *	bound_selector
	)

static

Definition at line 836 of file ui_species.cxx.

References AW_root::awar(), AWAR_FIELD_CONVERT_SOURCE_TMPL, AWAR_FIELD_CONVERT_TYPE_TMPL, MutableItemSelector::change_key_path, gb_main, MutableBoundItemSel::gb_main, GBT_get_type_of_changekey(), itemAwar(), AW_awar::read_char_pntr(), MutableBoundItemSel::selector, ta, type, and AW_awar::write_int().

Referenced by create_field_convert_window().

static AW_window* create_field_convert_window	(	AW_root *	root,
		BoundItemSel *	bound_selector
	)

static

int get_and_fix_range_from_awar ( AW_awar * awar )

inline

Definition at line 901 of file ui_species.cxx.

References bio2info(), GBS_global_string(), AW_awar::read_char_pntr(), and AW_awar::write_string().

Referenced by get_nn_range_from_awars().

static PosRange get_nn_range_from_awars ( AW_root * aw_root )

static

Definition at line 947 of file ui_species.cxx.

References AW_root::awar(), AWAR_NN_RANGE_END, AWAR_NN_RANGE_START, get_and_fix_range_from_awar(), and start.

Referenced by awtc_nn_search(), and awtc_nn_search_all_listed().

char* read_sequence_region	(	GBDATA *	gb_data,
		const PosRange &	range
	)

inline

Definition at line 954 of file ui_species.cxx.

References PosRange::dup_corresponding_part(), GB_read_char_pntr(), and GB_read_count().

Referenced by awtc_nn_search(), and awtc_nn_search_all_listed().

static void awtc_nn_search_all_listed ( AW_window * aww )

static

Definition at line 958 of file ui_species.cxx.

References arb_progress::auto_subtitles(), aw_message(), AW_root::awar(), AWAR_DEFAULT_ALIGNMENT, AWAR_NN_COMPLEMENT, AWAR_NN_FAST_MODE, AWAR_NN_LISTED_DEST_FIELD, AWAR_NN_LISTED_SCORED_ENTRIES, AWAR_NN_MAX_HITS, AWAR_NN_MIN_SCORE, AWAR_NN_MISMATCHES, AWAR_NN_OLIGO_LEN, AWAR_NN_REL_MATCHES, AWAR_NN_REL_SCALING, AWAR_PROBE_ADMIN_PT_SERVER, GBS_strstruct::cat(), CHANGE_KEY_PATH, QUERY::count_queried_items(), error(), GB_await_error(), GB_begin_transaction(), GB_delete(), GB_end_transaction_show_error(), GB_FIND, gb_main, GB_search(), GB_STRING, GB_write_string(), GBS_global_string(), GBT_find_sequence(), GBT_first_species(), GBT_get_type_of_changekey(), GBT_next_species(), GBS_strstruct::get_data(), get_nn_range_from_awars(), QUERY::get_queried_itemtype(), NN_GlobalData::get_query(), AW_window::get_root(), FamilyFinder::getFamilyList(), arb_progress::inc_and_check_user_abort(), QUERY::IS_QUERIED(), FamilyList::matches, FamilyList::name, FamilyList::next, NULp, prepare_and_get_selected_itemfield(), GBS_strstruct::put(), QUERY_ALL_ITEMS, QUERY::query_get_gb_main(), AW_awar::read_float(), AW_awar::read_int(), read_sequence_region(), AW_awar::read_string(), FamilyList::rel_matches, FamilyFinder::restrict_2_region(), PT_FamilyFinder::searchFamily(), speciesOrOrganism(), type, and ui_assert.

Referenced by create_next_neighbours_listed_window().

static void awtc_mark_hits ( AW_window * )

static

Definition at line 1063 of file ui_species.cxx.

References gb_main, GB_write_flag(), GBS_read_hash(), GBT_first_species(), GBT_get_name_or_description(), GBT_next_species(), NN_GlobalData::get_gb_main(), NN_GlobalData::get_result_list(), resultList, ta, and AW_selection_list::to_hash().

Referenced by awtc_nn_search(), and create_next_neighbours_selected_window().

static void awtc_nn_search ( AW_window * )

static

Definition at line 1078 of file ui_species.cxx.

References aw_message(), AW_root::awar(), AWAR_DEFAULT_ALIGNMENT, AWAR_NN_COMPLEMENT, AWAR_NN_FAST_MODE, AWAR_NN_MAX_HITS, AWAR_NN_MIN_SCORE, AWAR_NN_MISMATCHES, AWAR_NN_OLIGO_LEN, AWAR_NN_REL_MATCHES, AWAR_NN_REL_SCALING, AWAR_NN_SELECTED_AUTO_MARK, AWAR_NN_SELECTED_HIT_COUNT, AWAR_PROBE_ADMIN_PT_SERVER, AWAR_SPECIES_NAME, AWAR_TREE_REFRESH, awtc_mark_hits(), AW_selection_list::clear(), error(), gb_main, GBS_global_string(), GBT_find_sequence(), GBT_find_species(), NN_GlobalData::get_gb_main(), get_nn_range_from_awars(), NN_GlobalData::get_result_list(), FamilyFinder::getFamilyList(), FamilyFinder::getRealHits(), FamilyFinder::hits_were_truncated(), AW_selection_list::insert(), AW_selection_list::insert_default(), FamilyList::next, NULp, AW_awar::read_float(), AW_awar::read_int(), read_sequence_region(), AW_awar::read_string(), FamilyFinder::restrict_2_region(), PT_FamilyFinder::searchFamily(), AW_root::SINGLETON, ta, AW_awar::touch(), AW_selection_list::update(), and AW_awar::write_int().

Referenced by create_next_neighbours_selected_window(), and nn_perform_delayed_autosearch_cb().

static void awtc_move_hits ( AW_window * aww )

static

Definition at line 1172 of file ui_species.cxx.

References AW_root::awar(), AWAR_SPECIES_NAME, QUERY::copy_selection_list_2_query_box(), GBS_global_string_copy(), NN_GlobalData::get_query(), NN_GlobalData::get_result_list(), AW_window::get_root(), and AW_awar::read_string().

Referenced by create_next_neighbours_selected_window().

static unsigned nn_perform_delayed_autosearch_cb ( AW_root * )

static

Definition at line 1187 of file ui_species.cxx.

References autosearch_triggered, awtc_nn_search(), and NULp.

Referenced by nn_trigger_delayed_autosearch_cb().

static void nn_trigger_delayed_autosearch_cb ( AW_root * awr )

static

Definition at line 1192 of file ui_species.cxx.

References AW_root::add_timed_callback(), autosearch_triggered, and nn_perform_delayed_autosearch_cb().

Referenced by nn_auto_search_changed_cb(), and nn_searchRel_awar_changed_cb().

static void nn_auto_search_changed_cb ( AW_root * awr )

static

Definition at line 1201 of file ui_species.cxx.

References AW_awar::add_callback(), AW_root::awar(), AWAR_NN_SELECTED_AUTO_SEARCH, AWAR_SPECIES_NAME, nn_trigger_delayed_autosearch_cb(), AW_awar::read_int(), and AW_awar::remove_callback().

Referenced by create_next_neighbours_vars().

static void nn_searchRel_awar_changed_cb ( AW_root * awr )

static

Definition at line 1215 of file ui_species.cxx.

References AW_root::awar(), AWAR_NN_SELECTED_AUTO_SEARCH, AW_window::is_shown(), nn_trigger_delayed_autosearch_cb(), and AW_awar::read_int().

Referenced by create_next_neighbours_vars().

static void create_next_neighbours_vars ( AW_root * aw_root )

static

static void setup_next_neighbour_config	(	AWT_config_definition &	cdef,
		bool	for_listed
	)

static

Definition at line 1268 of file ui_species.cxx.

References AWT_config_definition::add(), AWAR_NN_LISTED_SCORED_ENTRIES, AWAR_NN_SELECTED_AUTO_MARK, and AWAR_NN_SELECTED_AUTO_SEARCH.

Referenced by create_common_next_neighbour_fields().

static void create_common_next_neighbour_fields	(	AW_window *	aws,
		bool	for_listed
	)

static

static AW_window* create_next_neighbours_listed_window	(	AW_root *	aw_root,
		DbQuery *	query
	)

static

Definition at line 1316 of file ui_species.cxx.

References AW_POPDOWN(), AWAR_NN_LISTED_DEST_FIELD, AWAR_NN_LISTED_SCORED_ENTRIES, awtc_nn_search_all_listed(), create_common_next_neighbour_fields(), create_itemfield_selection_button(), create_next_neighbours_vars(), FIELD_FILTER_STRING_WRITEABLE, makeHelpCallback(), NULp, QUERY::query_get_gb_main(), NN_GlobalData::set_query(), SF_ALLOW_NEW, and SPECIES_get_selector().

Referenced by DBUI::create_species_query_window().

static AW_window* create_next_neighbours_selected_window	(	AW_root *	aw_root,
		DbQuery *	query
	)

static

static AW_window * popup_new_speciesOrganismWindow	(	AW_root *	aw_root,
		GBDATA *	gb_main,
		bool	organismWindow,
		int	detach_id
	)

static

Definition at line 1423 of file ui_species.cxx.

References InfoWindow::add_detach_area(), AW_window::at(), InfoWindow::attach_selected_item(), AW_POPDOWN(), AWM_ALL, AW_window::button_length(), AW_window::callback(), DbScanner::create(), AW_window::create_autosize_button(), AW_window::create_button(), AW_window::create_menu(), DBUI::create_species_query_window(), DB_KEYVIEWER, InfoWindowRegistry::infowin, DBUI::init_info_window(), DBUI::insert_field_admin_menuitems(), AW_window::insert_menu_topic(), InfoWindow::is_maininfo(), AW_window::load_xfig(), InfoWindowRegistry::localize_scanner_id(), makeHelpCallback(), move_species_to_extended(), ORGANISM_get_selector(), popup_detached_speciesOrganismWindow(), InfoWindowRegistry::registerInfoWindow(), AW_window::sep______________(), AW_window::show(), species_copy_cb(), species_create_cb(), species_delete_cb(), SPECIES_get_selector(), and species_rename_cb().

Referenced by popup_detached_speciesOrganismWindow(), and popup_speciesOrganismWindow().

static void popup_detached_speciesOrganismWindow	(	AW_window *	aw_parent,
		const InfoWindow *	infoWin
	)

static

Definition at line 1410 of file ui_species.cxx.

References InfoWindowRegistry::allocate_detach_id(), InfoWindowRegistry::find_reusable_of_same_type_as(), InfoWindow::get_gbmain(), AW_window::get_root(), InfoWindowRegistry::infowin, InfoWindow::mapsOrganism(), popup_new_speciesOrganismWindow(), and InfoWindow::reuse().

Referenced by popup_new_speciesOrganismWindow().

static void popup_speciesOrganismWindow	(	AW_root *	aw_root,
		GBDATA *	gb_main,
		bool	organismWindow
	)

static

Definition at line 1476 of file ui_species.cxx.

References InfoWindow::MAIN_WINDOW, NULp, popup_new_speciesOrganismWindow(), and InfoWindowRegistry::reactivate().

Referenced by DBUI::popup_organism_info_window(), and DBUI::popup_species_info_window().

Variable Documentation

NN_GlobalData NN_GLOBAL

static

Definition at line 945 of file ui_species.cxx.

bool autosearch_triggered = false

static

Definition at line 1186 of file ui_species.cxx.

Referenced by nn_perform_delayed_autosearch_cb(), and nn_trigger_delayed_autosearch_cb().

AW_window* nn_of_sel_win = NULp

static

Definition at line 1214 of file ui_species.cxx.

AWT_config_mapping_def next_neighbour_config_mapping[]

static

Initial value:

= {
    
    { AWAR_NN_OLIGO_LEN,   "oligolen" },
    { AWAR_NN_MISMATCHES,  "mismatches" },
    { AWAR_NN_FAST_MODE,   "fastmode" },
    { AWAR_NN_REL_MATCHES, "relmatches" },
    { AWAR_NN_REL_SCALING, "relscaling" },
    { AWAR_NN_COMPLEMENT,  "complement" },
    { AWAR_NN_RANGE_START, "rangestart" },
    { AWAR_NN_RANGE_END,   "rangeend" },
    { AWAR_NN_MAX_HITS,    "maxhits" },
    { AWAR_NN_MIN_SCORE,   "minscore" },
    { NULp, NULp }
}

Definition at line 1251 of file ui_species.cxx.

DbQuery* GLOBAL_species_query = NULp

static

Definition at line 1491 of file ui_species.cxx.

Classes

Macros

Enumerations

Functions

Variables

Macro Definition Documentation

Enumeration Type Documentation

Function Documentation

Variable Documentation