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source: branches/profile/EDIT4/ED4_terminal.cxx

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Last change on this file was 11471, checked in by westram, 10 years ago
fix compiler warnings
Property svn:eol-style set to `native` Property svn:keywords set to `Author Date Id Revision`
File size: 44.9 KB

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1	// =============================================================== //
2	// //
3	// File : ED4_terminal.cxx //
4	// Purpose : //
5	// //
6	// Institute of Microbiology (Technical University Munich) //
7	// http://www.arb-home.de/ //
8	// //
9	// =============================================================== //
10
11	#include <arbdb.h>
12	#include <ed4_extern.hxx>
13	#include "ed4_class.hxx"
14	#include "ed4_awars.hxx"
15	#include "ed4_edit_string.hxx"
16	#include "ed4_block.hxx"
17	#include "ed4_nds.hxx"
18	#include "ed4_ProteinViewer.hxx"
19
20	#include <aw_preset.hxx>
21	#include <aw_awar.hxx>
22	#include <aw_msg.hxx>
23	#include <aw_root.hxx>
24	#include <aw_question.hxx>
25	#include <awt_seq_colors.hxx>
26	#include <st_window.hxx>
27
28	// -----------------------------------
29	// static terminal properties
30
31	static ED4_objspec tree_terminal_spec(
32	ED4_P_IS_TERMINAL, // static props
33	ED4_L_TREE, // level
34	ED4_L_NO_LEVEL, // allowed children level
35	ED4_L_NO_LEVEL, // handled object
36	ED4_L_NO_LEVEL // restriction level
37	);
38
39	static ED4_objspec bracket_terminal_spec(
40	ED4_P_IS_TERMINAL, // static props
41	ED4_L_BRACKET, // level
42	ED4_L_NO_LEVEL, // allowed children level
43	ED4_L_NO_LEVEL, // handled object
44	ED4_L_NO_LEVEL // restriction level
45	);
46
47	static ED4_objspec species_name_terminal_spec(
48	ED4_P_IS_TERMINAL, // static props
49	ED4_L_SPECIES_NAME, // level
50	ED4_L_NO_LEVEL, // allowed children level
51	ED4_L_SPECIES, // handled object
52	ED4_L_NO_LEVEL // restriction level
53	);
54
55	static ED4_objspec sequence_info_terminal_spec(
56	ED4_P_IS_TERMINAL, // static props
57	ED4_L_SEQUENCE_INFO, // level
58	ED4_L_NO_LEVEL, // allowed children level
59	ED4_L_SEQUENCE, // handled object
60	ED4_L_NO_LEVEL // restriction level
61	);
62
63	static ED4_objspec sequence_terminal_spec(
64	ED4_P_IS_TERMINAL, // static props
65	ED4_L_SEQUENCE_STRING, // level
66	ED4_L_NO_LEVEL, // allowed children level
67	ED4_L_NO_LEVEL, // handled object
68	ED4_L_NO_LEVEL // restriction level
69	);
70
71	static ED4_objspec orf_terminal_spec(
72	ED4_P_IS_TERMINAL, // static props
73	ED4_L_ORF, // level
74	ED4_L_NO_LEVEL, // allowed children level
75	ED4_L_NO_LEVEL, // handled object
76	ED4_L_NO_LEVEL // restriction level
77	);
78
79	static ED4_objspec pure_text_terminal_spec(
80	ED4_P_IS_TERMINAL, // static props
81	ED4_L_PURE_TEXT, // level
82	ED4_L_NO_LEVEL, // allowed children level
83	ED4_L_NO_LEVEL, // handled object
84	ED4_L_NO_LEVEL // restriction level
85	);
86
87	static ED4_objspec spacer_terminal_spec(
88	ED4_P_IS_TERMINAL, // static props
89	ED4_L_SPACER, // level
90	ED4_L_NO_LEVEL, // allowed children level
91	ED4_L_NO_LEVEL, // handled object
92	ED4_L_NO_LEVEL // restriction level
93	);
94
95	static ED4_objspec line_terminal_spec(
96	ED4_P_IS_TERMINAL, // static props
97	ED4_L_LINE, // level
98	ED4_L_NO_LEVEL, // allowed children level
99	ED4_L_NO_LEVEL, // handled object
100	ED4_L_NO_LEVEL // restriction level
101	);
102
103	static ED4_objspec column_stat_terminal_spec(
104	ED4_P_IS_TERMINAL, // static props
105	ED4_L_COL_STAT, // level
106	ED4_L_NO_LEVEL, // allowed children level
107	ED4_L_NO_LEVEL, // handled object
108	ED4_L_NO_LEVEL // restriction level
109	);
110
111
112	char ED4_terminal::resolve_pointer_to_string_copy(int str_len) const {
113	int len;
114	const char *s = resolve_pointer_to_char_pntr(&len);
115	char *t = GB_strduplen(s, len); // space for zero byte is allocated by GB_strduplen
116
117	if (str_len) *str_len = len;
118	return t;
119	}
120
121	const char ED4_terminal::resolve_pointer_to_char_pntr(int str_len) const
122	{
123	GB_TYPES gb_type;
124	const char *db_pointer = NULL;
125	GBDATA *gbd = get_species_pointer();
126
127	if (!gbd) {
128	if (str_len) {
129	if (id) *str_len = strlen(id);
130	else *str_len = 0;
131	}
132	return id; // if we don't have a link to the database we have to use our id
133	}
134
135	GB_push_transaction(GLOBAL_gb_main);
136
137	const char *copy_of = 0; // if set, return a copy of this string
138
139	gb_type = GB_read_type(gbd);
140	#if defined(WARN_TODO)
141	#warning temporary workaround - gb_type GB_INT and GB_FLOAT in the switch directive must not be displayed but ignored
142	#endif
143	switch (gb_type)
144	{
145	case GB_STRING:
146	db_pointer = GB_read_char_pntr(gbd);
147	if (str_len) {
148	*str_len = GB_read_string_count(gbd);
149	e4_assert(*str_len == (int)strlen(db_pointer));
150	}
151	break;
152	case GB_BITS:
153	db_pointer = GB_read_bits_pntr(gbd, '.', '+');
154	if (str_len) {
155	*str_len = GB_read_bits_count(gbd);
156	e4_assert(*str_len == (int)strlen(db_pointer));
157	}
158	break;
159	case GB_BYTES:
160	db_pointer = GB_read_bytes_pntr(gbd);
161	if (str_len) {
162	*str_len = GB_read_bytes_count(gbd);
163	e4_assert(*str_len == (int)strlen(db_pointer));
164	}
165	break;
166	case GB_DB:
167	copy_of = "GB_DB";
168	break;
169	case GB_INT: // FIXME: temporary Workaround
170	copy_of = "GB_INT";
171	break;
172	case GB_INTS:
173	copy_of = "GB_INTS";
174	break;
175	case GB_FLOAT: // FIXME: temporary Workaround
176	copy_of = "GB_FLOAT";
177	break;
178	case GB_FLOATS:
179	copy_of = "GB_FLOATS";
180	break;
181	default:
182	printf("Unknown data type - Please contact administrator\n");
183	e4_assert(0);
184	break;
185	}
186
187	if (copy_of) {
188	e4_assert(db_pointer == 0);
189
190	int len = strlen(copy_of);
191	db_pointer = GB_strduplen(copy_of, len);
192
193	if (str_len) *str_len = len;
194	}
195
196	GB_pop_transaction(GLOBAL_gb_main);
197
198	return db_pointer;
199	}
200
201	GB_ERROR ED4_terminal::write_sequence(const char *seq, int seq_len)
202	{
203	GB_ERROR err = 0;
204	GBDATA *gbd = get_species_pointer();
205	e4_assert(gbd); // we must have a link to the database!
206
207	GB_push_transaction(GLOBAL_gb_main);
208
209	int old_seq_len;
210	char *old_seq = resolve_pointer_to_string_copy(&old_seq_len);
211
212	bool allow_write_data = true;
213	if (ED4_ROOT->aw_root->awar(ED4_AWAR_ANNOUNCE_CHECKSUM_CHANGES)->read_int()) {
214	long old_checksum = GBS_checksum(old_seq, 1, "-.");
215	long new_checksum = GBS_checksum(seq, 1, "-.");
216
217	if (old_checksum != new_checksum) {
218	if (aw_question(NULL, "Checksum changed!", "Allow, Reject") == 1) {
219	allow_write_data = false;
220	}
221
222	}
223	}
224
225	if (allow_write_data) {
226	GB_TYPES gb_type = GB_read_type(gbd);
227	switch (gb_type) {
228	case GB_STRING: {
229	err = GB_write_string(gbd, seq);
230	break;
231	}
232	case GB_BITS: {
233	err = GB_write_bits(gbd, seq, seq_len, ".-");
234	break;
235	}
236	default: {
237	e4_assert(0);
238	break;
239	}
240	}
241	}
242
243	GB_pop_transaction(GLOBAL_gb_main);
244
245	if (!err && dynamic_prop&ED4_P_CONSENSUS_RELEVANT) {
246	if (old_seq) {
247	curr_timestamp = GB_read_clock(GLOBAL_gb_main);
248
249	get_parent(ED4_L_MULTI_SPECIES)->to_multi_species_manager()
250	->update_bases_and_rebuild_consensi(old_seq, old_seq_len, get_parent(ED4_L_SPECIES)->to_species_manager(), ED4_U_UP); // bases_check
251	}
252	else {
253	aw_message("Couldn't read old sequence data");
254	}
255
256	request_refresh();
257	}
258
259	if (old_seq) free(old_seq);
260
261	return err;
262	}
263
264
265	ED4_returncode ED4_terminal::remove_callbacks() // removes callbacks and gb_alignment
266	{
267	if (get_species_pointer()) {
268	set_species_pointer(0);
269	tflag.deleted = 1; // @@@ why ?
270	clr_property(ED4_P_CURSOR_ALLOWED);
271	request_refresh();
272	}
273	return ED4_R_OK;
274	}
275
276	#if 0
277	static ARB_ERROR ed4_remove_species_manager_callbacks(ED4_base *base) { // @@@ unused since [8286]
278	if (base->is_species_manager()) {
279	base->to_species_manager()->remove_all_callbacks();
280	}
281	return NULL;
282	}
283	#endif
284
285	inline void remove_from_consensus(ED4_manager *group_or_species_man) {
286	GB_transaction ta(GLOBAL_gb_main);
287	ED4_manager *parent_manager = group_or_species_man->parent;
288	parent_manager->update_consensus(parent_manager, NULL, group_or_species_man);
289	parent_manager->rebuild_consensi(parent_manager, ED4_U_UP);
290	}
291
292	ED4_returncode ED4_terminal::kill_object() {
293	ED4_species_manager *species_manager = get_parent(ED4_L_SPECIES)->to_species_manager();
294
295	if (species_manager->is_consensus_manager()) { // kill whole group
296	if (ED4_new_species_multi_species_manager()==species_manager->parent) {
297	aw_message("This group has to exist - deleting it isn't allowed");
298	return ED4_R_IMPOSSIBLE;
299	}
300
301	ED4_manager *group_manager = species_manager->get_parent(ED4_L_GROUP)->to_group_manager();
302	remove_from_consensus(group_manager);
303	group_manager->Delete();
304	}
305	else { // kill single species/SAI
306	remove_from_consensus(species_manager);
307	species_manager->Delete();
308	}
309
310	return ED4_R_OK;
311	}
312
313	ED4_base ED4_terminal::get_competent_clicked_child(AW_pos / x /, AW_pos / y /, ED4_properties / relevant_prop */)
314	{
315	e4_assert(0);
316	return NULL;
317	}
318
319	ED4_returncode ED4_terminal::handle_move(ED4_move_info * /* moveinfo */)
320	{
321	e4_assert(0);
322	return ED4_R_IMPOSSIBLE;
323	}
324
325	ED4_returncode ED4_terminal::move_requested_by_child(ED4_move_info * /* moveinfo */)
326	{
327	e4_assert(0);
328	return ED4_R_IMPOSSIBLE;
329	}
330
331
332	ED4_base ED4_terminal::get_competent_child(AW_pos / x /, AW_pos / y /, ED4_properties / relevant_prop */)
333	{
334	e4_assert(0);
335	return NULL;
336	}
337
338	ED4_returncode ED4_terminal::draw_drag_box(AW_pos x, AW_pos y, GB_CSTR text, int cursor_y) {
339	// draws drag box of object at location abs_x, abs_y
340
341	if (cursor_y!=-1) {
342	ED4_base *drag_target = NULL;
343	{
344	ED4_extension location;
345	location.position[X_POS] = 0;
346	location.position[Y_POS] = (AW_pos)cursor_y; // cursor_y is already in world coordinates
347
348	ED4_ROOT->get_device_manager()->children->search_target_species(&location, ED4_P_HORIZONTAL, &drag_target, ED4_L_NO_LEVEL);
349	}
350
351	if (drag_target) {
352	AW_pos target_x, target_y;
353
354	drag_target->calc_world_coords (&target_x, &target_y);
355	current_ed4w()->world_to_win_coords(&target_x, &target_y);
356
357	#define ARROW_LENGTH 3
358	AW_pos drag_line_x0[3], drag_line_y0[3];
359	AW_pos drag_line_x1[3], drag_line_y1[3];
360
361	drag_line_x0[0] = target_x + 5; // horizontal
362	drag_line_y0[0] = target_y + drag_target->extension.size[HEIGHT];
363	drag_line_x1[0] = drag_line_x0[0] + 50;
364	drag_line_y1[0] = target_y + drag_target->extension.size[HEIGHT];
365
366	drag_line_x0[1] = drag_line_x0[0] -ARROW_LENGTH; // arrow
367	drag_line_y0[1] = drag_line_y0[0] -ARROW_LENGTH;
368	drag_line_x1[1] = drag_line_x0[0];
369	drag_line_y1[1] = drag_line_y0[0];
370
371	drag_line_x0[2] = drag_line_x0[0] -ARROW_LENGTH; // arrow
372	drag_line_y0[2] = drag_line_y0[0] + ARROW_LENGTH;
373	drag_line_x1[2] = drag_line_x0[0];
374	drag_line_y1[2] = drag_line_y0[0];
375	#undef ARROW_LENGTH
376
377	for (ED4_index i = 0; i <= 2; i++) {
378	current_device()->line(ED4_G_DRAG, drag_line_x0[i], drag_line_y0[i], drag_line_x1[i], drag_line_y1[i], AW_SCREEN);
379	}
380	}
381	}
382
383	if (text != NULL) {
384	current_device()->text(ED4_G_DRAG, text, (x + 20), (y + INFO_TERM_TEXT_YOFFSET), 0, AW_SCREEN);
385	}
386
387	return ED4_R_OK;
388	}
389
390	ED4_returncode ED4_terminal::move_requested_by_parent(ED4_move_info *) { // handles a move request coming from parent
391	e4_assert(0);
392	return (ED4_R_IMPOSSIBLE);
393	}
394
395	void ED4_multi_species_manager::toggle_selected_species() {
396	if (all_are_selected()) deselect_all_species_and_SAI();
397	else select_all(false); // species and SAI
398
399	ED4_correctBlocktypeAfterSelection();
400	}
401
402	#if defined(DEBUG) && 1
403	static inline void dumpEvent(const char where, AW_event event) {
404	printf("%s: x=%i y=%i\n", where, event->x, event->y);
405	}
406	#else
407	#define dumpEvent(w, e)
408	#endif
409
410	ED4_returncode ED4_terminal::event_sent_by_parent(AW_event event, AW_window aww) // handles an input event coming from parent
411	{
412	static ED4_species_name_terminal *dragged_name_terminal = 0;
413	static int dragged_was_selected;
414	static bool pressed_left_button = 0;
415	static int other_x, other_y; // coordinates of last event
416	static bool right_button_started_on_sequence_term = 0;
417
418	switch (event->type) {
419	case AW_Mouse_Press: {
420	switch (event->button) {
421	case AW_BUTTON_LEFT: {
422	pressed_left_button = 0;
423	if (is_species_name_terminal()) {
424	switch (ED4_ROOT->species_mode) {
425	case ED4_SM_KILL: {
426	if (containing_species_manager()->is_selected()) ED4_ROOT->remove_from_selected(this->to_species_name_terminal());
427	kill_object();
428	return ED4_R_BREAK;
429	}
430	case ED4_SM_MOVE: {
431	dragged_name_terminal = to_species_name_terminal();
432	pressed_left_button = 1;
433	other_x = event->x;
434	other_y = event->y;
435
436	if (!containing_species_manager()->is_selected()) {
437	ED4_ROOT->add_to_selected(dragged_name_terminal);
438	dragged_was_selected = 0;
439	ED4_trigger_instant_refresh();
440	}
441	else {
442	dragged_was_selected = 1;
443	}
444	break;
445	}
446	case ED4_SM_MARK: {
447	ED4_species_manager *species_man = get_parent(ED4_L_SPECIES)->to_species_manager();
448	GBDATA *gbd = species_man->get_species_pointer();
449
450	if (gbd) {
451	GB_write_flag(gbd, !GB_read_flag(gbd));
452	request_refresh();
453	// ProtView: Refreshing orf terminals
454	if (ED4_ROOT->alignment_type == GB_AT_DNA) {
455	PV_RefreshWindow(aww->get_root());
456	}
457	}
458	break;
459	}
460	default: {
461	e4_assert(0);
462	break;
463	}
464	}
465	}
466	else if (is_bracket_terminal()) { // fold/unfold group
467	if (dynamic_prop & ED4_P_IS_FOLDED) {
468	to_bracket_terminal()->unfold();
469	}
470	else {
471	to_bracket_terminal()->fold();
472	}
473	}
474	else {
475	if (dynamic_prop & ED4_P_CURSOR_ALLOWED) {
476	ED4_no_dangerous_modes();
477	current_cursor().show_clicked_cursor(event->x, this);
478	}
479	}
480	break;
481	}
482	case AW_BUTTON_RIGHT: {
483	right_button_started_on_sequence_term = 0;
484	if (is_bracket_terminal()) { // right click on bracket terminal
485	ED4_base *group = get_parent(ED4_L_GROUP);
486	if (group) {
487	group->to_group_manager()->get_multi_species_manager()->toggle_selected_species();
488	}
489	}
490	else if (is_species_name_terminal()) {
491	ED4_species_manager *species_man = get_parent(ED4_L_SPECIES)->to_species_manager();
492
493	if (species_man->is_consensus_manager()) { // click on consensus-name
494	ED4_multi_species_manager *multi_man = species_man->get_parent(ED4_L_MULTI_SPECIES)->to_multi_species_manager();
495	multi_man->toggle_selected_species();
496	}
497	else { // click on species or SAI name
498	if (!species_man->is_selected()) { // select if not selected
499	if (ED4_ROOT->add_to_selected(this->to_species_name_terminal()) == ED4_R_OK) ED4_correctBlocktypeAfterSelection();
500	}
501	else { // deselect if already selected
502	ED4_ROOT->remove_from_selected(this->to_species_name_terminal());
503	ED4_correctBlocktypeAfterSelection();
504	}
505	}
506	}
507	else if (is_sequence_terminal()) {
508	dumpEvent("Press", event);
509
510	ED4_no_dangerous_modes();
511	ED4_setColumnblockCorner(event, to_sequence_terminal()); // mark columnblock
512	right_button_started_on_sequence_term = 1;
513	}
514	break;
515	}
516	default : break;
517	}
518	break;
519	}
520	case AW_Mouse_Drag: {
521	switch (event->button) {
522	case AW_BUTTON_LEFT: {
523	if (dragged_name_terminal) {
524	ED4_selection_entry *sel_info = dragged_name_terminal->selection_info;
525
526	if (pressed_left_button) {
527	AW_pos world_x, world_y;
528
529	dragged_name_terminal->calc_world_coords(&world_x, &world_y);
530	current_ed4w()->world_to_win_coords(&world_x, &world_y);
531
532	sel_info->drag_old_x = world_x;
533	sel_info->drag_old_y = world_y;
534	sel_info->drag_off_x = world_x-other_x;
535	sel_info->drag_off_y = world_y-other_y;
536	sel_info->old_event_y = -1;
537
538	pressed_left_button = 0;
539	}
540
541	GB_CSTR text = dragged_name_terminal->get_displayed_text();
542
543	if (dragged_name_terminal->dragged) {
544	dragged_name_terminal->draw_drag_box(sel_info->drag_old_x, sel_info->drag_old_y, text, sel_info->old_event_y);
545	}
546
547	AW_pos new_x = sel_info->drag_off_x + event->x;
548	AW_pos new_y = sel_info->drag_off_y + event->y;
549
550	dragged_name_terminal->draw_drag_box(new_x, new_y, text, event->y); // @@@ event->y ist falsch, falls vertikal gescrollt ist!
551
552	sel_info->drag_old_x = new_x;
553	sel_info->drag_old_y = new_y;
554	sel_info->old_event_y = event->y;
555
556	dragged_name_terminal->dragged = true;
557	}
558
559	break;
560	}
561	case AW_BUTTON_RIGHT: {
562	if (is_sequence_terminal() && right_button_started_on_sequence_term) {
563	ED4_no_dangerous_modes();
564	ED4_setColumnblockCorner(event, to_sequence_terminal()); // mark columnblock
565	}
566	break;
567	}
568	default: break;
569	}
570	break;
571	}
572	case AW_Mouse_Release: {
573	switch (event->button) {
574	case AW_BUTTON_LEFT: {
575	if (dragged_name_terminal) {
576	if (dragged_name_terminal->dragged) {
577	{
578	char *db_pointer = dragged_name_terminal->resolve_pointer_to_string_copy();
579	ED4_selection_entry *sel_info = dragged_name_terminal->selection_info;
580
581	dragged_name_terminal->draw_drag_box(sel_info->drag_old_x, sel_info->drag_old_y, db_pointer, sel_info->old_event_y);
582	dragged_name_terminal->dragged = false;
583
584	free(db_pointer);
585	}
586	{
587	ED4_move_info mi;
588
589	mi.object = dragged_name_terminal;
590	mi.end_x = event->x;
591	mi.end_y = event->y;
592	mi.mode = ED4_M_FREE;
593	mi.preferred_parent = ED4_L_NO_LEVEL;
594
595	dragged_name_terminal->parent->move_requested_by_child(&mi);
596	}
597	{
598	ED4_device_manager *device_manager = ED4_ROOT->get_device_manager();
599
600	for (int i=0; i<device_manager->children->members(); i++) { // when moving species numbers have to be recalculated
601	ED4_base *member = device_manager->children->member(i);
602
603	if (member->is_area_manager()) {
604	member->to_area_manager()->get_multi_species_manager()->update_requested_by_child();
605	}
606	}
607	}
608	}
609	if (!dragged_was_selected) {
610	ED4_ROOT->remove_from_selected(dragged_name_terminal);
611	}
612
613	pressed_left_button = 0;
614	dragged_name_terminal = 0;
615	}
616	break;
617	}
618
619	case AW_BUTTON_RIGHT: {
620	if (right_button_started_on_sequence_term && is_sequence_terminal()) {
621	dumpEvent("Relea", event);
622	ED4_no_dangerous_modes();
623	ED4_setColumnblockCorner(event, to_sequence_terminal()); // mark columnblock
624	}
625	break;
626	}
627	default: break;
628	}
629	break;
630	}
631	default:
632	#ifdef ARB_GTK
633	// there can be many other events here...
634	#else
635	e4_assert(0);
636	#endif
637	break;
638	}
639	return (ED4_R_OK);
640	}
641
642	void ED4_terminal::update_requested_children() {}
643
644	bool ED4_terminal::calc_bounding_box() {
645	// calculates the smallest rectangle containing the object.
646	// requests refresh and returns true if bounding box has changed.
647
648	bool bb_changed = false;
649
650	if (width_link) {
651	if (extension.size[WIDTH] != width_link->extension.size[WIDTH]) { // all bounding Boxes have the same size !!!
652	extension.size[WIDTH] = width_link->extension.size[WIDTH];
653	bb_changed = true;
654	}
655	}
656
657	if (height_link) {
658	if (extension.size[HEIGHT] != height_link->extension.size[HEIGHT]) {
659	extension.size[HEIGHT] = height_link->extension.size[HEIGHT];
660	bb_changed = true;
661	}
662	}
663
664
665	if (bb_changed) {
666	request_resize_of_linked();
667	request_refresh();
668	}
669	return bb_changed;
670	}
671
672	void ED4_terminal::resize_requested_children() {
673	if (update_info.resize) { // likes to resize?
674	if (calc_bounding_box()) {
675	request_resize();
676	}
677	}
678	}
679
680
681	void ED4_terminal::request_refresh(int clear) {
682	update_info.set_refresh(1);
683	update_info.set_clear_at_refresh(clear);
684	if (parent) parent->refresh_requested_by_child();
685	}
686
687
688	ED4_base* ED4_terminal::search_ID(const char *temp_id)
689	{
690	if (id && strcmp(temp_id, id) == 0) return (this);
691	return (NULL);
692	}
693
694	ED4_terminal::ED4_terminal(const ED4_objspec& spec_, GB_CSTR temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager *temp_parent) :
695	ED4_base(spec_, temp_id, x, y, width, height, temp_parent)
696	{
697	memset((char*)&tflag, 0, sizeof(tflag));
698	curr_timestamp = 0;
699	}
700
701
702	ED4_terminal::~ED4_terminal() {
703	for (ED4_window *window = ED4_ROOT->first_window; window; window=window->next) {
704	ED4_cursor& cursor = window->cursor;
705	if (this == cursor.owner_of_cursor) {
706	cursor.init();
707	}
708	}
709	}
710
711	ED4_tree_terminal::ED4_tree_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
712	: ED4_terminal(tree_terminal_spec, temp_id, x, y, width, height, temp_parent)
713	{
714	}
715
716	ED4_returncode ED4_tree_terminal::Show(int IF_ASSERTION_USED(refresh_all), int is_cleared)
717	{
718	e4_assert(update_info.refresh \|\| refresh_all);
719	current_device()->push_clip_scale();
720	if (adjust_clipping_rectangle()) {
721	if (update_info.clear_at_refresh && !is_cleared) {
722	clear_background();
723	}
724	draw();
725	}
726	current_device()->pop_clip_scale();
727
728	return (ED4_R_OK);
729	}
730
731
732
733	ED4_returncode ED4_tree_terminal::draw() {
734	AW_pos x, y;
735	AW_pos text_x, text_y;
736	char *db_pointer;
737
738	calc_world_coords(&x, &y);
739	current_ed4w()->world_to_win_coords(&x, &y);
740
741	text_x = x + CHARACTEROFFSET; // don't change
742	text_y = y + SEQ_TERM_TEXT_YOFFSET;
743
744	db_pointer = resolve_pointer_to_string_copy();
745	current_device()->text(ED4_G_STANDARD, db_pointer, text_x, text_y, 0, AW_SCREEN);
746	free(db_pointer);
747
748	return (ED4_R_OK);
749	}
750
751	ED4_bracket_terminal::ED4_bracket_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
752	: ED4_terminal(bracket_terminal_spec, temp_id, x, y, width, height, temp_parent)
753	{
754	}
755
756	ED4_returncode ED4_bracket_terminal::Show(int IF_ASSERTION_USED(refresh_all), int is_cleared)
757	{
758	e4_assert(update_info.refresh \|\| refresh_all);
759	current_device()->push_clip_scale();
760	if (adjust_clipping_rectangle()) {
761	if (update_info.clear_at_refresh && !is_cleared) {
762	clear_background();
763	}
764	draw();
765	}
766	current_device()->pop_clip_scale();
767
768	return ED4_R_OK;
769	}
770
771
772	ED4_returncode ED4_bracket_terminal::draw() {
773	using namespace AW;
774
775	Rectangle term_area = get_win_area(current_ed4w());
776	AW_device *device = current_device();
777
778	ED4_multi_species_manager *multi_man = get_parent(ED4_L_GROUP)->to_group_manager()->get_multi_species_manager();
779	if (multi_man->get_no_of_selected_species()) { // if multi_species_manager contains selected species
780	#if defined(DEBUG) && 0
781	static bool toggle = false;
782	toggle = !toggle;
783	device->box(toggle ? ED4_G_SELECTED : ED4_G_SELECTED+1, true, term_area);
784	#else // !defined(DEBUG)
785	device->box(ED4_G_SELECTED, true, term_area);
786	#endif
787	}
788
789	if (dynamic_prop & ED4_P_IS_FOLDED) { // paint triangle for folded group
790	Position t = term_area.upper_left_corner()+Vector(4,4);
791	Position b = t+Vector(0,12);
792
793	for (int i = 0; i<6; ++i) {
794	device->line(ED4_G_STANDARD, t, b, AW_SCREEN);
795	t += Vector(1, 1);
796	b += Vector(1, -1);
797	}
798	e4_assert(nearlyEqual(t, b));
799	device->line(ED4_G_STANDARD, t, b, AW_SCREEN); // arrowhead
800	}
801	else {
802	Position l = term_area.upper_left_corner()+Vector(4,5);
803	Position r = l+Vector(6,0);
804
805	for (int i = 0; i<3; ++i) {
806	device->line(ED4_G_STANDARD, l, r, AW_SCREEN);
807	l += Vector( 0, 1);
808	r += Vector( 0, 1);
809	device->line(ED4_G_STANDARD, l, r, AW_SCREEN);
810	l += Vector( 1, 1);
811	r += Vector(-1, 1);
812	}
813	e4_assert(nearlyEqual(l, r));
814	device->line(ED4_G_STANDARD, l, r+Vector(0,1), AW_SCREEN); // arrowhead
815	}
816
817	{
818	Rectangle bracket(term_area.upper_left_corner()+Vector(2,2), term_area.diagonal()+Vector(-2,-4));
819
820	device->line(ED4_G_STANDARD, bracket.upper_edge(), AW_SCREEN);
821	device->line(ED4_G_STANDARD, bracket.lower_edge(), AW_SCREEN);
822	device->line(ED4_G_STANDARD, bracket.left_edge(), AW_SCREEN);
823	}
824
825	return (ED4_R_OK);
826	}
827
828	ED4_species_name_terminal::ED4_species_name_terminal(GB_CSTR temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager *temp_parent) :
829	ED4_text_terminal(species_name_terminal_spec, temp_id, x, y, width, height, temp_parent),
830	selection_info(NULL),
831	dragged(false)
832	{
833	}
834
835	#define MAXNAMELEN MAXSPECIESWIDTH
836	#define BUFFERSIZE (MAXNAMELEN<<1)
837	GB_CSTR ED4_species_name_terminal::get_displayed_text() const
838	{
839	static char *real_name;
840	static int allocatedSize;
841
842	if (!real_name \|\| allocatedSize<(BUFFERSIZE+1)) {
843	free(real_name);
844	allocatedSize = BUFFERSIZE+1;
845	real_name = (char*)malloc(allocatedSize);
846	}
847	memset(real_name, 0, allocatedSize);
848
849	ED4_species_manager *spec_man = get_parent(ED4_L_SPECIES)->to_species_manager();
850
851	if (spec_man->is_consensus_manager()) {
852	char *db_pointer = resolve_pointer_to_string_copy();
853	char *bracket = strchr(db_pointer, '(');
854
855	if (bracket) {
856	int bracket_len = strlen(bracket);
857	int name_len = bracket-db_pointer;
858
859	if (bracket[-1]==' ') {
860	name_len--;
861	}
862
863	if ((name_len+1+bracket_len)<=MAXNAMELEN) {
864	strcpy(real_name, db_pointer);
865	}
866	else {
867	int short_name_len = MAXNAMELEN-bracket_len-1;
868
869	memcpy(real_name, db_pointer, short_name_len);
870	real_name[short_name_len] = ' ';
871	strcpy(real_name+short_name_len+1, bracket);
872	}
873	}
874	else {
875	strncpy(real_name, db_pointer, BUFFERSIZE);
876	}
877
878	free(db_pointer);
879	}
880	else if (spec_man->is_SAI_manager()) {
881	char *db_pointer = resolve_pointer_to_string_copy();
882
883	strcpy(real_name, "SAI: ");
884	if (strcmp(db_pointer, "ECOLI")==0) {
885	const char *name_for_ecoli = ED4_ROOT->aw_root->awar(ED4_AWAR_NDS_ECOLI_NAME)->read_char_pntr();
886	if (name_for_ecoli[0]==0) name_for_ecoli = db_pointer;
887	strncpy(real_name+5, name_for_ecoli, BUFFERSIZE-5);
888	}
889	else {
890	strncpy(real_name+5, db_pointer, BUFFERSIZE-5);
891	}
892	free(db_pointer);
893	}
894	else { // normal species
895	char *result = ED4_get_NDS_text(spec_man);
896	strncpy(real_name, result, BUFFERSIZE);
897	free(result);
898	}
899
900	return real_name;
901	}
902	#undef MAXNAMELEN
903	#undef BUFFERSIZE
904
905
906	ED4_sequence_info_terminal::ED4_sequence_info_terminal(const char temp_id, / GBDATA gbd, / AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager *temp_parent)
907	: ED4_text_terminal(sequence_info_terminal_spec, temp_id, x, y, width, height, temp_parent)
908	{
909	}
910
911	ED4_consensus_sequence_terminal::ED4_consensus_sequence_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
912	: ED4_sequence_terminal(temp_id, x, y, width, height, temp_parent, false)
913	{
914	species_name = NULL;
915	}
916
917	ED4_abstract_sequence_terminal::ED4_abstract_sequence_terminal(const ED4_objspec& spec_, const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
918	: ED4_text_terminal(spec_, temp_id, x, y, width, height, temp_parent)
919	{
920	species_name = NULL;
921	}
922
923	ED4_abstract_sequence_terminal::~ED4_abstract_sequence_terminal() {
924	free(species_name);
925	}
926
927	ED4_orf_terminal::ED4_orf_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
928	: ED4_abstract_sequence_terminal(orf_terminal_spec, temp_id, x, y, width, height, temp_parent)
929	{
930	aaSequence = 0;
931	aaSeqLen = 0;
932	aaColor = 0;
933	aaStartPos = 0;
934	aaStrandType = 0;
935	}
936
937	GB_alignment_type ED4_orf_terminal::GetAliType()
938	{
939	return (GB_alignment_type) GB_AT_AA;
940	}
941
942	ED4_orf_terminal::~ED4_orf_terminal()
943	{
944	free(aaSequence);
945	free(aaColor);
946	}
947
948	ED4_sequence_terminal::ED4_sequence_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent, bool shall_display_secstruct_info_)
949	: ED4_abstract_sequence_terminal(sequence_terminal_spec, temp_id, x, y, width, height, temp_parent),
950	shall_display_secstruct_info(shall_display_secstruct_info_)
951	{
952	st_ml_node = NULL;
953	}
954
955	GB_alignment_type ED4_sequence_terminal::GetAliType()
956	{
957	return ED4_ROOT->alignment_type;
958	}
959
960	ED4_pure_text_terminal::ED4_pure_text_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
961	: ED4_text_terminal(pure_text_terminal_spec, temp_id, x, y, width, height, temp_parent)
962	{
963	}
964
965	ED4_returncode ED4_spacer_terminal::Show(int /* refresh_all */, int is_cleared) {
966	if (shallDraw) {
967	if (update_info.clear_at_refresh && !is_cleared) {
968	clear_background();
969	}
970	draw();
971	}
972	return ED4_R_OK;
973	}
974
975
976	ED4_returncode ED4_spacer_terminal::draw() {
977	#if defined(DEBUG) && 0
978	clear_background(ED4_G_FIRST_COLOR_GROUP); // draw colored spacers to make them visible
979	#else
980	clear_background(0);
981	#endif // DEBUG
982	return (ED4_R_OK);
983	}
984
985	ED4_spacer_terminal::ED4_spacer_terminal(const char temp_id, bool shallDraw_, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
986	: ED4_terminal(spacer_terminal_spec, temp_id, x, y, width, height, temp_parent),
987	shallDraw(shallDraw_)
988	{
989	}
990
991	ED4_returncode ED4_line_terminal::draw() {
992	AW_pos x1, y1;
993	calc_world_coords(&x1, &y1);
994	current_ed4w()->world_to_win_coords(&x1, &y1);
995
996	AW_pos x2 = x1+extension.size[WIDTH]-1;
997	AW_pos y2 = y1+extension.size[HEIGHT]-1;
998
999	AW_device *device = current_device();
1000
1001	device->line(ED4_G_STANDARD, x1, y1, x2, y1);
1002	#if defined(DEBUG)
1003	device->box(ED4_G_MARKED, true, x1, y1+1, x2-x1+1, y2-y1-1);
1004	#else
1005	device->clear_part(x1, y1+1, x2-x1+1, y2-y1-1, AW_ALL_DEVICES);
1006	#endif // DEBUG
1007	device->line(ED4_G_STANDARD, x1, y2, x2, y2);
1008
1009	return ED4_R_OK;
1010	}
1011
1012	ED4_returncode ED4_line_terminal::Show(int /* refresh_all */, int is_cleared)
1013	{
1014	if (update_info.clear_at_refresh && !is_cleared) {
1015	clear_background();
1016	}
1017	draw();
1018	return ED4_R_OK;
1019	}
1020
1021
1022	ED4_line_terminal::ED4_line_terminal(const char temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager temp_parent)
1023	: ED4_terminal(line_terminal_spec, temp_id, x, y, width, height, temp_parent)
1024	{
1025	}
1026
1027	// ---------------------------------
1028	// ED4_columnStat_terminal
1029
1030	ED4_returncode ED4_columnStat_terminal::Show(int IF_ASSERTION_USED(refresh_all), int is_cleared)
1031	{
1032	e4_assert(update_info.refresh \|\| refresh_all);
1033	current_device()->push_clip_scale();
1034	if (adjust_clipping_rectangle()) {
1035	if (update_info.clear_at_refresh && !is_cleared) {
1036	clear_background();
1037	}
1038	draw();
1039	}
1040	current_device()->pop_clip_scale();
1041
1042	return ED4_R_OK;
1043	}
1044
1045	inline char stat2display(int val, bool is_upper_digit) {
1046	if (val<0) {
1047	e4_assert(val==-1); // -1 indicates that no statistic is existing for that column
1048	return '?';
1049	}
1050	if (val==20) return ' '; // value if ACGT and - are distributed equally
1051	if (val==100) return '^'; // we have only 2 characters to display likelihood (100 cannot be displayed)
1052
1053	e4_assert(val>=0 && val<100);
1054
1055	return '0' + (is_upper_digit ? (val/10) : (val%10));
1056	}
1057
1058	inline int find_significant_positions(int sig, int like_A, int like_C, int like_G, int like_TU, int *sumPtr) {
1059	// result == 0 -> no base-char has a significant likelihood (>=sig)
1060	// result == 1, 2, 4, 8 -> A, C, G, T/U has a significant likelihood
1061	// else -> the sum two of the likelihoods >= sig (bit-or-ed as in line above)
1062
1063	int like[4];
1064	like[0] = like_A;
1065	like[1] = like_C;
1066	like[2] = like_G;
1067	like[3] = like_TU;
1068
1069	int bestSum = 0;
1070	int bestResult = 0;
1071
1072	int b, c;
1073	for (b=0; b<4; b++) {
1074	int sum = like[b];
1075	if (sum>=sig && sum>=bestSum) {
1076	bestSum = sum;
1077	bestResult = 1<<b;
1078	}
1079	}
1080
1081	if (!bestResult) {
1082	for (b=0; b<4; b++) {
1083	for (c=b+1; c<4; c++) {
1084	int sum = like[b]+like[c];
1085	if (sum>=sig && sum>=bestSum) {
1086	bestSum = sum;
1087	bestResult = (1<<b)\|(1<<c);
1088	}
1089	}
1090	}
1091	}
1092
1093	if (bestResult) {
1094	if (sumPtr) *sumPtr = bestSum;
1095	return bestResult;
1096	}
1097
1098	return 0;
1099	}
1100
1101	#define PROBE_MATCH_TARGET_STRING_LENGTH 32
1102
1103	GB_CSTR ED4_columnStat_terminal::build_probe_match_string(PosRange range) const {
1104	static char result[PROBE_MATCH_TARGET_STRING_LENGTH+1]; // see create_probe_match_window() for length
1105	int max_insert = PROBE_MATCH_TARGET_STRING_LENGTH;
1106	char *r = result;
1107	int significance = int(get_threshold());
1108	ED4_sequence_terminal *seq_term = corresponding_sequence_terminal();
1109	char *seq = seq_term->resolve_pointer_to_string_copy();
1110
1111	for (int pos=range.start(); pos<=range.end(); pos++) {
1112	int found = find_significant_positions(significance, likelihood[0][pos], likelihood[1][pos], likelihood[2][pos], likelihood[3][pos], 0);
1113
1114	if (found \|\| strchr("-=.", seq[pos])==0) {
1115	// '?' is inserted at every base position without significant bases (not at gaps!)
1116
1117	*r++ = "NACMGRSVUWYHKDBN"[found]; // this creates a string containing the full IUPAC code
1118
1119	if (max_insert--==0) {
1120	r--;
1121	break;
1122	}
1123	}
1124	}
1125	r[0] = 0;
1126	free(seq);
1127
1128	if (max_insert<0) {
1129	aw_message(GBS_global_string("Max. %i bases allowed in Probe Match", PROBE_MATCH_TARGET_STRING_LENGTH));
1130	result[0] = 0;
1131	}
1132	return result;
1133	}
1134	#undef PROBE_MATCH_TARGET_STRING_LENGTH
1135
1136	ED4_returncode ED4_columnStat_terminal::draw() {
1137	if (!update_likelihood()) {
1138	aw_message("Can't calculate likelihood.");
1139	return ED4_R_IMPOSSIBLE;
1140	}
1141
1142	AW_pos x, y;
1143	calc_world_coords(&x, &y);
1144	current_ed4w()->world_to_win_coords(&x, &y);
1145
1146	AW_pos term_height = extension.size[HEIGHT];
1147	AW_pos font_height = ED4_ROOT->font_group.get_height(ED4_G_SEQUENCES);
1148	AW_pos font_width = ED4_ROOT->font_group.get_width(ED4_G_SEQUENCES);
1149
1150	AW_pos text_x = x + CHARACTEROFFSET;
1151	AW_pos text_y = y + term_height - font_height;
1152
1153	AW_device *device = current_device();
1154	ED4_sequence_terminal *seq_term = corresponding_sequence_terminal();
1155	const ED4_remap *rm = ED4_ROOT->root_group_man->remap();
1156
1157	PosRange index_range = rm->clip_screen_range(seq_term->calc_update_interval());
1158	{
1159	int max_seq_len = seq_term->get_length();
1160	int max_seq_pos = rm->sequence_to_screen(max_seq_len);
1161
1162	index_range = ExplicitRange(index_range, max_seq_pos);
1163	if (index_range.is_empty()) return ED4_R_OK;
1164	}
1165
1166	const int left = index_range.start();
1167	const int right = index_range.end();
1168
1169	char *sbuffer = new char[right+2]; // used to build displayed terminal content (values = '0'-'9')
1170	memset(sbuffer, ' ', right+1);
1171	sbuffer[right+1] = 0; // eos
1172
1173	AW_pos y2;
1174	int r;
1175
1176	// Set background:
1177	{
1178	int significance = int(get_threshold());
1179	// normal columns are colored in ED4_G_STANDARD
1180	// all columns with one (or sum of two) probability above 'significance' are back-colored in ED4_G_CBACK_0
1181	// the responsible probabilities (one or two) are back-colored in ED4_G_CBACK_1..ED4_G_CBACK_9
1182
1183	int old_color = ED4_G_STANDARD;
1184
1185	AW_pos x2 = text_x + font_width*left + 1;
1186	AW_pos old_x2 = x2;
1187
1188	PosRange selection;
1189	bool is_selected = ED4_get_selected_range(seq_term, selection);
1190
1191	for (int i=left; i<=right; i++, x2+=font_width) { // colorize significant columns in ALL rows
1192	int p = rm->screen_to_sequence(i);
1193	int found = find_significant_positions(significance, likelihood[0][p], likelihood[1][p], likelihood[2][p], likelihood[3][p], 0);
1194
1195	int color;
1196	if (is_selected && selection.contains(p)) {
1197	color = ED4_G_SELECTED;
1198	}
1199	else {
1200	color = found ? ED4_G_CBACK_0 : ED4_G_STANDARD;
1201	}
1202
1203	if (color!=old_color) {
1204	if (x2>old_x2 && old_color!=ED4_G_STANDARD) {
1205	device->box(old_color, true, old_x2, y, x2-old_x2, term_height);
1206	}
1207	old_color = color;
1208	old_x2 = x2;
1209	}
1210	}
1211	if (x2>old_x2 && old_color!=ED4_G_STANDARD) {
1212	device->box(old_color, true, old_x2, y, x2-old_x2, term_height);
1213	}
1214
1215	x2 = text_x + font_width*left + 1;
1216
1217	for (int i=left; i<=right; i++, x2+=font_width) { // colorize significant columns in SINGLE rows
1218	int p = rm->screen_to_sequence(i);
1219	int sum;
1220	int found = find_significant_positions(significance, likelihood[0][p], likelihood[1][p], likelihood[2][p], likelihood[3][p], &sum);
1221
1222	if (found && significance<100) {
1223	e4_assert(sum>=significance && sum<=100);
1224	int color = ED4_G_CBACK_1+((sum-significance)*(ED4_G_CBACK_9-ED4_G_CBACK_1))/(100-significance);
1225	e4_assert(color>=ED4_G_CBACK_1 && color<=ED4_G_CBACK_9);
1226
1227	if (color!=ED4_G_STANDARD) {
1228	int bit;
1229
1230	for (r=3, y2=text_y+1, bit=1<<3;
1231	r>=0;
1232	r--, y2-=COLUMN_STAT_ROW_HEIGHT(font_height), bit>>=1)
1233	{
1234	if (found&bit) {
1235	device->box(color, true, x2, y2-2font_height+1, font_width, 2font_height);
1236	}
1237	}
1238	}
1239	}
1240	}
1241	}
1242
1243	// Draw text:
1244	for (r=3, y2=text_y;
1245	r>=0;
1246	r--, y2-=COLUMN_STAT_ROW_HEIGHT(font_height)) { // 4 rows (one for T/U, G, C and A)
1247
1248	int gc = ED4_ROOT->sequence_colors->char_2_gc[(unsigned char)"ACGU"[r]];
1249	int i;
1250	for (i=left; i<=right; i++) {
1251	int p = rm->screen_to_sequence(i);
1252	int val = likelihood[r][p];
1253	sbuffer[i] = stat2display(val, 0); // calc lower digit
1254	}
1255	device->text(gc, sbuffer, text_x+font_width*0.2, y2, 0, AW_SCREEN, right); // draw lower-significant digit (shifted a bit to the right)
1256
1257	for (i=left; i<=right; i++) {
1258	int p = rm->screen_to_sequence(i);
1259	int val = likelihood[r][p];
1260	sbuffer[i] = stat2display(val, 1); // calc upper digit
1261	}
1262	device->text(gc, sbuffer, text_x, y2-font_height, 0, AW_SCREEN, right); // draw higher-significant digit
1263	}
1264
1265	delete [] sbuffer;
1266	return ED4_R_OK;
1267	}
1268
1269	int ED4_columnStat_terminal::update_likelihood() {
1270	ED4_sequence_terminal *seq_term = corresponding_sequence_terminal();
1271
1272	return STAT_update_ml_likelihood(ED4_ROOT->st_ml, likelihood, latest_update, 0, seq_term->st_ml_node);
1273	}
1274
1275	ED4_columnStat_terminal::ED4_columnStat_terminal(GB_CSTR temp_id, AW_pos x, AW_pos y, AW_pos width, AW_pos height, ED4_manager *temp_parent) :
1276	ED4_text_terminal(column_stat_terminal_spec, temp_id, x, y, width, height, temp_parent)
1277	{
1278	for (int i=0; i<4; i++) likelihood[i] = 0;
1279	latest_update = 0;
1280	}
1281
1282	ED4_columnStat_terminal::~ED4_columnStat_terminal()
1283	{
1284	for (int i=0; i<4; i++) free(likelihood[i]);
1285	}
1286
1287	// ---------------------------------
1288	// ED4_reference_terminals
1289
1290	void ED4_reference_terminals::clear()
1291	{
1292	delete ref_sequence_info;
1293	delete ref_sequence;
1294	delete ref_column_stat;
1295	delete ref_column_stat_info;
1296	null();
1297	}
1298
1299	void ED4_reference_terminals::init(ED4_sequence_info_terminal *ref_sequence_info_,
1300	ED4_sequence_terminal *ref_sequence_,
1301	ED4_sequence_info_terminal *ref_column_stat_info_,
1302	ED4_columnStat_terminal *ref_column_stat_)
1303	{
1304	clear();
1305	ref_sequence_info = ref_sequence_info_;
1306	ref_sequence = ref_sequence_;
1307	ref_column_stat_info = ref_column_stat_info_;
1308	ref_column_stat = ref_column_stat_;
1309	}

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