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#include "seaview.h"
#include <FL/Fl_Round_Button.H>
#include <FL/Fl_Check_Button.H>
#include <FL/Fl_Return_Button.H>
#include <FL/Fl_Choice.H>
void concatenate_dialog(SEA_VIEW *view);
static void cancel_callback(Fl_Widget *, void *);
void rank_name_callback( Fl_Widget *o, void *data);
void do_concatenate_callback( Fl_Widget *ob, void *data);
static Fl_Round_Button *by_name;
static Fl_Choice *choice;
static int interrupted;
static Fl_Check_Button *addgaps;
void concatenate_dialog(SEA_VIEW *view)
{
Fl_Window *w;
w = new Fl_Window(305, 160);
choice = new Fl_Choice(130,10,170, 20, "Source alignment");
choice->align(FL_ALIGN_LEFT);
Fl_Window *w2 = Fl::first_window();
int count = 0;
while(w2 != NULL) {
const char *wclass = w2->xclass();
if(w2 != view->dnawin && wclass != NULL && strcmp(wclass, SEAVIEW_WINDOW) == 0) {
choice->add(w2->label());
Fl_Menu_Item *menu = (Fl_Menu_Item *)choice->menu();
(menu + count)->user_data(w2->user_data());
count++;
}
w2 = Fl::next_window(w2);
}
if(choice->size() <= 1) {
w->end();
delete w;
fl_alert("Concatenation requires more than one alignment window");
return;
}
choice->value(0);
static char title[100];
sprintf(title, "Target alignment: %s", view->dnawin->label());
Fl_Box *target = new Fl_Box(10, 40, w->w() - 20, 20, title);
target->align(FL_ALIGN_LEFT | FL_ALIGN_INSIDE);
Fl_Group *g = new Fl_Group(0, 70, w->w(), 40);
by_name = new Fl_Round_Button(10, 75, 80, 20, "by name");
by_name->value(1);
by_name->type(FL_RADIO_BUTTON);
by_name->callback(rank_name_callback, NULL);
Fl_Round_Button *rank = new Fl_Round_Button(100, 75, 80, 20, "by rank");
rank->type(FL_RADIO_BUTTON);
rank->callback(rank_name_callback, NULL);
g->end();
addgaps = new Fl_Check_Button(10, 100, 100, 20, "add gaps");
Fl_Button *cancel = new Fl_Button(10, 125, 50, 20, "Cancel");
cancel->callback(cancel_callback, NULL);
Fl_Return_Button *ok = new Fl_Return_Button(w->w() - 60, 125, 50, 20, "OK");
ok->callback(do_concatenate_callback, view);
w->end();
w->callback(cancel_callback, NULL);
w->show();
#ifndef MICRO
w->hotspot(w);
#endif
interrupted = FALSE;
while(!interrupted) Fl::wait();
w->hide();
Fl::delete_widget(w);
}
static void cancel_callback( Fl_Widget *ob, void *data)
{
interrupted = TRUE;
}
void rank_name_callback( Fl_Widget *o, void *data)
{
if(o == by_name) addgaps->activate();
else {
addgaps->value(0);
addgaps->deactivate();
}
}
void do_concatenate_callback( Fl_Widget *ob, void *data)
{
int i, j, l, *found;
char *gaps;
SEA_VIEW *target = (SEA_VIEW *)data;
interrupted = TRUE;
i = choice->value();
Fl_Menu_Item *item = (Fl_Menu_Item *)choice->menu() + i;
SEA_VIEW *source = (SEA_VIEW *)item->user_data();
//concatenate target = target + source
if(by_name->value()) {//concatenation by name
if(addgaps->value()) {
l = FL_max(target->seq_length, source->seq_length);
gaps = (char *)malloc(l + 1);
memset(gaps, '-', l);
found = (int *)calloc(target->tot_seqs + source->tot_seqs, sizeof(int));
}
for(i = 0; i < source->tot_seqs; i++) {
for(j = 0; j < target->tot_seqs; j++) if(strcmp(source->seqname[i], target->seqname[j]) == 0) break;
if(j >= target->tot_seqs) {//seq in source absent from target
if( addgaps->value() == 0 ) continue;
//add a gap-only sequence to target
add_seq_to_align(target, source->seqname[i], gaps, target->seq_length);
j = target->tot_seqs - 1;
if(source->comments[i] != NULL) target->comments[j] = strdup(source->comments[i]);
}
l = target->each_length[j] + source->each_length[i];
target->sequence[j] = (char *)realloc(target->sequence[j], l + 1);
memcpy(target->sequence[j] + target->each_length[j], source->sequence[i], source->each_length[i]);
target->sequence[j][l] = 0;
if(addgaps->value()) found[j] = TRUE;
}
if(addgaps->value()) {
for(j = 0; j < target->tot_seqs; j++) {
if(found[j]) continue;
//seqs from target only are concatenated with a gap-only sequence
l = target->each_length[j] + source->seq_length;
target->sequence[j] = (char *)realloc(target->sequence[j], l + 1);
memset(target->sequence[j] + target->each_length[j], '-', source->seq_length);
target->sequence[j][l] = 0;
}
free(gaps);
free(found);
}
}
else {//concatenation by rank
for(i = 0; i < source->tot_seqs; i++) {
if(i >= target->tot_seqs) break;
l = strlen(target->sequence[i]) + strlen(source->sequence[i]);
target->sequence[i] = (char *)realloc(target->sequence[i], l + 1);
strcat(target->sequence[i], source->sequence[i]);
}
}
char *oldname = strdup(target->masename);
free(target->masename);
free(target->each_length);
for(i = 0; i < target->tot_seqs; i++) free(target->col_rank[i]);
free(target->col_rank);
init_dna_scroller(target, target->tot_seqs, oldname, target->protein, target->header);
free(oldname);
set_seaview_modified(target, TRUE);
}
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