-#include "bam_tview_curses.h"
+#include <curses.h>
+#include "bam_tview.h"
+typedef struct CursesTview {
+ tview_t view;
+ WINDOW *wgoto, *whelp;
+ } curses_tview_t;
-static void curses_tv_destroy(tview_t* base)
+
+#define FROM_TV(ptr) ((curses_tview_t*)ptr)
+
+static void curses_destroy(tview_t* base)
{
curses_tview_t* tv=(curses_tview_t*)base;
static void curses_mvprintw(struct AbstractTview* tv,int y ,int x,const char* fmt,...)
{
+ unsigned int size=tv->mcol+2;
+ char* str=malloc(size);
+ if(str==0) exit(EXIT_FAILURE);
+ va_list argptr;
+ va_start(argptr, fmt);
+ vsnprintf(str,size, fmt, argptr);
+ va_end(argptr);
+ mvprintw(y,x,str);
+ free(str);
}
+
static void curses_mvaddch(struct AbstractTview* tv,int y,int x,int ch)
- {
- }
+ {
+ mvaddch(y,x,ch);
+ }
+
static void curses_attron(struct AbstractTview* tv,int flag)
{
+ attron(flag);
}
static void curses_attroff(struct AbstractTview* tv,int flag)
{
+ attroff(flag);
}
static void curses_clear(struct AbstractTview* tv)
{
+ clear();
}
static int curses_colorpair(struct AbstractTview* tv,int flag)
{
+ return COLOR_PAIR(flag);
}
-
-#define SET_CALLBACK(fun) base->my_##fun=curses_##fun;
+static int curses_drawaln(struct AbstractTview* tv, int tid, int pos)
+ {
+ return base_draw_aln(tv, tid, pos);
+ }
-curses_tview_t* curses_tv_init(const char *fn, const char *fn_fa, const char *samples)
- {
- curses_tview_t *tv = (curses_tview_t*)calloc(1, sizeof(curses_tview_t));
- tview_t* base=(tview_t*)tv;
- if(tv==0)
- {
- fprintf(stderr,"Calloc failed\n");
- return 0;
- }
-
- base_tv_init(base,fn,fn_fa,samples);
- /* initialize callbacks */
- SET_CALLBACK(destroy);
- SET_CALLBACK(mvprintw);
- SET_CALLBACK(mvaddch);
- SET_CALLBACK(attron);
- SET_CALLBACK(attroff);
- SET_CALLBACK(clear);
- SET_CALLBACK(colorpair);
-
- initscr();
- keypad(stdscr, TRUE);
- clear();
- noecho();
- cbreak();
-
- getmaxyx(stdscr, base->mrow, base->mcol);
- tv->wgoto = newwin(3, TV_MAX_GOTO + 10, 10, 5);
- tv->whelp = newwin(29, 40, 5, 5);
-
- start_color();
- init_pair(1, COLOR_BLUE, COLOR_BLACK);
- init_pair(2, COLOR_GREEN, COLOR_BLACK);
- init_pair(3, COLOR_YELLOW, COLOR_BLACK);
- init_pair(4, COLOR_WHITE, COLOR_BLACK);
- init_pair(5, COLOR_GREEN, COLOR_BLACK);
- init_pair(6, COLOR_CYAN, COLOR_BLACK);
- init_pair(7, COLOR_YELLOW, COLOR_BLACK);
- init_pair(8, COLOR_RED, COLOR_BLACK);
- init_pair(9, COLOR_BLUE, COLOR_BLACK);
- return tv;
- }
-
-
static void tv_win_goto(curses_tview_t *tv, int *tid, int *pos)
{
char str[256], *p;
wgetch(win);
}
-void tv_loop(curses_tview_t *CTV)
-{
+static int curses_underline(tview_t* tv)
+ {
+ return A_UNDERLINE;
+ }
+
+static int curses_loop(tview_t* tv)
+ {
int tid, pos;
- tview_t* tv=(tview_t*)CTV;
+ curses_tview_t *CTV=(curses_tview_t *)tv;
tid = tv->curr_tid; pos = tv->left_pos;
while (1) {
int c = getch();
}
if (pos < 0) pos = 0;
if (tv->row_shift < 0) tv->row_shift = 0;
- tv_draw_aln(tv, tid, pos);
+ tv->my_drawaln(tv, tid, pos);
}
end_loop:
- return;
+ return 0;
}
-void error(const char *format, ...)
-{
- if ( !format )
- {
- fprintf(stderr, "\n");
- fprintf(stderr, "Usage: bamtk tview [options] <aln.bam> [ref.fasta]\n");
- fprintf(stderr, "Options:\n");
- fprintf(stderr, " -p chr:pos go directly to this position\n");
- fprintf(stderr, " -s STR display only reads from this sample or grou\n");
- fprintf(stderr, "\n\n");
- }
- else
- {
- va_list ap;
- va_start(ap, format);
- vfprintf(stderr, format, ap);
- va_end(ap);
- }
- exit(-1);
-}
-int bam_tview_main(int argc, char *argv[])
-{
- curses_tview_t *CTV;
- tview_t* tv=NULL;
- char *samples=NULL, *position=NULL;
- int c;
- while ((c = getopt(argc, argv, "s:p:")) >= 0) {
- switch (c) {
- case 's': samples=optarg; break;
- case 'p': position=optarg; break;
- default: error(NULL);
- }
- }
- if (argc==optind) error(NULL);
- CTV = curses_tv_init(argv[optind], (optind+1>=argc)? 0 : argv[optind+1], samples);
- tv=(tview_t*)CTV;
- if ( position )
- {
- int _tid = -1, _beg, _end;
- bam_parse_region(tv->header, position, &_tid, &_beg, &_end);
- if (_tid >= 0) { tv->curr_tid = _tid; tv->left_pos = _beg; }
- }
- tv_draw_aln(tv, tv->curr_tid, tv->left_pos);
- tv_loop(CTV);
- tv->destroy(tv);
- free(tv);
- return 0;
-}
+
+tview_t* curses_tv_init(const char *fn, const char *fn_fa, const char *samples)
+ {
+ curses_tview_t *tv = (curses_tview_t*)calloc(1, sizeof(curses_tview_t));
+ tview_t* base=(tview_t*)tv;
+ if(tv==0)
+ {
+ fprintf(stderr,"Calloc failed\n");
+ return 0;
+ }
+
+ base_tv_init(base,fn,fn_fa,samples);
+ /* initialize callbacks */
+#define SET_CALLBACK(fun) base->my_##fun=curses_##fun;
+ SET_CALLBACK(destroy);
+ SET_CALLBACK(mvprintw);
+ SET_CALLBACK(mvaddch);
+ SET_CALLBACK(attron);
+ SET_CALLBACK(attroff);
+ SET_CALLBACK(clear);
+ SET_CALLBACK(colorpair);
+ SET_CALLBACK(drawaln);
+ SET_CALLBACK(loop);
+ SET_CALLBACK(underline);
+#undef SET_CALLBACK
+
+ initscr();
+ keypad(stdscr, TRUE);
+ clear();
+ noecho();
+ cbreak();
+
+ getmaxyx(stdscr, base->mrow, base->mcol);
+ tv->wgoto = newwin(3, TV_MAX_GOTO + 10, 10, 5);
+ tv->whelp = newwin(29, 40, 5, 5);
+
+ start_color();
+ init_pair(1, COLOR_BLUE, COLOR_BLACK);
+ init_pair(2, COLOR_GREEN, COLOR_BLACK);
+ init_pair(3, COLOR_YELLOW, COLOR_BLACK);
+ init_pair(4, COLOR_WHITE, COLOR_BLACK);
+ init_pair(5, COLOR_GREEN, COLOR_BLACK);
+ init_pair(6, COLOR_CYAN, COLOR_BLACK);
+ init_pair(7, COLOR_YELLOW, COLOR_BLACK);
+ init_pair(8, COLOR_RED, COLOR_BLACK);
+ init_pair(9, COLOR_BLUE, COLOR_BLACK);
+ return base;
+ }
+
+
+
+
projects / samtools.git / blobdiff