#include "ed4_seq_colors.hxx"
#include "ed4_class.hxx"
#include "ed4_extern.hxx"
#include <aw_root.hxx>
#include <aw_awar.hxx>
#include <aw_awar_defs.hxx>
#include <aw_msg.hxx>
#include <arbdbt.h>
#include <arb_global_defs.h>
#include <cctype>

Include dependency graph for ED4_seq_colors.cxx:

Macros
#define	SEQ_COLOR_SETS 8

#define	SEQ_COLOR_SET_ELEMS 28

#define	AWAR_SEQ_PATH "awt/seq_colors/"

#define	AWAR_SEQ_NAME_STRINGS_TEMPLATE AWAR_SEQ_PATH "strings/elem_%i"

#define	AWAR_SEQ_NAME_TEMPLATE AWAR_SEQ_PATH "set_%i/elem_%i"

#define	AWAR_SEQ_NAME_SELECTOR_NA AWAR_SEQ_PATH "na/select"

#define	AWAR_SEQ_NAME_SELECTOR_AA AWAR_SEQ_PATH "aa/select"

#define	APREFIX_DIFF_SAVE "edit4/diff/"

#define	APREFIX_DIFF_TEMP "tmp/" APREFIX_DIFF_SAVE

#define	AWAR_DIFF_TYPE APREFIX_DIFF_TEMP "type"

#define	AWAR_DIFF_NAME APREFIX_DIFF_TEMP "name"

#define	AWAR_NODIFF_INDICATOR APREFIX_DIFF_SAVE "indicator"

#define	AWAR_DIFF_MINDCASE APREFIX_DIFF_SAVE "mindcase"

#define	AWAR_DIFF_MINDGAPTYPE APREFIX_DIFF_SAVE "mindgaptype"

#define	AWAR_DIFF_GAPTYPES APREFIX_DIFF_SAVE "gaptypes"

Enumerations
enum	ViewDiffType { VD_DISABLED, VD_SELECTED, VD_FOLLOW }

Functions
static const char *	default_characters (int elem)

static const char *	default_color (int cset, int elem)

static void	color_awar_changed_cb (AW_root , ED4_seq_colors sc)

static void	create_seq_color_awars (AW_root awr, ED4_seq_colors sc)

AW_window *	ED4_create_seq_colors_window (AW_root awr, ED4_seq_colors sc)

	STATIC_ASSERT ((ED4_G_SEQUENCES+1)==ED4_G_HELIX)

	STATIC_ASSERT ((ED4_G_HELIX+1)==ED4_G_COLOR_2)

static void	refdata_changed_cb (ED4_species_manager sman, ED4_reference ref)

static void	refdata_deleted_cb ()

static ED4_terminal *	detect_current_ref_terminal ()

static void	set_diff_reference (ED4_terminal *refTerm)

static void	set_current_as_diffRef (bool enable)

static void	change_reference_cb (AW_window *aww)

static void	diff_type_changed_cb (AW_root *awr)

static void	update_reference_settings (AW_root *awr)

static void	diff_setting_changed_cb (AW_root *awr)

static void	nodiff_indicator_changed_cb (AW_root *awr)

static void	create_viewDifferences_awars (AW_root *awr)

void	ED4_toggle_viewDifferences (AW_root *awr)

void	ED4_viewDifferences_setNewReference ()

void	ED4_viewDifferences_announceTerminalChange ()

void	ED4_viewDifferences_disable ()

AW_window *	ED4_create_viewDifferences_window (AW_root *awr)

Variables
static int	default_NUC_set = 0

static int	default_AMI_set = 3

static const char *	default_sets [SEQ_COLOR_SETS]

static bool	seq_color_awars_created = false

static SmartCharPtr	last_used_ref_term_name

static bool	viewDifferences_awars_initialized = false

Macro Definition Documentation

#define SEQ_COLOR_SETS 8

Definition at line 28 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define SEQ_COLOR_SET_ELEMS 28

Definition at line 29 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define AWAR_SEQ_PATH "awt/seq_colors/"

Definition at line 31 of file ED4_seq_colors.cxx.

#define AWAR_SEQ_NAME_STRINGS_TEMPLATE AWAR_SEQ_PATH "strings/elem_%i"

Definition at line 32 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define AWAR_SEQ_NAME_TEMPLATE AWAR_SEQ_PATH "set_%i/elem_%i"

Definition at line 33 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define AWAR_SEQ_NAME_SELECTOR_NA AWAR_SEQ_PATH "na/select"

Definition at line 34 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define AWAR_SEQ_NAME_SELECTOR_AA AWAR_SEQ_PATH "aa/select"

Definition at line 35 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

#define APREFIX_DIFF_SAVE "edit4/diff/"

Definition at line 362 of file ED4_seq_colors.cxx.

#define APREFIX_DIFF_TEMP "tmp/" APREFIX_DIFF_SAVE

Definition at line 363 of file ED4_seq_colors.cxx.

#define AWAR_DIFF_TYPE APREFIX_DIFF_TEMP "type"

Definition at line 365 of file ED4_seq_colors.cxx.

Referenced by change_reference_cb(), create_viewDifferences_awars(), diff_type_changed_cb(), ED4_create_viewDifferences_window(), ED4_toggle_viewDifferences(), and ED4_viewDifferences_announceTerminalChange().

#define AWAR_DIFF_NAME APREFIX_DIFF_TEMP "name"

Definition at line 366 of file ED4_seq_colors.cxx.

Referenced by create_viewDifferences_awars(), ED4_create_viewDifferences_window(), and set_diff_reference().

#define AWAR_NODIFF_INDICATOR APREFIX_DIFF_SAVE "indicator"

Definition at line 367 of file ED4_seq_colors.cxx.

Referenced by create_viewDifferences_awars(), ED4_create_viewDifferences_window(), nodiff_indicator_changed_cb(), and update_reference_settings().

#define AWAR_DIFF_MINDCASE APREFIX_DIFF_SAVE "mindcase"

Definition at line 368 of file ED4_seq_colors.cxx.

Referenced by create_viewDifferences_awars(), ED4_create_viewDifferences_window(), and update_reference_settings().

#define AWAR_DIFF_MINDGAPTYPE APREFIX_DIFF_SAVE "mindgaptype"

Definition at line 369 of file ED4_seq_colors.cxx.

Referenced by create_viewDifferences_awars(), ED4_create_viewDifferences_window(), and update_reference_settings().

#define AWAR_DIFF_GAPTYPES APREFIX_DIFF_SAVE "gaptypes"

Definition at line 370 of file ED4_seq_colors.cxx.

Referenced by create_viewDifferences_awars(), ED4_create_viewDifferences_window(), and update_reference_settings().

Enumeration Type Documentation

enum ViewDiffType

Enumerator
VD_DISABLED
VD_SELECTED
VD_FOLLOW

Definition at line 372 of file ED4_seq_colors.cxx.

Function Documentation

static const char* default_characters ( int elem )

static

Definition at line 54 of file ED4_seq_colors.cxx.

References result.

Referenced by create_seq_color_awars().

static const char* default_color	(	int	cset,
		int	elem
	)

static

Definition at line 72 of file ED4_seq_colors.cxx.

References result.

Referenced by AW_gc_manager::add_gc(), create_seq_color_awars(), and gc_desc::parse_decl().

static void color_awar_changed_cb	(	AW_root *	,
		ED4_seq_colors *	sc
	)

static

Definition at line 85 of file ED4_seq_colors.cxx.

References ED4_seq_colors::reload().

Referenced by create_seq_color_awars().

static void create_seq_color_awars	(	AW_root *	awr,
		ED4_seq_colors *	sc
	)

static

AW_window* ED4_create_seq_colors_window	(	AW_root *	awr,
		ED4_seq_colors *	sc
	)

Definition at line 118 of file ED4_seq_colors.cxx.

References AW_HORIZONTAL, AW_POPDOWN(), AWAR_SEQ_NAME_SELECTOR_AA, AWAR_SEQ_NAME_SELECTOR_NA, AWAR_SEQ_NAME_STRINGS_TEMPLATE, AWAR_SEQ_NAME_TEMPLATE, create_seq_color_awars(), makeHelpCallback(), NULp, seq_color_awars_created, SEQ_COLOR_SET_ELEMS, and SEQ_COLOR_SETS.

Referenced by ED4_CreateProteinViewer_window(), and ED4_root::generate_window().

STATIC_ASSERT ( (ED4_G_SEQUENCES+1) = =ED4_G_HELIX )

STATIC_ASSERT ( (ED4_G_HELIX+1) = =ED4_G_COLOR_2 )

static void refdata_changed_cb	(	ED4_species_manager *	sman,
		ED4_reference *	ref
	)

static

Definition at line 324 of file ED4_seq_colors.cxx.

References ED4_reference::data_changed_cb(), ED4_ROOT, LEV_SEQUENCE_STRING, and ED4_root::request_refresh_for_specific_terminals().

Referenced by ED4_reference::clear(), and ED4_reference::define().

static void refdata_deleted_cb ( )

static

Definition at line 328 of file ED4_seq_colors.cxx.

References ED4_viewDifferences_disable().

Referenced by ED4_reference::clear(), and ED4_reference::define().

static ED4_terminal* detect_current_ref_terminal ( )

static

Definition at line 378 of file ED4_seq_colors.cxx.

References aw_message(), current_cursor(), ED4_window::cursor, ED4_base::is_consensus_terminal(), ED4_base::is_SAI_terminal(), ED4_base::is_species_seq_terminal(), NULp, and ED4_cursor::owner_of_cursor.

Referenced by set_current_as_diffRef().

static void set_diff_reference ( ED4_terminal * refTerm )

static

static void set_current_as_diffRef ( bool enable )

static

Definition at line 428 of file ED4_seq_colors.cxx.

References ARB_strdup(), detect_current_ref_terminal(), ED4_base::id, NULp, and set_diff_reference().

Referenced by change_reference_cb(), diff_type_changed_cb(), ED4_viewDifferences_disable(), and ED4_viewDifferences_setNewReference().

static void change_reference_cb ( AW_window * aww )

static

Definition at line 438 of file ED4_seq_colors.cxx.

References AW_root::awar(), AWAR_DIFF_TYPE, AW_window::get_root(), AW_awar::read_int(), set_current_as_diffRef(), VD_DISABLED, VD_SELECTED, and AW_awar::write_int().

Referenced by ED4_create_viewDifferences_window().

static void diff_type_changed_cb ( AW_root * awr )

static

Definition at line 447 of file ED4_seq_colors.cxx.

References AW_root::awar(), AWAR_DIFF_TYPE, ED4_ROOT, ED4_reference::is_set(), ED4_base::is_terminal(), ED4_root::main_manager, NULp, AW_awar::read_int(), ED4_root::reference, set_current_as_diffRef(), set_diff_reference(), type, VD_DISABLED, VD_FOLLOW, VD_SELECTED, and AW_awar::write_int().

Referenced by create_viewDifferences_awars().

static void update_reference_settings ( AW_root * awr )

static

Definition at line 480 of file ED4_seq_colors.cxx.

References AW_root::awar(), AWAR_DIFF_GAPTYPES, AWAR_DIFF_MINDCASE, AWAR_DIFF_MINDGAPTYPE, AWAR_NODIFF_INDICATOR, ED4_ROOT, AW_awar::read_char_pntr(), AW_awar::read_int(), ED4_root::reference, ED4_reference::set_case_sensitive(), ED4_reference::set_gap_handling(), and ED4_reference::set_nodiff_indicator().

Referenced by diff_setting_changed_cb(), and ED4_toggle_viewDifferences().

static void diff_setting_changed_cb ( AW_root * awr )

static

Definition at line 486 of file ED4_seq_colors.cxx.

References ED4_ROOT, LEV_SEQUENCE_STRING, ED4_root::request_refresh_for_specific_terminals(), and update_reference_settings().

Referenced by create_viewDifferences_awars(), and nodiff_indicator_changed_cb().

static void nodiff_indicator_changed_cb ( AW_root * awr )

static

Definition at line 491 of file ED4_seq_colors.cxx.

References AW_root::awar(), AWAR_NODIFF_INDICATOR, diff_setting_changed_cb(), AW_awar::read_char_pntr(), and AW_awar::write_string().

Referenced by create_viewDifferences_awars().

static void create_viewDifferences_awars ( AW_root * awr )

static

Definition at line 505 of file ED4_seq_colors.cxx.

References AW_awar::add_callback(), GAP::anyGapChars(), AWAR_DIFF_GAPTYPES, AWAR_DIFF_MINDCASE, AWAR_DIFF_MINDGAPTYPE, AWAR_DIFF_NAME, AWAR_DIFF_TYPE, AW_root::awar_int(), AWAR_NODIFF_INDICATOR, AW_root::awar_string(), diff_setting_changed_cb(), diff_type_changed_cb(), nodiff_indicator_changed_cb(), AW_awar::set_srt(), and VD_DISABLED.

Referenced by ED4_toggle_viewDifferences().

void ED4_toggle_viewDifferences ( AW_root * awr )

Definition at line 518 of file ED4_seq_colors.cxx.

References AW_root::awar(), AWAR_DIFF_TYPE, create_viewDifferences_awars(), ED4_ROOT, ED4_reference::is_set(), AW_awar::read_int(), ED4_root::reference, AW_awar::rewrite_int(), update_reference_settings(), VD_DISABLED, and VD_SELECTED.

Referenced by ED4_create_viewDifferences_window().

void ED4_viewDifferences_setNewReference ( )

Definition at line 537 of file ED4_seq_colors.cxx.

References set_current_as_diffRef().

Referenced by ED4_viewDifferences_announceTerminalChange().

void ED4_viewDifferences_announceTerminalChange ( )

Definition at line 540 of file ED4_seq_colors.cxx.

References ED4_root::aw_root, AW_root::awar(), AWAR_DIFF_TYPE, ED4_ROOT, ED4_viewDifferences_setNewReference(), ED4_reference::is_set(), AW_awar::read_int(), ED4_root::reference, and VD_FOLLOW.

void ED4_viewDifferences_disable ( )

Definition at line 547 of file ED4_seq_colors.cxx.

References set_current_as_diffRef().

Referenced by refdata_deleted_cb(), and ED4_root::remove_all_callbacks().

AW_window* ED4_create_viewDifferences_window ( AW_root * awr )

Definition at line 551 of file ED4_seq_colors.cxx.

References AW_POPDOWN(), AWAR_DIFF_GAPTYPES, AWAR_DIFF_MINDCASE, AWAR_DIFF_MINDGAPTYPE, AWAR_DIFF_NAME, AWAR_DIFF_TYPE, AWAR_NODIFF_INDICATOR, change_reference_cb(), ED4_ROOT, ED4_toggle_viewDifferences(), ED4_reference::is_set(), makeHelpCallback(), NULp, ED4_root::reference, VD_DISABLED, VD_FOLLOW, and VD_SELECTED.

Referenced by ED4_root::generate_window().

Variable Documentation

int default_NUC_set = 0

static

Definition at line 25 of file ED4_seq_colors.cxx.

int default_AMI_set = 3

static

Definition at line 26 of file ED4_seq_colors.cxx.

Referenced by ED4_seq_colors::reload().

const char* default_sets[SEQ_COLOR_SETS]

static

Initial value:

= {
    
    "=2=0=3=0=0=0=4=0=0=0=0=0=0=6=0=0=0=0=0=5=5=0=0=0=0=0=0=6", 
    "R2=0Y3=0=0=0R2=0=0=0=0=0=0=0=0=0=0=2=0Y3Y3=0=0=0=3=0=0=6", 
    "=6=5=6=5=7=7=6=5=7=7=3=7=3=9=7=7=7=3=3=6=6=5=3=7=3=7=7=6", 
    "=7=0=7=8=2=9=8=9=3=0=2=3=7=8=0=8=2=2=2=2=0=3=9=6=9=0=0=6", 
    "=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=6",
    "o9=0|2=0=0=0o5=0=0=0=0=0=0=0=0=0=0=0=0|8|8=0=0=0=0=0=0=6", 
    "=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=6",
    "=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=0=6",
}

Definition at line 37 of file ED4_seq_colors.cxx.

bool seq_color_awars_created = false

static

Definition at line 50 of file ED4_seq_colors.cxx.

Referenced by create_seq_color_awars(), ED4_create_seq_colors_window(), and ED4_seq_colors::reload().

SmartCharPtr last_used_ref_term_name

static

Definition at line 426 of file ED4_seq_colors.cxx.

bool viewDifferences_awars_initialized = false

static

Definition at line 503 of file ED4_seq_colors.cxx.

Macros

Enumerations

Functions

Variables

Macro Definition Documentation

Enumeration Type Documentation

Function Documentation

Variable Documentation