MG_species.cxx File Reference

#include "merge.hxx"
#include "MG_adapt_ali.hxx"
#include <AW_rename.hxx>
#include <db_query.h>
#include <db_scanner.hxx>
#include <item_sel_list.h>
#include <xfergui.h>
#include <xferset.h>
#include <aw_awars.hxx>
#include <aw_msg.hxx>
#include <arb_progress.h>
#include <aw_root.hxx>
#include <aw_question.hxx>
#include <arb_str.h>
#include <arb_strbuf.h>
#include <arb_global_defs.h>

Include dependency graph for MG_species.cxx:

Go to the source code of this file.

Classes
class	ScopedTransporter
class	AdaptedAlignmentTransporter
struct	DontTransportAlignment
class	ViaFtsTransporter
struct	MergeFieldScanner

Macros
#define	AWAR_SPECIES_SRC   AWAR_MERGE_TMP_SRC "name"
#define	AWAR_FIELD_SRC   AWAR_MERGE_TMP_SRC "field"
#define	AWAR_TAG_SRC   AWAR_MERGE_TMP_SRC "tag"
#define	AWAR_SPECIES_DST   AWAR_MERGE_TMP_DST "name"
#define	AWAR_FIELD_DST   AWAR_MERGE_TMP_DST "field"
#define	AWAR_TAG_DST   AWAR_MERGE_TMP_DST "tag"
#define	AWAR_TAG_DEL   AWAR_MERGE_TMP "tagdel"
#define	AWAR_APPEND   AWAR_MERGE_TMP "append"
#define	AWAR_SPECIES_XFER_TYPE   AWAR_MERGE_SAV "xferType"
#define	AWAR_SPECIES_XFER_SCOPE   AWAR_MERGE_SAV "xferScope"
#define	AWAR_SPECIES_XFER_FTS   AWAR_MERGE_SAV "fts"

Typedefs
typedef SmartPtr< MG_remaps >	MG_remapsPtr

Enumerations
enum	SpeciesXferType { SXT_WHOLE_SPECIES, SXT_SINGLE_FIELD, SXT_USING_FTS, SXT_USING_FTS_SKIP_ALI }
enum	SpeciesXferScope { SXS_SELECTED_SPECIES, SXS_LISTED_SPECIES }

Functions
const char *	MG_left_AWAR_SPECIES_NAME ()
void	MG_create_species_awars (AW_root *aw_root, AW_default aw_def)
static void	MG_map_species (AW_root *aw_root, DbSel db)
static GB_ERROR	MG_transfer_fields_info (char *fieldname=NULp)
static GB_ERROR	MG_transfer_one_species (AW_root *aw_root, MG_remaps &remap, GBDATA *gb_src_species, GBDATA *gb_dst_species_data, bool src_is_genome, bool dst_is_genome, GB_HASH *source_organism_hash, GB_HASH *dest_species_hash, GB_HASH *error_suppressor)
static const char *	get_reference_species_names (AW_root *awr)
static bool	adaption_enabled (AW_root *awr)
static void	mg_transfer_selected_species (AW_window *aww)
static void	mg_transfer_listed_species (AW_window *aww)
static GB_ERROR	transfer_single_field (GBDATA *const gb_src_species, GBDATA *const gb_dst_species, const char *const field, GBDATA *const gb_src_field, const bool append, const bool transfer_of_alignment, const MG_remaps &rm)
bool	fieldContainsAlignment (const char *field)
static void	transfer_field_of_listed_cb (AW_window *aww)
static void	transfer_field_of_selected_cb (AW_window *aww)
static void	popup_single_field_transfer_window (AW_root *aw_root, SpeciesXferScope scope)
static void	MG_merge_tagged_field_cb (AW_window *aww)
static AW_window *	create_mg_merge_tagged_fields_window (AW_root *aw_root)
static GB_ERROR	MG_equal_alignments (bool autoselect_equal_alignment_name)
GB_ERROR	MERGE_sequences_simple (AW_root *awr)
static void	mg_select_species1 (GBDATA *, AW_root *aw_root, const char *item_name)
static void	mg_select_species2 (GBDATA *, AW_root *aw_root, const char *item_name)
static GBDATA *	mg_get_first_species_data1 (GBDATA *, AW_root *, QUERY_RANGE)
static GBDATA *	mg_get_first_species_data2 (GBDATA *, AW_root *, QUERY_RANGE)
static GBDATA *	mg_get_selected_species1 (GBDATA *, AW_root *aw_root)
static GBDATA *	mg_get_selected_species2 (GBDATA *, AW_root *aw_root)
static void	mg_initialize_species_selectors ()
static void	mg_xfer_via_fts (AW_root *aw_root, SpeciesXferScope scope, bool xfer_seq_data)
static void	MG_transfer_species (AW_window *aww)
AW_window *	MG_create_merge_species_window (AW_root *awr, bool dst_is_new)

Variables
static DbScanner *	scanner_src = NULp
static DbScanner *	scanner_dst = NULp
static MutableItemSelector	MG_species_selector [2]
static MergeFieldScanner	fieldScanner

Macro Definition Documentation

#define AWAR_SPECIES_SRC   AWAR_MERGE_TMP_SRC "name"

Definition at line 33 of file MG_species.cxx.

Referenced by MG_create_merge_species_window(), MG_create_species_awars(), mg_get_selected_species1(), MG_left_AWAR_SPECIES_NAME(), MG_map_species(), mg_select_species1(), mg_transfer_selected_species(), transfer_field_of_selected_cb(), and ScopedTransporter::transferAllIn().

#define AWAR_FIELD_SRC   AWAR_MERGE_TMP_SRC "field"

Definition at line 34 of file MG_species.cxx.

Referenced by create_mg_merge_tagged_fields_window(), MG_create_species_awars(), MG_merge_tagged_field_cb(), popup_single_field_transfer_window(), transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

#define AWAR_TAG_SRC   AWAR_MERGE_TMP_SRC "tag"

Definition at line 35 of file MG_species.cxx.

Referenced by create_mg_merge_tagged_fields_window(), and MG_merge_tagged_field_cb().

#define AWAR_SPECIES_DST   AWAR_MERGE_TMP_DST "name"

Definition at line 37 of file MG_species.cxx.

Referenced by MG_create_merge_species_window(), MG_create_species_awars(), mg_get_selected_species2(), MG_map_species(), mg_select_species2(), transfer_field_of_selected_cb(), and ScopedTransporter::transferAllIn().

#define AWAR_FIELD_DST   AWAR_MERGE_TMP_DST "field"

Definition at line 38 of file MG_species.cxx.

Referenced by create_mg_merge_tagged_fields_window(), MG_create_species_awars(), and MG_merge_tagged_field_cb().

#define AWAR_TAG_DST   AWAR_MERGE_TMP_DST "tag"

Definition at line 39 of file MG_species.cxx.

Referenced by create_mg_merge_tagged_fields_window(), and MG_merge_tagged_field_cb().

#define AWAR_TAG_DEL   AWAR_MERGE_TMP "tagdel"

Definition at line 41 of file MG_species.cxx.

Referenced by create_mg_merge_tagged_fields_window(), and MG_merge_tagged_field_cb().

#define AWAR_APPEND   AWAR_MERGE_TMP "append"

Definition at line 42 of file MG_species.cxx.

Referenced by MG_create_species_awars(), popup_single_field_transfer_window(), and transfer_field_of_listed_cb().

#define AWAR_SPECIES_XFER_TYPE   AWAR_MERGE_SAV "xferType"

Definition at line 44 of file MG_species.cxx.

Referenced by MG_create_merge_species_window(), MG_create_species_awars(), and MG_transfer_species().

#define AWAR_SPECIES_XFER_SCOPE   AWAR_MERGE_SAV "xferScope"

Definition at line 45 of file MG_species.cxx.

Referenced by MG_create_merge_species_window(), MG_create_species_awars(), and MG_transfer_species().

#define AWAR_SPECIES_XFER_FTS   AWAR_MERGE_SAV "fts"

Definition at line 46 of file MG_species.cxx.

Referenced by MG_create_merge_species_window(), MG_create_species_awars(), and mg_xfer_via_fts().

Typedef Documentation

typedef SmartPtr<MG_remaps> MG_remapsPtr

Definition at line 1050 of file MG_species.cxx.

Enumeration Type Documentation

enum SpeciesXferType

Enumerator
SXT_WHOLE_SPECIES
SXT_SINGLE_FIELD
SXT_USING_FTS
SXT_USING_FTS_SKIP_ALI

Definition at line 51 of file MG_species.cxx.

enum SpeciesXferScope

Enumerator
SXS_SELECTED_SPECIES
SXS_LISTED_SPECIES

Definition at line 58 of file MG_species.cxx.

Function Documentation

const char* MG_left_AWAR_SPECIES_NAME

(

)

Definition at line 63 of file MG_species.cxx.

References AWAR_SPECIES_SRC.

Referenced by MG_gene_species_create_field_transfer_def_window(), and MG_update_example().

void MG_create_species_awars	(	AW_root *	aw_root,
		AW_default	aw_def
	)

Definition at line 65 of file MG_species.cxx.

References AWAR_APPEND, AWAR_FIELD_DST, AWAR_FIELD_SRC, AW_root::awar_int(), AWAR_SPECIES_DST, AWAR_SPECIES_SRC, AWAR_SPECIES_XFER_FTS, AWAR_SPECIES_XFER_SCOPE, AWAR_SPECIES_XFER_TYPE, AW_root::awar_string(), NO_FIELD_SELECTED, SXS_LISTED_SPECIES, and SXT_WHOLE_SPECIES.

Referenced by MERGE_create_all_awars().

static void MG_map_species ( AW_root *  aw_root, DbSel  db  )

static

Definition at line 80 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_DST, AWAR_SPECIES_SRC, gb_main, GBT_find_species(), get_gb_main(), DbScanner::Map(), AW_awar::read_string(), scanner_dst, SRC_DB, and ta.

Referenced by MG_create_merge_species_window().

static GB_ERROR MG_transfer_fields_info ( char *  fieldname = NULp )

static

Definition at line 95 of file MG_species.cxx.

References CHANGE_KEY_PATH, CHANGEKEY, CHANGEKEY_NAME, CHANGEKEY_TYPE, error(), GB_await_error(), GB_CREATE_CONTAINER, GB_entry(), GB_nextEntry(), GB_read_int(), GB_read_string(), GB_search(), GBT_add_new_species_changekey(), GLOBAL_gb_dst, GLOBAL_gb_src, and NULp.

Referenced by MERGE_sequences_simple(), mg_transfer_listed_species(), mg_transfer_selected_species(), transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

static GB_ERROR MG_transfer_one_species ( AW_root *  aw_root, MG_remaps &  remap, GBDATA *  gb_src_species, GBDATA *  gb_dst_species_data, bool  src_is_genome, bool  dst_is_genome, GB_HASH *  source_organism_hash, GB_HASH *  dest_species_hash, GB_HASH *  error_suppressor  )

static

Definition at line 125 of file MG_species.cxx.

References error(), GB_await_error(), GB_copy_dropProtectMarksAndTempstate(), GB_create_container(), GB_delete(), GB_write_flag(), GBS_global_string(), GBS_read_hash(), GBS_write_hash(), GBT_find_species_rel_species_data(), GBT_get_name(), GEN_find_organism(), GEN_is_pseudo_gene_species(), GEN_origin_organism(), GLOBAL_gb_dst, MG_adaptAllCopiedAlignments(), mg_assert, MG_export_fields(), and NULp.

Referenced by mg_transfer_listed_species(), and mg_transfer_selected_species().

static const char* get_reference_species_names ( AW_root *  awr )

static

Definition at line 202 of file MG_species.cxx.

References AW_root::awar(), AWAR_REMAP_SPECIES_LIST, and AW_awar::read_char_pntr().

Referenced by mg_transfer_listed_species(), mg_transfer_selected_species(), mg_xfer_via_fts(), transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

static bool adaption_enabled ( AW_root *  awr )

static

Definition at line 205 of file MG_species.cxx.

References AW_root::awar(), AWAR_REMAP_ENABLE, and AW_awar::read_int().

Referenced by mg_transfer_listed_species(), mg_transfer_selected_species(), mg_xfer_via_fts(), transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

static void mg_transfer_selected_species ( AW_window *  aww )

static

Definition at line 209 of file MG_species.cxx.

References adaption_enabled(), aw_message(), AW_root::awar(), AWAR_SPECIES_SRC, error(), GB_begin_transaction(), GB_end_transaction(), GBS_global_string(), GBT_find_species_rel_species_data(), GBT_get_species_data(), GEN_is_genome_db(), get_reference_species_names(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, MG_copy_and_check_alignments(), MG_transfer_fields_info(), MG_transfer_one_species(), NULp, and AW_awar::read_string().

Referenced by MG_transfer_species().

static void mg_transfer_listed_species ( AW_window *  aww )

static

Definition at line 256 of file MG_species.cxx.

References adaption_enabled(), aw_message(), error(), GB_begin_transaction(), GB_end_transaction(), GB_end_transaction_show_error(), GB_IGNORE_CASE, GBS_create_hash(), GBS_free_hash(), GBT_create_organism_hash(), GBT_create_species_hash(), GBT_first_species(), GBT_get_species_data(), GBT_next_species(), GEN_is_genome_db(), get_reference_species_names(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, arb_progress::inc_and_check_user_abort(), IS_QUERIED_SPECIES, MG_copy_and_check_alignments(), mg_count_queried(), MG_transfer_fields_info(), MG_transfer_one_species(), and NULp.

Referenced by MG_transfer_species().

static GB_ERROR transfer_single_field ( GBDATA *const  gb_src_species, GBDATA *const  gb_dst_species, const char *const  field, GBDATA *const  gb_src_field, const bool  append, const bool  transfer_of_alignment, const MG_remaps &  rm  )

static

Definition at line 303 of file MG_species.cxx.

References error(), GB_await_error(), GB_copy_dropProtectMarksAndTempstate(), GB_DB, GB_delete(), GB_FIND, GB_read_string(), GB_read_type(), GB_search(), GB_STRING, GB_write_flag(), GB_write_string(), GBS_find_string(), GBS_global_string(), MG_adaptAllCopiedAlignments(), and NULp.

Referenced by transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

bool fieldContainsAlignment ( const char *  field )

inline

Definition at line 353 of file MG_species.cxx.

References GB_MIND_CASE, and GBS_string_matches().

Referenced by transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

static void transfer_field_of_listed_cb ( AW_window *  aww )

static

Definition at line 357 of file MG_species.cxx.

References adaption_enabled(), aw_message(), AW_root::awar(), AWAR_APPEND, AWAR_FIELD_SRC, error(), fieldContainsAlignment(), GB_await_error(), GB_begin_transaction(), GB_create_container(), GB_end_transaction(), GB_FIND, GB_find_string(), GB_get_father(), GB_IGNORE_CASE, GB_search(), GBS_global_string(), GBT_first_species(), GBT_get_name(), GBT_get_species_data(), GBT_next_species(), GBT_write_string(), get_reference_species_names(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, arb_progress::inc_and_check_user_abort(), IS_QUERIED_SPECIES, MG_copy_and_check_alignments(), mg_count_queried(), MG_transfer_fields_info(), NO_FIELD_SELECTED, NULp, AW_awar::read_int(), AW_awar::read_string(), SEARCH_GRANDCHILD, and transfer_single_field().

Referenced by popup_single_field_transfer_window().

static void transfer_field_of_selected_cb ( AW_window *  aww )

static

Definition at line 438 of file MG_species.cxx.

References adaption_enabled(), aw_message(), AW_root::awar(), AWAR_FIELD_SRC, AWAR_SPECIES_DST, AWAR_SPECIES_SRC, error(), fieldContainsAlignment(), GB_begin_transaction(), GB_end_transaction(), GB_FIND, GB_search(), GBS_global_string(), GBT_find_species(), get_reference_species_names(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, MG_copy_and_check_alignments(), MG_transfer_fields_info(), NO_FIELD_SELECTED, NULp, AW_awar::read_string(), and transfer_single_field().

Referenced by popup_single_field_transfer_window().

static void popup_single_field_transfer_window ( AW_root *  aw_root, SpeciesXferScope  scope  )

static

Definition at line 506 of file MG_species.cxx.

References AW_window::activate(), AW_POPDOWN(), AWAR_APPEND, AWAR_FIELD_SRC, create_itemfield_selection_button(), FIELD_FILTER_ANY_FIELD, FIELD_UNFILTERED, GLOBAL_gb_src, implicated, makeHelpCallback(), mg_assert, NULp, SPECIES_get_selector(), SXS_LISTED_SPECIES, SXS_SELECTED_SPECIES, ta, transfer_field_of_listed_cb(), and transfer_field_of_selected_cb().

Referenced by MG_transfer_species().

static void MG_merge_tagged_field_cb ( AW_window *  aww )

static

Definition at line 548 of file MG_species.cxx.

References aw_message(), AW_root::awar(), AWAR_FIELD_DST, AWAR_FIELD_SRC, AWAR_TAG_DEL, AWAR_TAG_DST, AWAR_TAG_SRC, arb_progress::done(), error(), GB_await_error(), GB_begin_transaction(), GB_end_transaction_show_error(), GBS_merge_tagged_strings(), GBT_find_or_create_species_rel_species_data(), GBT_first_species(), GBT_get_species_data(), GBT_next_species(), GBT_read_string(), GBT_readOrCreate_string(), GBT_write_string(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, arb_progress::inc_and_check_user_abort(), IS_QUERIED_SPECIES, mg_count_queried(), NO_FIELD_SELECTED, and AW_awar::read_string().

Referenced by create_mg_merge_tagged_fields_window().

static AW_window* create_mg_merge_tagged_fields_window ( AW_root *  aw_root )

static

Definition at line 619 of file MG_species.cxx.

References AW_POPDOWN(), AWAR_FIELD_DST, AWAR_FIELD_SRC, AW_root::awar_string(), AWAR_TAG_DEL, AWAR_TAG_DST, AWAR_TAG_SRC, create_itemfield_selection_button(), FIELD_FILTER_STRING, GLOBAL_gb_dst, GLOBAL_gb_src, makeHelpCallback(), MG_merge_tagged_field_cb(), NULp, SPECIES_get_selector(), and ta.

Referenced by MG_create_merge_species_window().

static GB_ERROR MG_equal_alignments ( bool  autoselect_equal_alignment_name )

static

Make the alignment names equal

Definition at line 658 of file MG_species.cxx.

References ARB_stricmp(), aw_question(), GBS_strstruct::cat(), error(), GB_export_error(), GB_export_errorf(), GBS_global_string(), GBT_add_alignment_changekeys(), GBT_get_alignment_names(), GBT_get_alignment_type_string(), GBT_rename_alignment(), GBS_strstruct::get_data(), GLOBAL_gb_dst, GLOBAL_gb_src, NULp, GBS_strstruct::put(), CharPtrArray::remove(), and CharPtrArray::size().

Referenced by MERGE_sequences_simple().

GB_ERROR MERGE_sequences_simple

(

AW_root *

awr

)

Merge the sequences of two databases

Definition at line 738 of file MG_species.cxx.

References ARB_strdup(), aw_input(), aw_message_if(), aw_question(), AW_root::awar(), AWAR_SPECIES_NAME, AWTC_create_numbered_suffix(), GB_transaction::close(), error(), FALLTHROUGH, GB_await_error(), GB_copy_dropMarksAndTempstate(), GB_create_container(), GB_delete(), GB_entry(), GB_nextEntry(), GB_number_of_subentries(), GB_raise_user_flag(), GB_read_string(), GB_search(), GB_STRING, GB_USERFLAG_QUERY, GB_write_flag(), GBS_free_hash(), GBS_global_string(), GBS_read_hash(), GBS_write_hash(), GBT_create_species_hash_sized(), GBT_get_species_data(), GBT_write_string(), GLOBAL_gb_dst, GLOBAL_gb_src, mg_assert, MG_equal_alignments(), MG_transfer_fields_info(), NULp, warning(), and AW_awar::write_string().

Referenced by nt_seq_load_cb().

static void mg_select_species1 ( GBDATA *  , AW_root *  aw_root, const char *  item_name  )

static

Definition at line 871 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_SRC, and AW_awar::write_string().

Referenced by mg_initialize_species_selectors().

static void mg_select_species2 ( GBDATA *  , AW_root *  aw_root, const char *  item_name  )

static

Definition at line 874 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_DST, and AW_awar::write_string().

Referenced by mg_initialize_species_selectors().

static GBDATA* mg_get_first_species_data1 ( GBDATA *  , AW_root *  , QUERY_RANGE    )

static

Definition at line 878 of file MG_species.cxx.

References GBT_get_species_data(), and GLOBAL_gb_src.

Referenced by mg_initialize_species_selectors().

static GBDATA* mg_get_first_species_data2 ( GBDATA *  , AW_root *  , QUERY_RANGE    )

static

Definition at line 881 of file MG_species.cxx.

References GBT_get_species_data(), and GLOBAL_gb_dst.

Referenced by mg_initialize_species_selectors().

static GBDATA* mg_get_selected_species1 ( GBDATA *  , AW_root *  aw_root  )

static

Definition at line 885 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_SRC, GBT_find_species(), GLOBAL_gb_src, NULp, AW_awar::read_char_pntr(), and ta.

Referenced by mg_initialize_species_selectors().

static GBDATA* mg_get_selected_species2 ( GBDATA *  , AW_root *  aw_root  )

static

Definition at line 890 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_DST, GBT_find_species(), GLOBAL_gb_dst, NULp, AW_awar::read_char_pntr(), and ta.

Referenced by mg_initialize_species_selectors().

static void mg_initialize_species_selectors ( )

static

Definition at line 898 of file MG_species.cxx.

References MutableItemSelector::get_first_item_container, MutableItemSelector::get_selected_item, initialized, mg_get_first_species_data1(), mg_get_first_species_data2(), mg_get_selected_species1(), mg_get_selected_species2(), mg_select_species1(), mg_select_species2(), s, SPECIES_get_selector(), and MutableItemSelector::update_item_awars.

Referenced by MG_create_merge_species_window().

static void mg_xfer_via_fts ( AW_root *  aw_root, SpeciesXferScope  scope, bool  xfer_seq_data  )

static

Definition at line 1109 of file MG_species.cxx.

References adaption_enabled(), aw_message_if(), AW_root::awar(), AWAR_SPECIES_XFER_FTS, ARB_ERROR::deliver(), error(), get_reference_species_names(), ErrorOr< TYPE >::getError(), ErrorOr< TYPE >::getValue(), GLOBAL_gb_dst, GLOBAL_gb_src, ErrorOr< TYPE >::hasError(), FieldTransfer::RuleSet::loadFrom(), MG_copy_and_check_alignments(), NULp, AW_awar::read_char_pntr(), ScopedTransporter::transferAllIn(), and XFER_getFullFTS().

Referenced by MG_transfer_species().

static void MG_transfer_species ( AW_window *  aww )

static

Definition at line 1161 of file MG_species.cxx.

References AW_root::awar(), AWAR_SPECIES_XFER_SCOPE, AWAR_SPECIES_XFER_TYPE, AW_window::get_root(), mg_transfer_listed_species(), mg_transfer_selected_species(), mg_xfer_via_fts(), popup_single_field_transfer_window(), AW_awar::read_int(), SXS_LISTED_SPECIES, SXS_SELECTED_SPECIES, SXT_SINGLE_FIELD, SXT_USING_FTS, SXT_USING_FTS_SKIP_ALI, SXT_WHOLE_SPECIES, and type.

Referenced by MG_create_merge_species_window().

AW_window* MG_create_merge_species_window	(	AW_root *	awr,
		bool	dst_is_new
	)

Definition at line 1188 of file MG_species.cxx.

References AW_awar::add_callback(), AW_window::at(), aw_message(), AW_POPDOWN(), AW_root::awar(), AW_root::awar_int(), AWAR_REMAP_ENABLE, AWAR_REMAP_SPECIES_LIST, AWAR_SPECIES_DST, AWAR_SPECIES_SRC, AWAR_SPECIES_XFER_FTS, AWAR_SPECIES_XFER_SCOPE, AWAR_SPECIES_XFER_TYPE, AW_root::awar_string(), AWM_ALL, AWM_DISABLED, AW_window::button_length(), QUERY::query_spec::by_pos_fig, AW_window::callback(), QUERY::query_spec::config_pos_fig, QUERY::query_spec::count_pos_fig, DbScanner::create(), AW_window::create_autosize_button(), AW_window::create_button(), AW_window::create_menu(), create_mg_check_fields_window(), create_mg_merge_tagged_fields_window(), AW_window::create_option_menu(), QUERY::create_query_box(), AW_window::create_text_field(), AW_window::create_toggle(), DB_SCANNER, QUERY::query_spec::do_delete_pos_fig, QUERY::query_spec::do_mark_pos_fig, QUERY::query_spec::do_query_pos_fig, QUERY::query_spec::do_refresh_pos_fig, QUERY::query_spec::do_set_pos_fig, QUERY::query_spec::do_unmark_pos_fig, DST_DB, QUERY::query_spec::ere_pos_fig, error(), QUERY::query_spec::expect_hit_in_ref_list, QUERY::query_spec::gb_main, QUERY::query_spec::gb_ref, GB_USERFLAG_QUERY, QUERY::query_spec::get_queried_itemtype(), AW_window::get_root(), GLOBAL_gb_dst, GLOBAL_gb_src, AW_window_simple_menu::init(), AW_window::insert_menu_topic(), AW_window::insert_option(), QUERY::query_spec::key_pos_fig, AW_window::load_xfig(), makeHelpCallback(), MG_create_preserves_selection_window(), MG_expect_renamed(), MG_gene_species_create_field_transfer_def_window(), mg_initialize_species_selectors(), MG_map_species(), MG_transfer_species(), NULp, QUERY::query_spec::open_parser_pos_fig, QUERY::query_spec::qbox_pos_fig, QUERY::query_spec::query_pos_fig, QUERY::query_spec::result_pos_fig, QUERY::query_spec::select_bit, AW_window::sens_mask(), AW_window::sep______________(), ScopedTransporter::set_query_to_update(), AW_window::shadow_width(), QUERY::query_spec::species_name, SRC_DB, SXS_LISTED_SPECIES, SXS_SELECTED_SPECIES, SXT_SINGLE_FIELD, SXT_USING_FTS, SXT_USING_FTS_SKIP_ALI, SXT_WHOLE_SPECIES, QUERY::query_spec::tree_name, AW_window::update_option_menu(), QUERY::query_spec::use_menu, AW_awar::write_int(), and XFER_select_RuleSet().

Referenced by MERGE_create_main_window().

Variable Documentation

DbScanner* scanner_src = NULp

static

Definition at line 48 of file MG_species.cxx.

DbScanner* scanner_dst = NULp

static

Definition at line 49 of file MG_species.cxx.

Referenced by MG_map_species().

MutableItemSelector MG_species_selector[2]

static

Definition at line 896 of file MG_species.cxx.

MergeFieldScanner fieldScanner

static

Definition at line 1159 of file MG_species.cxx.