Here is a list of all file members with links to the files they belong to:

- c -

C : trnsprob.h
c_b141 : eispack.cxx
c_b550 : eispack.cxx
C_f : f2c.h
C_fp : f2c.h
C_MULT : MultiProbe.hxx
ca_assert : cache.h , global.h
ca_assert_expensive : cache.h
CA_UNIQUETYPE : static_assert.h
cache_free_some_memory() : adcache.cxx
CACHE_SEQ_PERCENT : PT_prefixtree.cxx
cached_taxonomies : adlang1.cxx
CACHED_TRANSLATORS : AP_pro_a_nucs.cxx
calc_and_update_alignment_errors_cb() : ED4_detect_bad_ali.cxx
calc_branchlengths_and_reorder() : PARS_main.cxx
calc_codon_nr() : AP_codon_table.cxx
calc_diff() : adlang1.cxx
calc_digits() : arbtools.h
calc_mag_from_psize() : AWT_canio.cxx
calc_mean_dist_to() : DI_foundclusters.cxx
calc_method_changed_cb() : saicalc.cxx
calc_overlap() : AW_device_size.cxx
calc_position_wmis() : PT_match.cxx
calc_probability() : PT_partition.h
calc_pvp() : arb_calc_pvp.cxx
calc_signed_digits() : arbtools.h
calc_steps() : PARS_main.cxx
calc_text_coordinates_aside_line() : TreeDisplay.cxx
calc_text_coordinates_near_tip() : TreeDisplay.cxx
calc_weight() : ClustalV.cxx
calcCounts() : adoptimize.cxx
calcGbdOffsets() : admap.cxx
calcInsertNow() : PARS_main.cxx
calcMutationMatrix() : rns.c
calcOneMutationAway() : AP_seq_protein.cxx
calcPairTrials() : rns.c
calcSequenceChecksum() : fast_aligner.cxx
calcTaxDifference() : NT_taxonomy.cxx
calculate_and_check_ranges() : NT_split_ali.cxx
calculate_clusters() : DI_clusters.cxx
calculate_default_random_repeat() : PARS_main.cxx
calculate_group_folding() : ED4_no_class.cxx
calculate_preserves_cb() : MG_preserves.cxx
calculate_sai_cb() : saicalc.cxx
calculate_scaler_value() : AW_button.cxx
CALCULATE_STATS_ON_QUERY : probe.h
calculate_textsize() : AW_button.cxx
calculateEndPosition() : SaiProbeVisualization.cxx
CalculateRotationMatrix() : RNA3D_OpenGLEngine.cxx
call_edit() : ED4_no_class.cxx
CALL_FN_v_v : valgrind.h
CALL_FN_v_W : valgrind.h
CALL_FN_v_WW : valgrind.h
CALL_FN_v_WWW : valgrind.h
CallbackList : AW_inotify.cxx
callDelay() : arb_perf_test.cxx
CALLER_FILE : aisc_def.h
CALLER_LINE : aisc_def.h
CallMode : aisc_commands.c
CALLOC() : ali_misc.hxx
CAN_SCORE_LEFT : fast_aligner.cxx
CAN_SCORE_RIGHT : fast_aligner.cxx
CandidateList : group_search.cxx
Candidates : MG_preserves.cxx
cannot_fast_align() : fast_aligner.cxx
cannot_use_fun4entry() : arbdb.cxx
cansibycplus : mkptypes.cxx
CANT_HANDLE : arb_proto_2_xsub.cxx
canvas_focus_cb() : AWT_canvas.cxx
canvas_resize_cb() : AWT_canvas.cxx
canvas_to_printer() : AWT_canio.cxx
canvas_to_xfig() : AWT_canio.cxx
canvas_to_xfig_and_run_xfig() : AWT_canio.cxx
canvas_tree_awar_changed_cb() : NT_extern.cxx
canvas_updated_cb() : NT_sync_scroll.cxx
caps() : AW_xfont.cxx
CAPS : adlang1.cxx
capsLockIsDown() : macinit.c
CAS_EDIT4 : consensus.h
CAS_INTERNAL : consensus.h
CAS_NTREE : consensus.h
Case : adlang1.cxx
CAST_DEALLOCATOR : cbtypes.h
CAST_TO_AW_CL : cbtypes.h
CASTABLE_TO_AW_CL : cbtypes.h
CASTSIG : arbtools.h
cat() : ED4_root.cxx
cat_dashed_left() : PT_match.cxx
cat_dashed_right() : PT_match.cxx
cat_internal() : PT_match.cxx
cat_spaced_left() : PT_match.cxx
cat_spaced_right() : PT_match.cxx
catch_sigsegv : server.c
categorize() : arb_dnarates.cxx
categs : arb_dnarates.cxx
CATSCALE : arb_export_rates.cxx
cb : ED4_search.cxx
cbabk2_() : eispack.cxx
cbal_() : eispack.cxx
CbInstallMode : GEN_graphic.hxx
cbtype2readable() : ad_cb.cxx
CBTYPE_FFV_BUILDER_TEMPLATES : cbtypes.h
CBTYPE_FVF_BUILDER_NP1 : cbtypes.h
CBTYPE_FVF_BUILDER_P1_F1 : cbtypes.h
CBTYPE_FVF_BUILDER_P1_F1F2 : cbtypes.h
CBTYPE_FVF_BUILDER_TEMPLATES : cbtypes.h
CBTYPE_FVV_BUILDER_NP : cbtypes.h
CBTYPE_FVV_BUILDER_NP12 : cbtypes.h
CBTYPE_FVV_BUILDER_P : cbtypes.h
CBTYPE_FVV_BUILDER_P1 : cbtypes.h
CBTYPE_FVV_BUILDER_P1P2 : cbtypes.h
CBTYPE_FVV_BUILDER_TEMPLATES : cbtypes.h
CBTYPE_VV_BUILDER_NP12 : cbtypes.h
CBTYPE_VV_BUILDER_P1 : cbtypes.h
CBTYPE_VV_BUILDER_P1P2 : cbtypes.h
CBTYPE_VV_BUILDER_TEMPLATES : cbtypes.h
ccommand() : macinit.c
cdiv_() : eispack.cxx
CER_WIDTH : GEN_interface.cxx
cf_breaker : ed4_protein_2nd_structure.hxx
cf_former : ed4_protein_2nd_structure.hxx
cf_parameters : ED4_protein_2nd_structure.cxx
cf_parameters_norm : ED4_protein_2nd_structure.cxx
cfg_lines : simcfg.c
CFG_SEP : NT_edconf.cxx
cfgLine : readcfg.h
cfgReadWarning() : readcfg.c
cg_() : eispack.cxx
ch_() : eispack.cxx
Change3DMolecule() : RNA3D_Interface.cxx
Change3DMolecule_CB() : RNA3D_Interface.cxx
change_char_table_length() : ED4_root.cxx
change_constraints() : SEC_graphic.cxx
change_file_suffix() : main.cxx
CHANGE_KEY_PATH : arbdbt.h
CHANGE_KEY_PATH_EXPERIMENTS : arbdbt.h
CHANGE_KEY_PATH_GENES : arbdbt.h
CHANGE_REASONS : aw_inotify.hxx
change_reference_cb() : ED4_seq_colors.cxx
CHANGEKEY : arbdbt.h
CHANGEKEY_HIDDEN : arbdbt.h
CHANGEKEY_NAME : arbdbt.h
CHANGEKEY_TYPE : arbdbt.h
ChangeReason : aw_inotify.hxx
CHAR : arb_handlers.cxx
char2AA : ED4_protein_2nd_structure.cxx
char2BaseType : base.h
CHAR2BIT : PRD_Globals.hxx
CHAR2CHILD : PRD_Globals.hxx
char_predicate_fun : BI_basepos.hxx
CHAR_PTR : arb_proto_2_xsub.cxx
CHARACTEROFFSET : ed4_defs.hxx
CHARACTERS : RNA3D_Renderer.hxx
charIsDelete : base.c , base.h
charIsHelical : base.c , base.h
CharPtrArray_compare_fun : arb_strarray.h
chars : seq_search.cxx , arb_a2ps.c
charVector : Location.h
CHEAP_GAP_EXTEND : ClustalV.cxx
CHEAP_GAP_OPEN : ClustalV.cxx
cheap_if : ClustalV.cxx
check_and_correct_current_field() : MG_gene_species.cxx
check_argument_for_mode() : NT_main.cxx
check_base_invariance() : ali_main.cxx
check_consistency() : mg.cxx
check_data_path() : AWT_input_mask.cxx
check_db_interrupt() : dbserver.cxx
check_delete_allowed() : insdel.cxx
CHECK_DIMENSION_CHANGE : item_shader.h
check_duplicates() : arb_help2xml.cxx
check_for_case_error() : names.cxx
check_for_illegal_chars() : names.cxx
check_for_remote_command() : dbserver.cxx
check_for_species_without_data() : adali.cxx
CHECK_HIER_CB_CONDITION : ad_cb.cxx
check_internal() : seq_export.cxx
check_key() : adstring.cxx
check_last_parameter() : AWT_input_mask.cxx
check_no_parameter() : AWT_input_mask.cxx
check_out_buffer() : arbdb.cxx
check_ps_fontinfo_valid() : AW_xfont.cxx
CHECK_ROOT_POPS : AP_buffer.hxx
CHECK_SEMI_ESCAPED : arb_gene_probe.cxx
check_server_selected() : servercntrl.cxx
check_socket_available() : db_server.cxx
check_specific_duplicates() : arb_help2xml.cxx
CHECK_STACK_RESOURCE_HANDLING : AP_buffer.hxx
check_strain_from() : mg.cxx
check_TODO() : arb_help2xml.cxx
check_tree_was_saved() : PT_buildtree.cxx
check_valid_existing_fts() : xfergui.cxx
check_valid_target_fts() : xfergui.cxx
checkAndMergeFields() : NT_concatenate.cxx
CHECKED_RANGE_OFFSET() : ValueTuple.cxx
checkForGammaEnv() : glpng.c
CheckItemConsistency() : GDE_ParseMenu.cxx
checkopt() : readseq.c
CheckType() : GDE_Genbank.cxx
checkValidIndex() : xfergui.cxx
CHEMICAL : di_protdist.hxx
chimera_config_mapping : ST_window.cxx
CHOICE_LIST : GDE_def.h
CHOICE_MENU : GDE_def.h
CHOICE_SAI : GDE_def.h
CHOICE_TREE : GDE_def.h
CHOICE_WEIGHTS : GDE_def.h
chooseall : readseq.c
chooseFormat() : readseq.c
CHOOSER : GDE_def.h
CI_CLOSE_GROUP : ad_config.h
CI_END_OF_CONFIG : ad_config.h
CI_FOLDED_GROUP : ad_config.h
CI_GetCharInfo_1D() : AW_xfont.cxx
CI_GetCharInfo_2D() : AW_xfont.cxx
CI_GetDefaultInfo_1D() : AW_xfont.cxx
CI_GetDefaultInfo_2D() : AW_xfont.cxx
CI_GetRowzeroCharInfo_2D() : AW_xfont.cxx
CI_GROUP : ad_config.h
CI_NonExistChar() : AW_xfont.cxx
CI_SAI : ad_config.h
CI_SPECIES : ad_config.h
CI_UNKNOWN : ad_config.h
CILIATE : di_protdist.hxx
cinvit_() : eispack.cxx
CIRCLE : RNA3D_Textures.hxx
ckalloc() : ClustalV.cxx
cl_assert : di_clustertree.hxx , di_foundclusters.hxx
CL_BRANCH : TreeDisplay.hxx
CL_FLAG : TreeDisplay.hxx
CL_NODE : TreeDisplay.hxx
CL_ROOTNODE : TreeDisplay.hxx
CL_RULER : TreeDisplay.hxx
CL_SPECIES : TreeDisplay.hxx
CLEAN : TestEnvironment.cxx
clean_ptserver_database() : ptclean.cxx
cleanup() : arb_a2ps.c
cleanup_ptserver_database() : ptclean.cxx , ptclean.h
cleanup_when_closing() : NT_ins_col.cxx
cleanupResizeEvents() : AW_window.cxx
clear_all_colors() : db_query.cxx
clear_all_colors_cb() : db_query.cxx
clear_and_update_rectangle() : ED4_window.cxx
clear_candidates() : MG_preserves.cxx
clear_comment_cb() : NT_edconf.cxx
clear_fathers() : probe_tree.h
clear_field_cb() : xfergui.cxx
clear_found_attribute() : mkptypes.cxx
clear_input_cb() : AWT_prompt.cxx
clear_itarget() : probe_design.cxx
clear_probe_collection_event() : probe_design.cxx
CLEAR_QUERIED() : db_query.cxx
clear_references_cb() : MG_preserves.cxx
clear_results_cb() : NT_group_search.cxx
clear_temp_flags() : AW_root.cxx
clearMacroExecutionAuthorization() : trackers.cxx
clearUp() : mem.cxx
CLICK_SELECT_SPECIES : DI_view_matrix.cxx
CLICK_SET_MINMAX : DI_view_matrix.cxx
ClickAction : DI_view_matrix.cxx
ClickedType : TreeDisplay.hxx
CLIENT_ERROR : adcomm.cxx
CLIENT_RECEIVE_ERROR : adcomm.cxx
CLIENT_SEND_ERROR : adcomm.cxx
CLIENT_SEND_ERROR_AT_ITEM : adcomm.cxx
clientserver_error() : adcomm.cxx
clip_expose() : AWT_canvas.cxx
clip_in_range() : AW_clipable.cxx
CLIP_OVERLAP : awt_canvas.hxx
clip_tprobes() : PT_new_design.cxx
closeArb() : arb_dnarates.cxx
closeout : readseq.c
closing_quote() : recmac.cxx
clrDefinitionsChanged : ED4_visualizeSAI.cxx
ClustalV_align() : ClustalV.cxx , ClustalV.hxx
ClustalV_exit() : ClustalV.cxx , ClustalV.hxx
ClusterIDs : di_foundclusters.hxx
ClusterIDsIter : di_foundclusters.hxx
ClusterMarkMode : di_foundclusters.hxx
ClusterOrder : di_foundclusters.hxx
ClusterPtr : di_foundclusters.hxx
ClusterState : di_clustertree.hxx
ClusterSubset : di_foundclusters.hxx
CM_COPY_FULL : arbdb.cxx
CM_COPY_STANDARD : arbdb.cxx
CM_COPY_TRADITIONAL : arbdb.cxx
CM_COPY_WITHPROTECT : arbdb.cxx
CM_DROP_MARKS : arbdb.cxx
CM_DROP_PROTECTION : arbdb.cxx
CM_DROP_TEMPSTATE : arbdb.cxx
CM_MATCH : group_search.h
CM_MISMATCH : group_search.h
CM_OVERWRITE_EXISTING : arbdb.cxx
CM_SKIP_TEMP : arbdb.cxx
CMD_ASSIGN : AWT_input_mask.cxx
CMD_CHANGEMASK : AWT_input_mask.cxx
CMD_CHECKBOX : AWT_input_mask.cxx
CMD_GLOBAL : AWT_input_mask.cxx
CMD_ID : AWT_input_mask.cxx
CMD_LOCAL : AWT_input_mask.cxx
CMD_NEW_LINE : AWT_input_mask.cxx
CMD_NEW_SECTION : AWT_input_mask.cxx
CMD_NUMFIELD : AWT_input_mask.cxx
CMD_OPENMASK : AWT_input_mask.cxx
CMD_RADIO : AWT_input_mask.cxx
CMD_SCRIPT : AWT_input_mask.cxx
CMD_SELF : AWT_input_mask.cxx
CMD_SHOW : AWT_input_mask.cxx
CMD_TEXT : AWT_input_mask.cxx
CMD_TEXTFIELD : AWT_input_mask.cxx
CMD_UNKNOWN : AWT_input_mask.cxx
CMD_WWW : AWT_input_mask.cxx
cmdKeyIsDown() : macinit.c
CMM_ALL : di_foundclusters.hxx
CMM_ALL_BUT_REP : di_foundclusters.hxx
CMM_ONLY_REP : di_foundclusters.hxx
cmp : admap.cxx , adoptimize.cxx
cmp_ift() : AWTI_import.cxx
cmp_location_parts() : adGene.cxx
cmpByKey() : NT_sort.cxx
cmpBySize() : AW_file.cxx
CO_AND : group_search.h
CO_IGNORE : group_search.h
CO_OR : group_search.h
codon_defined_in() : AP_pro_a_nucs.cxx
codon_tables_initialized : AP_codon_table.cxx
col_block_refresh_on_seq_term() : ED4_block.cxx
col_stat_activated() : ED4_colStat.cxx
COLLAPSE_ALL : TreeDisplay.hxx
collapse_all_cb() : TreeCallbacks.cxx
COLLAPSE_TERMINAL : TreeDisplay.hxx
collapse_terminal_cb() : TreeCallbacks.cxx
CollapseMode : TreeDisplay.hxx
collect_contained_groups() : AP_TreeSet.cxx , AP_TreeSet.hxx
collect_enclosing_groups() : AP_TreeSet.cxx , AP_TreeSet.hxx
collect_searched_trees() : group_search.cxx
collect_subset_cb() : AWT_sel_boxes.cxx
collectIntFunResults() : test_helpers.h
collectKeysRegisteredInDatabase() : db_scanner.cxx , db_scanner.hxx
CollectMode : group_search.h
color_awar_changed_cb() : ED4_seq_colors.cxx
color_awarname() : AW_preset.cxx
COLOR_BUTTON_LEN : AW_preset.cxx
color_group_def : AW_preset.cxx
color_group_name_changed_cb() : AW_preset.cxx
color_group_use_changed_cb() : AW_preset.cxx
COLOR_SYNC_ALL : SEC_main.cxx
COLOR_SYNC_RANGE : SEC_main.cxx
COLOR_SYNC_REST : SEC_main.cxx
COLOR_SYNC_SEARCH : SEC_main.cxx
color_value_change_was_ignored : AW_preset.cxx
colorDefChanged_callback() : ED4_visualizeSAI.cxx , SaiProbeVisualization.cxx
colorDefTabNameChanged_callback() : ED4_visualizeSAI.cxx
colorDistSquare() : AW_print.cxx
colorgroupname_awarname() : AW_preset.cxx
colorize_marked_cb() : db_query.cxx
colorize_queried_cb() : db_query.cxx
COLORLINK : RNA3D_StructureData.cxx
colorset_changed_cb() : db_query.cxx
colorslider_changed_cb() : AW_preset.cxx
colorTransTable_exists() : ED4_visualizeSAI.cxx
colstat_2_gnuplot_cb() : ColumnStat_2_gnuplot.cxx
colstat_ali_changed_cb() : ColumnStat_2_gnuplot.cxx
COLSTAT_create_selection_list() : ColumnStat.cxx , ColumnStat.hxx
COLSTAT_create_selection_window() : ColumnStat.cxx , ColumnStat.hxx
column : arb_a2ps.c
COLUMN_STAT_ROW_HEIGHT : ed4_defs.hxx
COLUMN_STAT_ROWS : ed4_defs.hxx
column_stat_terminal_spec : ED4_terminal.cxx
column_width : arb_a2ps.c
ColumnMap : probe_match_parser.cxx
columns_changed_cb() : AWT_canio.cxx
columns_of() : NT_ins_col.cxx
columnsperline : arb_a2ps.c
com : probe_design.cxx
combak_() : eispack.cxx
comhes_() : eispack.cxx
comlr2_() : eispack.cxx
comlr_() : eispack.cxx
COMM_ERROR : adcomm.cxx
COMM_RECEIVE_ERROR : adcomm.cxx
COMM_SEND_ERROR : adcomm.cxx
command : arb_a2ps.c
command_cb() : db_server.cxx
COMMAND_DROPS_INPUT_STREAMS : gb_aci_impl.h
command_line_conversion() : main.cxx
command_on_GBDATA() : TreeDisplay.cxx
command_triggered : db_server.cxx
CommandType : aisc_parser.h
COMMENT : readcfg.c
comment_changed_cb() : AWT_config_manager.cxx
comment_subkey() : embl.cxx , prototypes.h
commit_or_abort_transaction() : adcomm.cxx
COMMON : NT_taxonomy.cxx
common_ancestor() : TreeCallbacks.cxx
COMPARABLE_BASES : ClustalV.cxx
Compare : arb_sort.cxx
compare_hits() : db_query.cxx
COMPARE_TOPOLOGY : NT_tree_cmp.h
compare_type() : insdel.cxx
compareMITuples() : Cma.cxx
COMPILE_ASSERTED_TYPE : static_assert.h
compl : readseq.c
complement_probe() : PT_complement.h
COMPLEMENTARY_STRAND : ED4_ProteinViewer.cxx
COMPLEMENTARY_STRANDS : ED4_ProteinViewer.cxx
complete_newick_comment() : TreeWrite.cxx
COMPRESS_ALL : GDE_extglob.h
compress_data() : PT_io.cxx , pt_prototypes.h
COMPRESS_NONE : GDE_extglob.h
COMPRESS_NONINFO_COLUMNS : GDE_extglob.h
compress_sequence_tree() : adseqcompr.cxx
COMPRESS_VERTICAL_GAPS : GDE_extglob.h
compressed_matrix_needs_recalc_cb() : DI_matr.cxx
COMPRESSIBLE : adoptimize.cxx
compressSeq() : ureadseq.c , ureadseq.h
ComputeRotationXY() : RNA3D_OpenGLEngine.cxx , RNA3D_OpenGLEngine.hxx
comqr2_() : eispack.cxx
comqr_() : eispack.cxx
CON_calc_max_freq() : AP_consensus.cxx
CON_calc_max_freq_cb() : AP_consensus.cxx
CON_calculate() : AP_consensus.cxx
CON_calculate_cb() : AP_consensus.cxx
CON_export() : AP_consensus.cxx
CON_insertSequences() : AP_consensus.cxx
concat() : insdel.cxx
concat_type_and_name() : arb_proto_2_xsub.cxx
concatenate : stringize.h
concatenate_name_parts() : DI_clusters.cxx
concatenate_pscans : stringize.h
concatenateAlignments() : NT_concatenate.cxx
concatenateFieldsCreateNewSpecies() : NT_concatenate.cxx
CONE_DOWN : RNA3D_Textures.hxx
CONE_UP : RNA3D_Textures.hxx
CONF_COMBINE : NT_edconf.cxx
CONF_EXTRACT : NT_edconf.cxx
CONF_INVERT : NT_edconf.cxx
CONF_MARK : NT_edconf.cxx
CONF_UNMARK : NT_edconf.cxx
CONFIG_AWARS : AWT_config_manager.cxx
CONFIG_BASE_PATH : NT_edconf.cxx
config_comment_changed_cb() : NT_edconf.cxx
CONFIG_DATA_PATH : ad_config.h
CONFIG_ITEM : ad_config.h
config_map : ConfigMapping.h
config_modified_cb() : NT_edconf.cxx
config_rename_cb() : MG_configs.cxx
config_rename_handler() : MG_configs.cxx
CONFIG_SEPARATOR : NT_edconf.cxx
ConfigAwar : AWT_config_manager.cxx
ConfigCreation : NT_edconf.cxx
ConfigHits : NT_edconf.cxx
ConfigModifyCallback : awt_config_manager.hxx
configs_selectionlist_changed_cb() : NT_edconf.cxx
configuration_deleted_cb() : NT_edconf.cxx
configuration_renamed_cb() : NT_edconf.cxx
configure_macro_recording() : trackers.cxx , macros.hxx
configureColumnStat() : ED4_colStat.cxx
CONSENSUS_AWAR_SOURCE : ED4_consensus.cxx , AP_consensus.cxx , chartable.cxx
CONSENSUS_CONFIG_CONSIDBOUND : consensus_config.h
CONSENSUS_CONFIG_COUNTGAPS : consensus_config.h
CONSENSUS_CONFIG_GAPBOUND : consensus_config.h
CONSENSUS_CONFIG_GROUP : consensus_config.h
CONSENSUS_CONFIG_ID : consensus_config.h
CONSENSUS_CONFIG_LOWER : consensus_config.h
consensus_config_mapping : AP_consensus.cxx , ED4_no_class.cxx
CONSENSUS_CONFIG_UPPER : consensus_config.h
consensus_upper_lower_changed_cb() : ED4_no_class.cxx , AP_consensus.cxx
CONST_CHAR : arb_proto_2_xsub.cxx
CONST_CHAR_PTR : arb_proto_2_xsub.cxx
CONST_PARAM_T : cbtypes.h
const_softbaseiter : MG_adapt_ali.cxx
constCastTo() : arb_proto_2_xsub.cxx
ConstDeconstructedTreePtr : SyncRoot.hxx
CONSTEXPR : cxxforward.h
CONSTEXPR_INLINE : cxxforward.h
CONSTEXPR_INLINE_Cxx14 : cxxforward.h
ConstSizeAwareTreePtr : SyncRoot.hxx
ConstSizeAwareTreeVector : SyncRoot.hxx
contains() : group_search.cxx , NT_dbrepair.cxx , group_search.cxx
CONTAINS : NT_ins_col.cxx
contains_ambiguities() : PT_family.cxx
contains_braces() : arb_proto_2_xsub.cxx
contains_non_alphanumeric() : names.cxx
contains_preprozessorCode() : arb_proto_2_xsub.cxx
contains_wildcards() : AWTI_import.cxx , AW_file.cxx
containsProtMatching() : AP_codon_table.cxx
containsWildcards() : query_expr.cxx
content_matrix_cell() : saicalc.cxx
continue_with_namesDat_destruction() : AW_names_admin.cxx
contradicts : test_unit.h
CONVERSION_FUNCTION : arb_proto_2_xsub.cxx
conversion_function_name() : arb_proto_2_xsub.cxx
convert() : convert.cxx , prototypes.h
convert_case() : adlang1.cxx
convert_for_back_write() : ali_main.cxx
convert_xcolorname() : AW_rgb.cxx
convertFlags4Save() : admap.cxx
convertible_type : main.cxx
copies_number : arb_a2ps.c
copy() : trnsprob.cxx
COPY : adali.cxx , AWTI_edit.cxx
COPY_2_OUT : gb_aci_impl.h
copy_and_check_alignments_ignoreResult() : MG_alignment.cxx
copy_content() : global.h
copy_field_into_partial_alignments() : NT_split_ali.cxx
copy_move_del_alignment() : adali.cxx
copy_rename_cb() : AdminGui.cxx
copy_rename_handler() : AdminGui.cxx
COPY_RULESET : xfergui.cxx
copy_SAI_cb() : ad_ext.cxx
copy_SAI_to_species_cb() : ad_ext.cxx
COPY_SPECIES : ed4_class.hxx
copy_strain_and_check_consistency() : mg.cxx
copy_string_part() : aisc_inline.h
copy_subspecies_and_check_consistency() : mg.cxx
copy_to_buf() : PT_main.cxx
copy_tree_awar_cb() : ad_trees.cxx
copy_tree_container() : adtree.cxx
CopyFromParent_AsPtr : AW_window.cxx
CopyMode : arbdb.cxx
CopyMoveDelMode : adali.cxx
copyMoveMode : xfergui.cxx
copyMoveRuleset_cb() : xfergui.cxx
CopyRenameMode : AdminGui.cxx
CORE : client.c , struct_man.c
correct_extension() : AWT_asciiprint.cxx
correct_managed_configsets_cb() : NT_edconf.cxx
correct_minmaxhom_cb() : PH_filt.cxx
correct_startstop_cb() : PH_filt.cxx
correct_subselection_cb() : AWT_sel_boxes.cxx
correct_subspecies() : mg.cxx
correctIndentation() : arb_help2xml.cxx
correctSpaces() : arb_help2xml.cxx
cortb_() : eispack.cxx
corth_() : eispack.cxx
COST_HIGH_DEFAULT : ali_global.cxx
COST_LOW_DEFAULT : ali_global.cxx
COST_MIDDLE_DEFAULT : ali_global.cxx
COUNT() : adoptimize.cxx
count_bases() : MG_preserves.cxx
count_by_tab() : adlang1.cxx
count_char() : PT_compress.h
COUNT_DONT_USE_MAX : phylo.hxx
count_dots() : PT_compress.h
count_dtree_leafs() : adoptimize.cxx
count_elements() : arb_perf_test.cxx
count_field_occurrence() : ui_species.cxx
count_gaps() : PT_compress.h
count_gaps_and_dots() : PT_compress.h
count_mishits_for_all() : PT_new_design.cxx
count_mishits_for_matched() : PT_new_design.cxx
count_nodes() : SQ_main.cxx
count_partial_and_full() : PARS_main.cxx
count_spaces() : global.h
count_uint_32() : PT_compress.h
countAffectedEntries() : insdel.cxx
COUNTING_MARKED : TreeCallbacks.cxx
countseq() : ureadseq.c
countSpaces() : arb_help2xml.cxx
countTaxLevel() : NT_taxonomy.cxx
CR_CREATED : aw_inotify.hxx
CR_DELETED : aw_inotify.hxx
CR_MODIFIED : aw_inotify.hxx
CRASH : ps_assert.hxx
CRAZY_PINK : AW_rgb.cxx
CRC32checksum() : ureadseq.h , ureadseq.c
crctab : ureadseq.c , gb_hashindex.h , adstring.cxx
creatable : item_sel_list.cxx
create_aciapp_config_window() : saicalc.cxx
create_admin_awars() : AdminGui.cxx
create_ali_cb() : AdminGui.cxx
create_ali_handler() : AdminGui.cxx
create_ali_intEntry() : adali.cxx
create_ali_strEntry() : adali.cxx
create_awars() : SEC_db.cxx
create_awars_for_field() : MG_gene_species.cxx
create_AWTC_export_window() : awti_export.hxx , AWTI_export.cxx
create_boolchain_config_window() : saicalc.cxx
create_calltexe_window() : AWTC_submission.cxx
create_color_button() : AW_preset.cxx
create_colorize_experiments_window() : EXP_main.cxx
create_colorize_genes_window() : GEN_map.cxx
create_colorize_organisms_window() : GEN_map.cxx
create_colorize_queried_window() : db_query.cxx
create_colorize_species_window() : NT_extern.cxx
create_colorize_window() : db_query.cxx
create_colorset_representation() : db_query.cxx
create_colorTranslationTable_window() : SaiProbeVisualization.cxx
create_common_next_neighbour_fields() : ui_species.cxx
create_concatInfo_SAI() : NT_concatenate.cxx
create_config_manager_window() : AWT_config_manager.cxx
create_configuration_admin_window() : NT_edconf.cxx
create_configuration_marker_window() : NT_edconf.cxx
create_consense_tree_cb() : ad_trees.cxx
create_data_entry() : arb_gene_probe.cxx
create_dll_public() : aisc_extern_privat.h , aisc_extern.c
create_dna_matrix_window() : DI_matr.cxx
create_dup_config_window_cb() : NT_group_search.cxx
create_editColorTranslationTable_window() : ED4_visualizeSAI.cxx
create_expert_naligner_window() : ED4_naligner.cxx
create_export_awars() : AWTI_export.cxx
create_export_nds_awars() : NT_extern.cxx
create_family_settings_window() : fast_aligner.cxx
create_field_convert_window() : ui_species.cxx
create_fig_export_awars() : AWT_canio.cxx
create_fileselection_and_name_awars() : MG_main.cxx
create_fileSelection_awars() : AW_modal.cxx
create_font_button() : AW_preset.cxx
CREATE_FROM_CONSENSUS : ed4_class.hxx
create_gene() : arb_gene_probe.cxx
create_gene_create_window() : GEN_interface.cxx
create_gene_species() : arb_gene_probe.cxx
create_genelike_entry() : arb_gene_probe.cxx
create_global_awars() : AWT_input_mask.cxx
create_group_rename_window_cb() : NT_group_search.cxx
create_group_search_awars() : NT_group_search.cxx , NT_group_search.h
create_group_species_by_field_window() : ED4_no_class.cxx
create_helix_props_window() : AW_helix.hxx , AW_helix.cxx
create_import_awars() : AWTI_import.cxx
create_input_awars() : AW_modal.cxx
create_insertDeleteBySAI_window() : NT_ins_col.cxx , NT_extern.cxx
create_insertDeleteColumn_variables() : NT_ins_col.cxx , NT_extern.cxx
create_insertDeleteColumn_window() : NT_ins_col.cxx , NT_extern.cxx
create_intergene() : arb_gene_probe.cxx
create_island_hopping_window() : fast_aligner.cxx
create_item_hash() : adhashtools.cxx
create_itemfield_selection_button() : item_sel_list.cxx , item_sel_list.h
create_itemfield_selection_list() : item_sel_list.cxx , item_sel_list.h
create_IUPAC_resolve_window() : probe_design.cxx
create_kernighan_properties_window() : pars_klprops.hxx , PARS_klprops.cxx
create_key_map_window() : awt_map_key.hxx , AWT_map_key.cxx
create_list_of_loaded_species() : ED4_detect_bad_ali.cxx
create_load_box_for_selection_lists() : AWT_sel_boxes.cxx , awt_sel_boxes.hxx
create_loadsave_colored_window() : db_query.cxx
create_macro_variables() : macro_gui.cxx
create_mark_by_refentries_window() : NT_extern.cxx
create_mark_menu_entry() : TreeCallbacks.cxx
create_mark_menu_id() : TreeCallbacks.cxx
create_matrix_awars() : DI_view_matrix.cxx
create_matrix_config_window() : saicalc.cxx
create_matrix_settings_window() : DI_view_matrix.cxx
create_mg_check_fields_window() : merge.hxx , MG_checkfield.cxx
create_mg_merge_tagged_fields_window() : MG_species.cxx
create_modify_fields_window() : db_query.cxx
create_multi_level_consensus() : SQ_functions.cxx
create_multiprobe_window() : multi_probe.hxx , MP_main.cxx
create_naligner_variables() : ed4_naligner.hxx , ED4_naligner.cxx
create_naligner_window() : ED4_naligner.cxx , ed4_naligner.hxx
create_nds_export_window() : NT_extern.cxx
create_new_input_mask() : AWT_input_mask.cxx
create_new_mask_cb() : AWT_input_mask.cxx
CREATE_NEW_SPECIES : ed4_class.hxx
create_new_species() : ED4_no_class.cxx
create_next_neighbours_listed_window() : ui_species.cxx
create_next_neighbours_selected_window() : ui_species.cxx
create_next_neighbours_vars() : ui_species.cxx
create_next_SAI() : arb_dnarates.cxx
create_optimize_vars() : PARS_main.cxx
create_pars_init_window() : PARS_main.cxx
create_phyl_main_window() : PH_main.cxx
create_primer_design_result_window() : primer_design.cxx
create_primer_design_variables() : primer_design.cxx , primer_design.hxx
create_primer_design_window() : primer_design.hxx , primer_design.cxx
create_print_awars() : AWT_canio.cxx
create_print_box_for_selection_lists() : awt_sel_boxes.hxx , AWT_sel_boxes.cxx
create_probe_admin_window() : probe_gui.hxx , probe_design.cxx
create_probe_collection_window() : probe_design.cxx
create_probe_design_variables() : probe_design.cxx , NT_extern.cxx
create_probe_design_window() : probe_design.cxx , probe_gui.hxx
create_probe_expert_window() : probe_design.cxx
create_probe_match_specificity_control_window() : probe_design.cxx
create_probe_match_window() : probe_design.cxx , probe_gui.hxx
create_probe_match_with_specificity_window() : probe_gui.hxx , probe_design.cxx
create_PTSERVER_selection_window() : AWT_sel_boxes.cxx
create_query_independent_awars() : db_query.cxx
create_ref_db_selection_window() : graph_aligner_gui.cxx
create_ref_hash() : db_query.cxx
create_reversed_probe() : pt_prototypes.h , PT_match.cxx
create_SAI_group_window() : ad_ext.cxx
create_save_box_for_selection_lists() : AWT_sel_boxes.cxx , awt_sel_boxes.hxx
create_search_config_setup_cb() : NT_group_search.cxx
create_select_alignment_window() : PH_main.cxx
create_select_other_tree_window() : ad_trees.cxx
create_seq_color_awars() : ED4_seq_colors.cxx
create_set_protection_window() : db_query.cxx
create_sina_variables() : graph_aligner_gui.hxx , graph_aligner_gui.cxx
create_special_naligner_window() : ED4_naligner.cxx
create_split_gene() : arb_gene_probe.cxx
create_splitAlignment_awars() : NT_split_ali.cxx
create_status_awars() : AW_status.cxx
create_syncroot_awars() : NT_syncroot.cxx
create_tables() : MP_main.cxx
create_tester_awars() : AWTI_edit.cxx
create_top_links() : arb_help2xml.cxx
create_translator_config_window() : saicalc.cxx
create_tree_bootstrap_settings_window() : TreeDisplay.cxx
create_tree_expert_settings_window() : TreeDisplay.cxx
create_tree_export_window() : ad_trees.cxx
create_tree_import_window() : ad_trees.cxx
create_tree_name() : arb_consensus_tree.cxx
create_tree_select_window_cb() : NT_group_search.cxx
create_tree_window() : NT_extern.cxx
create_trees_var() : ad_trees.h , ad_trees.cxx
create_variables() : PH_main.cxx
create_viewDifferences_awars() : ED4_seq_colors.cxx
create_writeFieldOfListed_window() : db_query.cxx
CREATEANSWER : probe.h
createAttribList() : GLwDrawA.c
createCallOnSocketHost() : servercntrl.h , servercntrl.cxx
CreateChangeMolecule_window() : RNA3D_Interface.cxx
createColormap() : GLwDrawA.c
createCommentSkippingFileBuffer() : arb_proto_2_xsub.cxx
createCopy_ClrTransTab_cb() : ED4_visualizeSAI.cxx
createCopy_table_handler() : ED4_visualizeSAI.cxx
CREATED : RNA3D_OpenGLEngine.hxx
createDataFromConsensus() : ED4_no_class.cxx
CreateDisplayBases_window() : RNA3D_Interface.cxx
createDisplayField_window() : SaiProbeVisualization.cxx
CreateDisplayHelices_window() : RNA3D_Interface.cxx
CreateDisplayOptions_window() : RNA3D_Interface.cxx
createFileBuffer() : arb_proto_2_xsub.cxx
createGbdByKey() : admap.cxx
createGroupFromSelected() : ED4_no_class.cxx
createLinkedTreeNode() : TreeRead.cxx
CreateMapSequenceData_window() : RNA3D_Interface.cxx
createMergeSimilarSpeciesWindow() : NT_concatenate.cxx
createOpFromConfigAwar() : saicalc.cxx
createOptimizeWindow() : PARS_main.cxx
createOriginRNS() : rns.h , rns.c
createReplaceTable() : nds.cxx
CreateRNA3DAwars() : RNA3D_Main.cxx
CreateRNA3DGcWindow() : RNA3D_Interface.cxx
CreateRNA3DMainWindow() : RNA3D_Interface.cxx , RNA3D_Interface.hxx
createRuleset_cb() : xfergui.cxx
createSaiColorWindow() : SaiProbeVisualization.cxx
createSaiProbeAwars() : SaiProbeVisualization.cxx
createSaiProbeMatchWindow() : SaiProbeVisualization.cxx , SaiProbeVisualization.hxx
createSelectionList() : NT_concatenate.cxx
createValNameList() : NT_validManual.cxx
createVisualInfo() : GLwDrawA.c
CreateWindowCallbackSimple : cb.h
CreationMethod : MG_gene_species.cxx
CreationMode : ED4_visualizeSAI.cxx
criterion_awar_name() : NT_group_search.cxx
CriterionMatch : group_search.h
CriterionOperator : group_search.h
CriterionType : group_search.h
CRM_COPY : AdminGui.cxx
CRM_RENAME : AdminGui.cxx
CROSS : RNA3D_Textures.hxx
CROSSOVER_WS : MultiProbe.hxx
CS_CLEAR : SQ_functions.cxx
CS_IS_CLUSTER : di_clustertree.hxx
CS_MAYBE_CLUSTER : di_clustertree.hxx
CS_NO_CLUSTER : di_clustertree.hxx
CS_PASS1 : SQ_functions.cxx
CS_SUB_CLUSTER : di_clustertree.hxx
CS_TOO_SMALL : di_clustertree.hxx
CS_UNKNOWN : di_clustertree.hxx
csroot_() : eispack.cxx
cstr : defines.h
CT_AID : group_search.h
ct_assert : chartable.h
CT_ELSE : aisc_parser.h
CT_ELSEIF : aisc_parser.h
CT_ENDFOR : aisc_parser.h
CT_ENDIF : aisc_parser.h
CT_FOLDED : group_search.h
CT_FOR : aisc_parser.h
CT_FUNCTION : aisc_parser.h
CT_IF : aisc_parser.h
CT_KEELED : group_search.h
CT_LABEL : aisc_parser.h
CT_MARKED : group_search.h
CT_MARKED_PC : group_search.h
CT_NAME : group_search.h
CT_NESTING_LEVEL : group_search.h
CT_NEXT : aisc_parser.h
CT_OTHER_CMD : aisc_parser.h
CT_PARENT_ALL : group_search.h
CT_PARENT_ANY : group_search.h
CT_PARENT_DIRECT : group_search.h
CT_SIZE : group_search.h
CT_ZOMBIES : group_search.h
cu_str : adoptimize.cxx
curr_aligner_elem : ED4_root.cxx
current_aww() : ed4_class.hxx
CURRENT_CFG : AWT_config_manager.cxx
current_changed_cb() : AWT_config_manager.cxx
current_color_awarname : AW_preset.cxx
current_cursor() : ed4_class.hxx
current_device() : ed4_class.hxx
current_dir : mkptypes.cxx
current_ed4w() : ed4_class.hxx
current_field_awar() : MG_gene_species.cxx
current_file : mkptypes.cxx
current_filename : arb_a2ps.c
CURRENT_REST : tools.h
current_user_code_nr : AP_pro_a_nucs.cxx
currentdate : arb_a2ps.c
currentFieldScanner : xfergui.cxx
currently_called_back : ad_cb.cxx
currentSequenceNumber : fast_aligner.cxx
currentTreeName : adname.cxx
CursorPositionChanged_CB() : RNA3D_OpenGLEngine.cxx , RNA3D_OpenGLEngine.hxx
CUSTOM_CRITERIA : NT_sort.cxx
CUSTOM_DEPTHS : pars_awars.h
custom_gr_env() : group_search.cxx
custom_gx_env() : NT_tree_cmp.cxx
custom_match() : NT_tree_cmp.cxx
CUSTOM_STATIC_PATH_REDUCTION_DEPTH : pars_awars.h
customDefinesOrder : NT_sort.cxx
customOrderIsStrict : NT_sort.cxx
cut_dtree() : adoptimize.cxx
cut_filename() : arb_a2ps.c
cut_line() : arb_a2ps.c
cut_useless_words() : adoptimize.cxx
cutEOL() : arb_diff.cxx
cutExt() : AWT_asciiprint.cxx
CWIDTH : ED4_cursor.cxx
CYS : AP_seq_simple_pro.hxx