Here is a list of all class members with links to the classes they belong to:

- p -

• p : AW_awar , AW_scalar
• p1 : CallbackData< P1, P2 > , probe_struct_global
• p2 : CallbackData< P1, P2 > , probe_struct_global
• p_w : AW_window
• Package() : Package
• padding() : ArbMatchResult
• paint() : FINAL_TYPE< SEQTYPE > , GEN_root , RNA3D_Graphics , SAI_graphic , SEC_bond_def , SEC_root
• paint_constraints() : FINAL_TYPE< SEQTYPE >
• paint_strands() : FINAL_TYPE< SEQTYPE >
• paintAnnotation() : SEC_root
• paintBackgroundColor() : SEC_root
• PaintData() : PaintData
• PaintedNode() : PaintedNode
• paintPosAnnotation() : SEC_root
• paintSearchPatternStrings() : SEC_root
• Pair() : Pair
• pair_pos : BI_helix_entry
• pair_strength() : BI_pairdef
• pair_type : helix_pair_def
• pairing : S_RNS
• pairwise : common_filter_params
• Palette : pngRawInfo
• panic_save() : GB_MAIN_TYPE
• PaperFormat() : PaperFormat
• param_count() : GBL_command_arguments
• param_name : GBL_IMPL::gbl_param
• Parameter() : Parameter
• parameters() : parameters
• parent : ED4_base , Node , PS_Candidate , SEC_base_part , SEC_oriented
• parent_block() : TokenList
• parent_block_token() : Token
• parent_list() : Token
• parent_menu : GmenuItem
• parent_selector : MutableItemSelector
• ParentGroupNameQueryKey() : ParentGroupNameQueryKey
• parg : GlobalStringBuffers
• pars : BestEdge
• PARS_commands() : PARS_commands
• parse() : AttributeParser , NtreeCommandLine
• parse_bootstrap() : TreeNode
• parse_decl() : gc_desc
• parse_entry() : Parser
• parse_program() : Parser
• parse_section() : EmblParser , GenbankParser , MackeParser , Parser
• ParsedProbeMatch() : ParsedProbeMatch , ProbeMatchParser
• parseError() : AWT_config
• parseFeature() : Importer
• parseFeatureTable() : Importer
• parseFrom() : ConfigMapping
• Parser() : Parser
• parseTokenListBlock() : Parser
• parsimony_rec() : FINAL_TYPE< SEQTYPE >
• PARSIMONY_testenv() : PARSIMONY_testenv< SEQTYPE >
• parsing : GEN_NodeTextBuilder
• part : NT_NODE
• PART() : PART
• part : SymPart
• partBefore() : TextRef
• partBehind() : TextRef
• partial_match() : AP_combinableSeq , FINAL_TYPE< SEQTYPE >
• partiallyMarked : AWT_graphic_tree
• PartialSequence() : PartialSequence
• Partition() : Partition
• partition() : PartitionSpec
• PartitionSize() : PartitionSize
• PartitionSpec() : PartitionSpec
• partly_shows() : ED4_window
• PartQueue() : PartQueue
• PartRegistry() : PartRegistry
• parts : GEN_position , gene_part_pos
• pass_probability() : Partition
• passed() : ARB_timeout
• passes_left : PS_Candidate
• paste_at() : GBS_strstruct
• pat_gaps : SearchAwarList
• patd : AWT_PDP
• path : GB_MAIN_TYPE , PS_Candidate
• pattern : SearchAwarList
• Paup() : Paup
• pc() : Command , Stack , Subinfo
• pd_design_id : gl_struct
• PD_formatter() : PD_formatter
• peek() : PS_FileBuffer
• peek_format() : ArbImporter
• peek_key_event() : AW_root
• peek_part() : DeconstructedTree , PartRegistry
• peekImportDB() : ArbImporter
• pending() : gb_pending_callbacks
• percent() : ColumnWidths , RB_INFO
• percent_min : ALI_PT_CONTEXT
• perform() : Dragged
• perform_action() : awt_mask_action
• perform_all() : SimpleTester
• perform_autoscroll() : SEC_root
• perform_check() : CheckedConsistencies
• perform_item_checks() : CheckedConsistencies
• perform_marking() : DepthMarker
• perform_search() : GroupSearch
• PerfTimer() : PerfTimer
• perl_decl() : Type
• perl_typed_param() : Parameter
• permit_flag_updates : FINAL_TYPE< SEQTYPE >
• permitPrecisionLoss() : FieldTransfer::Rule
• PersistantFlag() : PersistantFlag
• persistence() : NameServerConnection
• PersistentNameServerConnection() : PersistentNameServerConnection
• pFile : ArbWriteFile_Context
• ph_display : PH_display
• PH_display() : PH_display
• PH_display_status() : PH_display_status
• PH_filter() : PH_filter
• PH_NEIGHBOUR_DIST() : PH_NEIGHBOUR_DIST
• PH_NEIGHBOURJOINING() : PH_NEIGHBOURJOINING
• PH_root() : PH_root
• PH_used_windows() : PH_used_windows
• phase_changed_cb() : FINAL_TYPE< SEQTYPE >
• phaser : ItemShader
• Phaser() : Phaser
• PHDATA() : PHDATA
• phylo_main_window : PH_used_windows
• picture : AW_window
• pid : aw_stg_struct , Globals
• pipe_broken : aw_stg_struct
• pix_len : AW_xfig_text
• pixel2pos() : ED4_root
• plain_pointer() : RefPtr< T >
• PlanarTuple() : FINAL_TYPE< SEQTYPE >
• PlotParam() : PlotParam
• PlugIn() : PlugIn
• plugin_awar() : ShaderPlugin
• PM_Context : ArbPC_Context
• PO_Less() : PO_Less
• point() : output
• pointer : AW_var_target
• pointer_ref() : RefPtr< T >
• pointsToOutside() : FINAL_TYPE< SEQTYPE >
• PointsToQuads() : Structure3D
• pointsToRoot() : FINAL_TYPE< SEQTYPE >
• polygon() : AW_device
• pop() : ALI_TSTACK< T > , AP_STACK< ELEM > , PARSIMONY_testenv< SEQTYPE > , PrintMaybe
• pop_clip_scale() : AW_device
• pop_transaction() : AWT_canvas , GB_MAIN_TYPE
• pop_will_produce_valid_tree() : PARSIMONY_testenv< SEQTYPE >
• popdown() : RegFieldSelection
• popup : GmenuItem , SelectionListSpec
• popup_cb : AW_window_Motif
• popup_config() : NT_TreeShader
• popup_config_window() : FINAL_TYPE< SEQTYPE > , ItemShader
• popup_edit_window() : AWT_configuration
• popup_info_window : QUERY::query_spec
• popup_window() : RegFieldSelection
• Pos : ArbCachedString
• pos : CurrSpecies , helix_stack , Insertions , MarkerPosition , RegMatch , SequenceIterator , StringParser , Struct2Dinfo , Struct2Dplus3D , Struct3Dinfo
• pos1 : MITuple
• pos2 : MITuple
• pos_count : dot_insert_stat
• pos_to_weight : probe_struct_global
• POS_TREE_TYPE : ChainIteratorStage1 , ChainIteratorStage2
• pos_width : format_props
• posBehindMatch() : RegMatch
• PosGene() : PosGene
• position() : ALI_MAP
• Position() : AW::Position
• position() : AWT_graphic_event , dot_insert_stat , ED4_extension
• position_cursor() : SEC_root
• PositionPair() : PositionPair
• positions() : HelixAlignmentQuality
• PositionsToCoordinatesDispList() : Structure3D
• PosRange() : PosRange
• possible : dereference< typename > , dereference< T * > , dereference< T *const >
• possible_as_xsub() : Prototype
• possible_in_xsub() : Type
• pow : group_scaling
• pProgress : ArbWriteFile_Context
• pre_format : export_format
• preali_context : ALI_GLOBAL
• precisionLossPermitted() : FieldTransfer::Rule
• predecessor() : FINAL_TYPE< SEQTYPE >
• predecide() : MarkedPrefixes
• predelete() : TreeRoot
• predicate() : arb_test::predicate< FUNC >
• predicate_description() : arb_test::predicate_description
• predicate_expectation() : arb_test::FINAL_TYPE< T >
• predicate_matcher() : arb_test::predicate_matcher< T, FUNC >
• PREFER_LINE : FINAL_TYPE< SEQTYPE >
• PREFER_NEARER : FINAL_TYPE< SEQTYPE >
• PREFER_TEXT : FINAL_TYPE< SEQTYPE >
• preferred_parent : ED4_move_info
• prefix() : PrefixIterator
• PrefixIterator() : PrefixIterator
• PrefixProbabilities() : PrefixProbabilities
• preload_rel2abs() : probe_input_data
• prepare_input_data() : SaiBoolRule
• prepare_itemfield() : SpeciesFlag
• PREPARE_MARK_NONFINAL_CLASS() : AP_tree , AP_tree_root , ARB_seqtree_root , AW_window_menu_modes , AWT_graphic_tree , BufferedFileReader , ConstStrArray , ED4_sequence_terminal , FileWriter , Reader
• prepare_paint() : FINAL_TYPE< SEQTYPE >
• prepare_shutdown() : ED4_base_position , ED4_cursor
• prepend_elem() : ED4_list< T >
• preserve() : ARB_ERROR
• prev() : ALI_TLIST< T > , gb_cache_entry , list_elem< Type > , NSONS , xarray
• prev_elem : ALI_TLIST_ELEM< T >
• previous() : ARB_edge , GB_securityLevel , GroupIterator , PH_NEIGHBOUR_DIST , SearchParameter , StrandPositionData
• PrimerDesign() : PrimerDesign
• print() : ali_aligner_cell , ali_aligner_column , ali_aligner_dellist , ali_aligner_dellist_elem , ali_aligner_last_cell , ALI_MAP , ALI_PATHMAP , ali_prealigner_approx_element , ali_prealigner_approximation , ALI_PROFILE , ALI_SUB_SOLUTION , ALI_TLIST< T > , ALI_TLIST_ELEM< T > , AP_rates , AW_xfig , Bitvector , ColumnStat , DiffLines , Error , FINAL_TYPE< SEQTYPE > , Generation , InputFileError , Item , MostLikelySeq , Node , Pair , probe_combi_statistic , probe_tabs , ProgramError , PS_BitMap , PS_BitSet , PS_Candidate , PS_Node , Range , SearchFIFO , Smoother , Sonde , ST_base_vector , ST_rate_matrix , WrapMode
• print_cont() : ali_aligner_dellist
• print_error() : UnitTest_simple
• print_error_internal() : Code , Location
• print_from() : DiffLines
• print_help() : NtreeCommandLine
• print_info() : PartitionSpec
• PRINT_MATCHED_TREES : PrimerDesign
• PRINT_PRIMER_LISTS : PrimerDesign
• PRINT_PRIMER_PAIRS : PrimerDesign
• PRINT_RAW_TREES : PrimerDesign
• print_readable_string() : arb_test::StaticCode
• print_string() : FINAL_TYPE< SEQTYPE >
• print_warning_internal() : Code , Location
• print_width : Column
• print_xsubs() : Package , xsubGenerator
• printCountAndMem() : PT_statistic
• printCountPercentAndMem() : PT_statistic
• printed : arb_test::StaticCode
• printf() : arb_test::StaticCode
• printGNUplot() : FINAL_TYPE< SEQTYPE > , PS_BitMap
• PrintMaybe() : PrintMaybe
• printOnlyMe() : PS_Node
• printProbes() : PS_Candidate
• PrintString() : FINAL_TYPE< SEQTYPE >
• printUserColorDefinitions() : ColorMap
• prior() : PosRange
• prmanz : arb_prm_struct
• prmlen : arb_prm_struct
• prmsmin : arb_prm_struct
• probe() : FINAL_TYPE< SEQTYPE > , ptnd_chain_count_mishits
• probe_combi_statistic() : probe_combi_statistic
• probe_index : probe
• probe_input_data() : probe_input_data
• probe_quality : awar_vars
• probe_tabs() : probe_tabs
• ProbeCandidates() : ProbeCandidates
• ProbeCollDisplay() : ProbeCollDisplay
• ProbeCommonSettings() : ProbeCommonSettings
• ProbeIterator() : ProbeIterator
• probeList() : ArbProbeCollection
• probelist : awar_vars
• ProbeMatch_impl() : ProbeMatch_impl
• ProbeMatchEventParam() : ProbeMatchEventParam
• ProbeMatchParser() : ProbeMatchParser
• ProbeMatchSettings() : ProbeMatchSettings
• ProbeOccurrence() : ProbeOccurrence
• probes_id : ArbPM_Context
• probeSeq : saiProbeData
• probeSpecies : saiProbeData
• ProbeValuation() : ProbeValuation
• process_events() : AW_root
• process_pending_events() : AW_root
• processing : Emblref
• prof_context : ALI_GLOBAL
• profile : ali_aligner_dellist , ali_aligner_last_cell
• prog_name : ALI_GLOBAL
• program_name : AW_root
• ProgramError() : ProgramError
• progress : EG2PS_data , link_tree_data
• project : gb_flag_types3
• PromptData() : PromptData
• props_db : ED4_root
• protein_at() : FailedAt
• Prototype() : Prototype
• protstruct : ED4_root
• protstruct_len : ED4_root
• prvt : AW_root
• ps : result_struct
• PS_BitMap() : PS_BitMap
• PS_BitMap_Counted() : FINAL_TYPE< SEQTYPE >
• PS_BitMap_Fast() : FINAL_TYPE< SEQTYPE >
• PS_BitSet() : PS_BitSet
• PS_BitSet_Fast() : FINAL_TYPE< SEQTYPE >
• PS_Candidate() : PS_Candidate
• PS_Database() : FINAL_TYPE< SEQTYPE >
• PS_FileBuffer() : PS_FileBuffer
• PS_Node() : PS_Node
• pseudo_hash : EG2PS_data
• pt : ALI_GLOBAL , ALI_PROFILE_CONTEXT
• PT_compressed() : PT_compressed
• pt_context : ALI_GLOBAL
• PT_dump_loc() : PT_dump_loc
• PT_FamilyFinder() : PT_FamilyFinder
• PT_FF_comImpl() : PT_FF_comImpl
• PT_selection() : PT_selection
• pt_server : ALI_GLOBAL , arb_params
• pt_server_alignment : SearchRelativeParams
• PT_statistic() : PT_statistic
• PT_Traversal() : PT_Traversal
• ptnd_chain_count_mishits() : ptnd_chain_count_mishits
• ptr : gb_data_base_type_union
• Ptr : InfoWindow
• ptserver : awar_vars
• PTserverConnection() : PTserverConnection
• push() : ALI_TSTACK< T > , AP_STACK< ELEM > , PARSIMONY_testenv< SEQTYPE > , SearchFIFO
• push_back() : JoinedLocation
• push_clip_scale() : AW_device
• push_node() : AP_main
• push_transaction() : AWT_canvas , GB_MAIN_TYPE
• push_whole_tree() : PARSIMONY_testenv< SEQTYPE >
• pushedFeatureLines : Importer
• put() : BufferPtr< T > , ConstStrArray , FINAL_TYPE< SEQTYPE > , GBS_strstruct , LineBuf , Memory , output , PS_FileBuffer , ResourceStack , SPOOLER
• put_artificial_part() : PartRegistry
• put_before() : ConstStrArray , FINAL_TYPE< SEQTYPE >
• put_char() : PS_FileBuffer
• put_entry() : MO_Liste
• put_int() : PS_FileBuffer
• put_long() : PS_FileBuffer
• put_part_from_complete_tree() : PartRegistry
• put_part_from_partial_tree() : PartRegistry
• put_SAI() : ALI_ARBDB
• put_sequence() : ALI_ARBDB
• put_sequence_string() : ALI_ARBDB
• put_Sonde() : Sondentopf
• put_uint() : PS_FileBuffer
• put_ulong() : PS_FileBuffer
• putColor() : SPOOLER
• putDefaultColor() : SPOOLER
• putfloat() : GBS_strstruct
• putlong() : GBS_strstruct