action.refresh_services = Refresh Services action.reset_services = Reset Services action.merge_results = Merge Results action.load_scheme = Load scheme action.save_scheme = Save scheme action.save_image = Save Image action.paste = Paste action.show_html_source = Show HTML Source action.print = Print... action.web_service = Web Service action.cancel_job = Cancel Job action.start_job = Start Job action.revert = Revert action.move_down = Move Down action.move_up = Move Up action.remove_return_datatype = Remove return datatype action.add_return_datatype = Add return datatype action.remove_input_parameter = Remove selected input parameter action.add_input_parameter = Add input parameter action.edit = Edit action.new = New action.open_file = Open file action.show_unconserved = Show Unconserved action.open_new_alignment = Open new alignment action.raise_associated_windows = Raise Associated Windows action.minimize_associated_windows = Minimize Associated Windows action.close_all = Close all action.load_project = Load Project action.save_project = Save Project action.quit = Quit action.expand_views = Expand Views action.gather_views = Gather Views action.page_setup = Page Setup... action.reload = Reload action.load = Load action.open = Open action.cancel = Cancel action.create = Create action.update = Update action.delete = Delete action.snapshot = Snapshot action.clear = Clear action.accept = Accept action.select_ddbb = --- Select Database --- action.undo = Undo action.redo = Redo action.reset = Reset action.remove_left = Remove left action.remove_right = Remove right action.remove_empty_columns = Remove Empty Columns action.remove_all_gaps = Remove All Gaps action.left_justify_alignment = Left Justify Alignment action.right_justify_alignment = Right Justify Alignment action.boxes = Boxes action.text = Text action.by_pairwise_id = By Pairwise Identity action.by_id = By Id action.by_length = By Length action.by_group = By Group action.unmark_as_reference = Unmark as Reference action.set_as_reference = Set as Reference action.remove = Remove action.remove_redundancy = Remove Redundancy... action.pairwise_alignment = Pairwise Alignment action.by_rna_helixes = By RNA Helices action.user_defined = User Defined... action.by_conservation = By Conservation action.wrap = Wrap action.show_gaps = Show Gaps action.show_hidden_markers = Show Hidden Markers action.find = Find action.undefine_groups = Undefine Groups action.create_groups = Create Groups action.make_groups_selection = Make Groups For Selection action.copy = Copy action.cut = Cut action.font = Font... action.scale_above = Scale Above action.scale_left = Scale Left action.scale_right = Scale Right action.by_tree_order = By Tree Order action.sort = Sort action.calculate_tree = Calculate Tree action.help = Help action.by_annotation = By Annotation... action.invert_sequence_selection = Invert Sequence Selection action.invert_column_selection = Invert Column Selection action.show = Show action.hide = Hide action.ok = OK action.set_defaults = Defaults action.create_group = Create Group action.remove_group = Remove Group action.edit_group = Edit Group action.border_colour = Border colour action.edit_new_group = Edit New Group action.hide_sequences = Hide Sequences action.sequences = Sequences action.ids = IDS action.ids_sequences = IDS and sequences action.reveal_all = Reveal All action.reveal_sequences = Reveal Sequences action.find_all = Find all action.find_next = Find next action.file = File action.view = View action.annotations = Annotations action.change_params = Change Parameters action.apply = Apply action.apply_threshold_all_groups = Apply threshold to all groups action.apply_all_groups = Apply to all Groups action.by_chain = By Chain action.by_sequence = By Sequence action.paste_annotations = Paste Annotations action.format = Format action.select = Select action.new_view = New View action.close = Close action.add = Add action.save_as_default = Save as default action.save_as = Save as... action.save = Save action.cancel_fetch = Cancel Fetch action.save_omit_hidden_columns = Save / Omit Hidden Regions action.change_font = Change Font action.change_font_tree_panel = Change Font (Tree Panel) action.colour = Colour action.calculate = Calculate action.select_all = Select all action.deselect_all = Deselect all action.invert_selection = Invert selection action.using_jmol = Using Jmol action.link = Link action.group_link = Group Link action.show_chain = Show Chain action.show_group = Show Group action.fetch_db_references = Fetch DB References action.view_flanking_regions = Show flanking regions label.view_flanking_regions = Show sequence data either side of the subsequences involved in this alignment label.str = Str: label.seq = Seq: label.structures_manager = Structures Manager label.nickname = Nickname: label.url = URL: label.input_file_url = Enter URL or Input File label.select_feature = Select feature: label.name = Name label.name_param = Name: {0} label.group = Group label.group_name = Group Name label.group_description = Group Description label.edit_group_name_description = Edit Group Name/Description label.colour = Colour: label.description = Description: label.start = Start: label.end = End: label.current_parameter_set_name = Current parameter set name: label.service_action = Service Action: label.post_url = POST URL: label.url_suffix = URL Suffix label.sequence_source = Sequence Source label.per_seq = per Sequence label.result_vertically_separable = Results are vertically separable label.amend = Amend label.undo_command = Undo {0} label.redo_command = Redo {0} label.principal_component_analysis = Principal Component Analysis label.average_distance_identity = Average Distance Using % Identity label.neighbour_joining_identity = Neighbour Joining Using % Identity label.treecalc_title = {0} Using {1} label.tree_calc_av = Average Distance label.tree_calc_nj = Neighbour Joining label.select_score_model = Select score model label.score_model_pid = % Identity label.score_model_blosum62 = BLOSUM62 label.score_model_pam250 = PAM 250 label.score_model_conservation = Physicochemical property conservation label.score_model_enhconservation = Physicochemical property conservation label.status_bar = Status bar label.out_to_textbox = Output to Textbox label.clustalx = Clustalx label.clustal = Clustal label.zappo = Zappo label.taylor = Taylor label.blc = BLC label.fasta = Fasta label.msf = MSF label.pfam = PFAM label.pileup = Pileup label.pir = PIR label.hydrophobicity = Hydrophobicity label.helix_propensity = Helix Propensity label.strand_propensity = Strand Propensity label.turn_propensity = Turn Propensity label.buried_index = Buried Index label.purine_pyrimidine = Purine/Pyrimidine label.percentage_identity = Percentage Identity label.blosum62 = BLOSUM62 label.blosum62_score = BLOSUM62 Score label.tcoffee_scores = T-Coffee Scores label.average_distance_bloslum62 = Average Distance Using BLOSUM62 label.neighbour_blosum62 = Neighbour Joining Using BLOSUM62 label.show_annotations = Show annotations label.hide_annotations = Hide annotations label.show_all_seq_annotations = Show sequence related label.hide_all_seq_annotations = Hide sequence related label.show_all_al_annotations = Show alignment related label.hide_all_al_annotations = Hide alignment related label.hide_all = Hide all label.add_reference_annotations = Add reference annotations label.find_tip = Search alignment, selection or sequence ids for a subsequence (ignoring gaps).
Accepts regular expressions - search Help for 'regex' for details. label.colour_text = Colour Text label.show_non_conversed = Show nonconserved label.overview_window = Overview Window label.none = None label.above_identity_threshold = Above Identity Threshold label.show_sequence_features = Show Sequence Features label.nucleotide = Nucleotide label.protein = Protein label.nucleotides = Nucleotides label.proteins = Proteins label.to_new_alignment = To New Alignment label.to_this_alignment = Add To This Alignment label.apply_colour_to_all_groups = Apply Colour To All Groups label.modify_identity_thereshold = Modify Identity Threshold... label.modify_conservation_thereshold = Modify Conservation Threshold... label.input_from_textbox = Input from textbox label.centre_column_labels = Centre column labels label.automatic_scrolling = Automatic Scrolling label.documentation = Documentation label.about = About... label.show_sequence_limits = Show Sequence Limits action.feature_settings = Feature Settings... label.feature_settings = Feature Settings label.all_columns = All Columns label.all_sequences = All Sequences label.selected_columns = Selected Columns label.selected_sequences = Selected Sequences label.except_selected_sequences = All except selected sequences label.all_but_selected_region = All but Selected Region (Shift+Ctrl+H) label.selected_region = Selected Region label.all_sequences_columns = All Sequences and Columns label.hide_insertions = Hide columns gapped for selection label.hide_selected_annotations = Hide selected annotations label.show_selected_annotations = Show selected annotations label.group_consensus = Group Consensus label.group_conservation = Group Conservation label.show_consensus_histogram = Show Consensus Histogram label.show_consensus_logo = Show Consensus Logo label.norm_consensus_logo = Normalise Consensus Logo label.apply_all_groups = Apply to all groups label.autocalculated_annotation = Autocalculated Annotation label.show_first = Show first label.show_last = Show last label.struct_from_pdb = Process secondary structure from PDB label.use_rnaview = Use RNAView for secondary structure label.autoadd_secstr = Add secondary structure annotation to alignment label.autoadd_temp = Add Temperature Factor annotation to alignment label.structure_viewer = Default structure viewer label.chimera_path = Path to Chimera program label.chimera_path_tip = Jalview will first try any path entered here, else standard installation locations.
Double-click to browse for file. label.invalid_chimera_path = Chimera path not found or not executable label.chimera_missing = Chimera structure viewer not found.
Please enter the path to Chimera (if installed),
or download and install UCSF Chimera. label.chimera_failed = Error opening Chimera - is it installed?\nCheck path in Preferences, Structure label.min_colour = Minimum Colour label.max_colour = Maximum Colour label.use_original_colours = Use Original Colours label.threshold_minmax = Threshold is min/max label.represent_group_with = Represent Group with {0} label.selection = Selection label.group_colour = Group Colour label.sequence = Sequence label.view_pdb_structure = View PDB Structure label.min = Min: label.max = Max: label.colour_by_label = Colour by label label.new_feature = New Feature label.match_case = Match Case label.view_alignment_editor = View in alignment editor label.labels = Labels label.output_values = Output Values... label.output_points = Output points... label.output_transformed_points = Output transformed points label.input_data = Input Data... label.nucleotide_matrix = Nucleotide matrix label.protein_matrix = Protein matrix label.show_bootstrap_values = Show Bootstrap Values label.show_distances = Show distances label.mark_unassociated_leaves = Mark Unassociated Leaves label.fit_to_window = Fit To Window label.newick_format = Newick Format label.select_newick_like_tree_file = Select a newick-like tree file label.colours = Colours label.view_mapping = View Mapping label.wireframe = Wireframe label.depthcue = Depthcue label.z_buffering = Z Buffering label.charge_cysteine = Charge & Cysteine label.all_chains_visible = All Chains Visible label.successfully_added_features_alignment = Successfully added features to alignment label.keyboard_editing_mode = Keyboard editing mode is {0} label.paste_features_annotations_Tcoffee_here = Paste your features / annotations / T-coffee score file here. label.removed_columns = Removed {0} columns. label.removed_empty_columns = Removed {0} empty columns. label.paste_newick_tree_file = Paste your Newick tree file here. label.order_by_params = Order by {0} label.html_content = {0} label.paste_pdb_file= Paste your PDB file here. label.paste_pdb_file_for_sequence = Paste PDB file for sequence {0} label.could_not_parse_newick_file = Could not parse Newick file\!\n {0} label.successfully_pasted_tcoffee_scores_to_alignment= Successfully pasted T-Coffee scores to alignment. label.failed_add_tcoffee_scores = Failed to add T-Coffee scores: label.successfully_pasted_annotation_to_alignment= Successfully pasted annotation to alignment. label.couldnt_parse_pasted_text_as_valid_annotation_feature_GFF_tcoffee_file = Couldn't parse pasted text as a valid annotation, feature, GFF, or T-Coffee score file label.successfully_pasted_alignment_file = Successfully pasted alignment file label.paste_your_alignment_file = Paste your alignment file here label.paste_your = Paste your label.finished_searching = Finished searching label.search_results= Search results {0} : {1} label.found_match_for = Found match for {0} label.font = Font: label.size = Size: label.style = Style: label.enter_redundancy_threshold = Enter the redundancy threshold label.calculating = Calculating.... label.modify_conservation_visibility = Modify conservation visibility label.colour_residues_above_occurence = Colour residues above % occurence label.set_this_label_text = set this label text label.sequences_from = Sequences from {0} label.successfully_loaded_file = Successfully loaded file {0} label.successfully_saved_to_file_in_format = Successfully saved to file: {0} in {1} format. label.copied_sequences_to_clipboard = Copied {0} sequences to clipboard. label.check_file_matches_sequence_ids_alignment = Check that the file matches sequence IDs in the alignment. label.problem_reading_tcoffee_score_file = Problem reading T-COFFEE score file label.source_to_target = {0} ... {1} label.per_sequence_only= Per-sequence only label.to_file = to File label.to_textbox = to Textbox label.jalview = Jalview label.csv_spreadsheet = CSV (Spreadsheet) label.status = Status label.channels = Channels label.channel_title_item_count = {0} ({1}) label.blog_item_published_on_date = {0} {1} label.select_das_service_from_table = Select a DAS service from the table to read a full description here. label.session_update = Session Update label.new_vamsas_session = New Vamsas Session action.load_vamsas_session = Load Vamsas Session... action.save_vamsas_session = Save Vamsas Session label.select_vamsas_session_opened_as_new_vamsas_session= Select a vamsas session to be opened as a new vamsas session. label.open_saved_vamsas_session = Open a saved VAMSAS session label.groovy_console = Groovy Console... label.lineart = Lineart label.dont_ask_me_again = Don't ask me again label.select_eps_character_rendering_style = Select EPS character rendering style label.invert_selection = Invert Selection label.optimise_order = Optimise Order label.seq_sort_by_score = Sequence sort by Score label.load_colours = Load Colours label.save_colours = Save Colours label.fetch_das_features = Fetch DAS Features label.selected_database_to_fetch_from = Selected {0} database {1} to fetch from {2} label.database_param = Database: {0} label.example = Example label.example_param = Example: {0} label.select_file_format_before_saving = You must select a file format before saving! label.file_format_not_specified = File format not specified label.alignment_contains_hidden_columns = The Alignment contains hidden regions (hidden sequences/columns).\nDo you want to save only the visible alignment? label.couldnt_save_file = Couldn't save file: {0} label.error_saving_file = Error Saving File label.remove_from_default_list = Remove from default list? label.remove_user_defined_colour = Remove user defined colour label.you_must_select_least_two_sequences = You must select at least 2 sequences. label.invalid_selection = Invalid Selection label.principal_component_analysis_must_take_least_four_input_sequences = Principal component analysis must take\nat least 4 input sequences. label.sequence_selection_insufficient = Sequence selection insufficient label.you_need_more_two_sequences_selected_build_tree = You need to have more than two sequences selected to build a tree! label.not_enough_sequences = Not enough sequences label.selected_region_to_tree_may_only_contain_residues_or_gaps = The selected region to create a tree may\nonly contain residues or gaps.\nTry using the Pad function in the edit menu,\nor one of the multiple sequence alignment web services. label.sequences_selection_not_aligned = Sequences in selection are not aligned label.sequences_must_be_aligned_before_creating_tree = The sequences must be aligned before creating a tree.\nTry using the Pad function in the edit menu,\n or one of the multiple sequence alignment web services. label.sequences_not_aligned = Sequences not aligned label.problem_reading_tree_file = Problem reading tree file label.possible_problem_with_tree_file = Possible problem with tree file label.select_at_least_three_bases_in_at_least_one_sequence_to_cDNA_translation = Please select at least three bases in at least one sequence in order to perform a cDNA translation. label.translation_failed = Translation Failed label.error_when_translating_sequences_submit_bug_report = Unfortunately, something went wrong when translating your sequences.\nPlease take a look in the Jalview java console\nand submit a bug report including the stacktrace. label.implementation_error = Implementation error: label.automatically_associate_pdb_files_with_sequences_same_name = Do you want to automatically associate the {0} PDB files with sequences in the alignment that have the same name? label.automatically_associate_pdb_files_by_name = Automatically Associate PDB files by name label.ignore_unmatched_dropped_files_info = Do you want to ignore the {0} files whose names did not match any sequence IDs ? label.ignore_unmatched_dropped_files = Ignore unmatched dropped files? label.view_name_original = Original label.enter_view_name = Enter View Name label.enter_label = Enter label label.enter_label_for_the_structure = Enter a label for the structure? label.pdb_entry_is_already_displayed = {0} is already displayed.\nDo you want to re-use this viewer ? label.map_sequences_to_visible_window = Map Sequences to Visible Window: {0} label.add_pdbentry_to_view = Do you want to add {0} to the view called\n{1}\n label.align_to_existing_structure_view = Align to existing structure view label.pdb_entries_couldnt_be_retrieved = The following pdb entries could not be retrieved from the PDB\:\n{0}\nPlease retry, or try downloading them manually. label.couldnt_load_file = Couldn't load file label.couldnt_find_pdb_id_in_file = Couldn't find a PDB id in the file supplied. Please enter an Id to identify this structure. label.no_pdb_id_in_file = No PDB Id in File label.couldnt_read_pasted_text = Couldn't read the pasted text {0} label.error_parsing_text = Error parsing text label.enter_local_das_source = Enter Nickname & URL of Local DAS Source label.you_can_only_edit_or_remove_local_das_sources = You can only edit or remove local DAS Sources! label.public_das_source = Public DAS source - not editable label.input_alignment_from_url = Input Alignment From URL label.input_alignment = Input Alignment label.couldnt_import_as_vamsas_session = Couldn't import {0} as a new vamsas session. label.vamsas_document_import_failed = Vamsas Document Import Failed label.couldnt_locate = Couldn't locate {0} label.url_not_found = URL not found label.no_link_selected = No link selected label.new_sequence_url_link = New sequence URL link label.cannot_edit_annotations_in_wrapped_view = Cannot edit annotations in wrapped view label.wrapped_view_no_edit = Wrapped view - no edit label.error_retrieving_data = Error Retrieving Data label.user_colour_scheme_must_have_name = User colour scheme must have a name label.no_name_colour_scheme = No name for colour scheme label.invalid_url = Invalid URL ! label.error_loading_file = Error loading file label.problems_opening_file = Encountered problems opening {0}!! label.file_open_error = File open error label.no_das_sources_selected_warn = No das sources were selected.\nPlease select some sources and\ntry again. label.no_das_sources_selected_title = No DAS Sources Selected label.colour_scheme_exists_overwrite = Colour scheme {0} exists.\nContinue saving colour scheme as {1}?" label.duplicate_scheme_name = Duplicate scheme name label.jalview_new_questionnaire = There is a new Questionnaire available. Would you like to complete it now ?\n label.jalview_user_survey = Jalview User Survey label.alignment_properties = Alignment Properties: {0} label.alignment_props = Alignment Properties label.input_cut_paste = Cut & Paste Input label.input_cut_paste_params = Cut & Paste Input - {0} label.alignment_output_command = Alignment output - {0} label.annotations = Annotations label.structure_options = Structure Options label.features = Features label.overview_params = Overview {0} label.paste_newick_file = Paste Newick file label.load_tree_from_file = From File - label.colour_by_annotation = Colour by Annotation label.selection_output_command = Selection output - {0} label.annotation_for_displayid =

Annotation for {0}

label.pdb_sequence_mapping = PDB - Sequence Mapping label.pca_details = PCA details label.redundancy_threshold_selection = Redundancy threshold selection label.user_defined_colours = User defined colours label.jalviewLite_release = JalviewLite - Release {0} label.jaview_build_date = Build date: {0} label.jalview_authors_1 = Authors: Jim Procter, Andrew Waterhouse, Mungo Carstairs, Tochukwu Ofoegbu, Lauren Lui, Jan Engelhardt, label.jalview_authors_2 = Natasha Sherstnev, Daniel Barton, Michele Clamp, James Cuff, Steve Searle, David Martin & Geoff Barton. label.jalview_dev_managers = Development managed by The Barton Group, University of Dundee, Scotland, UK. label.jalview_distribution_lists = For help, see the FAQ at www.jalview.org and/or join the jalview-discuss@jalview.org mailing list label.jalview_please_cite = If you use Jalview, please cite: label.jalview_cite_1_authors = Waterhouse, A.M., Procter, J.B., Martin, D.M.A, Clamp, M. and Barton, G. J. (2009) label.jalview_cite_1_title = Jalview Version 2 - a multiple sequence alignment editor and analysis workbench label.jalview_cite_1_ref = Bioinformatics doi: 10.1093/bioinformatics/btp033 label.right_click = Right click label.to_add_annotation = to add annotation label.alignment_has_no_annotations = Alignment has no annotations label.retrieving_pdb_data = Retrieving PDB data... label.label = Label label.no_features_added_to_this_alignment = No Features added to this alignment!! label.features_can_be_added_from_searches_1 = (Features can be added from searches or label.features_can_be_added_from_searches_2 = from Jalview / GFF features files) label.calculating_pca= Calculating PCA label.reveal_columns = Reveal Columns label.jalview_cannot_open_file = Jalview can't open file label.jalview_applet = Jalview applet label.loading_data = Loading data label.memory_stats = Total Free Memory: {0} MB; Max Memory: {1} MB; {2} % label.calculating_tree = Calculating tree label.state_queueing = queuing label.state_running = running label.state_complete = complete label.state_completed = finished label.state_job_cancelled = job cancelled!! label.state_job_error = job error! label.server_error_try_later = Server Error! (try later) label.error_loading_pdb_data = Error loading PDB data!! label.fetching_pdb_data = Fetching PDB data... label.structure_type = Structure type label.settings_for_type = Settings for {0} label.view_full_application = View in Full Application label.load_associated_tree = Load Associated Tree... label.load_features_annotations = Load Features/Annotations... label.export_features = Export Features... label.export_annotations = Export Annotations... label.to_upper_case = To Upper Case label.to_lower_case = To Lower Case label.toggle_case = Toggle Case label.edit_name_description = Edit Name/Description... label.create_sequence_feature = Create Sequence Feature... label.edit_sequence = Edit Sequence label.edit_sequences = Edit Sequences label.sequence_details = Sequence Details label.jmol_help = Jmol Help label.chimera_help = Chimera Help label.close_viewer = Close Viewer label.confirm_close_chimera = This will close Jalview''s connection to {0}.
Do you want to close the Chimera window as well? label.chimera_help = Chimera Help label.all = All label.sort_by = Sort alignment by label.sort_by_score = Sort by Score label.sort_by_density = Sort by Density label.sequence_sort_by_density = Sequence sort by Density label.sort_ann_by = Sort annotations by label.sort_annotations_by_sequence = Sort by sequence label.sort_annotations_by_label = Sort by label label.reveal = Reveal label.hide_columns = Hide Columns label.load_jalview_annotations = Load Jalview Annotations or Features File label.load_tree_file = Load a tree file label.retrieve_parse_sequence_database_records_alignment_or_selected_sequences = Retrieve and parse sequence database records for the alignment or the currently selected sequences label.standard_databases = Standard Databases label.fetch_embl_uniprot = Fetch from EMBL/EMBLCDS or Uniprot/PDB and any selected DAS sources label.reset_min_max_colours_to_defaults = Reset min and max colours to defaults from user preferences. label.align_structures_using_linked_alignment_views = Align structures using {0} linked alignment views label.connect_to_session = Connect to session {0} label.threshold_feature_display_by_score = Threshold the feature display by score. label.threshold_feature_no_thereshold = No Threshold label.threshold_feature_above_thereshold = Above Threshold label.threshold_feature_below_thereshold = Below Threshold label.adjust_thereshold = Adjust threshold label.toggle_absolute_relative_display_threshold = Toggle between absolute and relative display threshold. label.display_features_same_type_different_label_using_different_colour = Display features of the same type with a different label using a different colour. (e.g. domain features) label.select_colour_minimum_value = Select Colour for Minimum Value label.select_colour_maximum_value = Select Colour for Maximum Value label.open_new_jmol_view_with_all_structures_associated_current_selection_superimpose_using_alignment = Open a new structure viewer with all structures associated with the current selection and superimpose them using the alignment. label.open_url_param = Open URL {0} label.open_url_seqs_param = Open URL ({0}..) ({1} seqs) label.load_pdb_file_associate_with_sequence = Load a PDB file and associate it with sequence {0} label.reveal_hidden_columns = Reveal Hidden Columns with Right Mouse Button label.dark_colour = Dark Colour label.light_colour = Light Colour label.highlightnode = Left click to select leaves.
Double-click to invert leaves.
Right click to change colour. label.load_colour_scheme = Load colour scheme label.copy_format_from = Copy format from label.toggle_enabled_views = When enabled, allows many views to be selected. label.select_all_views = Select all views label.select_many_views = Select many views label.edit_notes_parameter_set = Click to edit the notes for this parameter set. label.open_local_file = Open local file label.enable_automatically_sort_alignment_when_open_new_tree = Enable this to automatically sort
the alignment when you open
a new tree. label.listen_for_selections = Listen for selections label.selections_mirror_selections_made_same_sequences_other_views = When selected, selections in this view will mirror
selections made on the same sequences in other views. label.toggle_sequence_visibility = Shift+H toggles sequence visiblity label.toggle_columns_visibility = Ctrl+H toggles column visiblity. label.toggles_visibility_hidden_selected_regions = H toggles visibility of hidden or selected regions label.rename_tab_eXpand_reGroup= Right-click to rename tab
Press X to eXpand tabs, G to reGroup. label.right_align_sequence_id = Right Align Sequence Id label.sequence_id_tooltip = Sequence ID Tooltip label.no_services = label.select_copy_raw_html = Select this if you want to copy raw html label.share_data_vamsas_applications = Share data with other vamsas applications label.connect_to = Connect to label.join_existing_vamsas_session = Join an existing vamsas session label.from_url = from URL label.any_trees_calculated_or_loaded_alignment_automatically_sort = When selected, any trees calculated or loaded onto the alignment will automatically sort the alignment label.sort_with_new_tree = Sort With New Tree label.from_textbox = from Textbox label.window = Window label.preferences = Preferences label.tools = Tools label.fetch_sequences = Fetch Sequences action.fetch_sequences = Fetch Sequences... label.stop_vamsas_session = Stop Vamsas Session label.collect_garbage = Collect Garbage label.show_memory_usage = Show Memory Usage label.show_java_console = Show Java Console label.show_jalview_news = Show Jalview News label.take_snapshot = Take snapshot label.monospaced_fonts_faster_to_render = Monospaced fonts are faster to render label.anti_alias_fonts = Anti-alias Fonts (Slower to render) label.monospaced_font= Monospaced label.quality = Quality label.maximize_window = Maximize Window label.conservation = Conservation label.consensus = Consensus label.histogram = Histogram label.logo = Logo label.non_positional_features = List Non-positional Features label.database_references = List Database References label.share_selection_across_views = Share selection across views label.scroll_highlighted_regions = Scroll to highlighted regions label.gap_symbol = Gap Symbol label.prot_alignment_colour = Protein Alignment Colour label.nuc_alignment_colour = Nucleotide Alignment Colour label.address = Address label.port = Port label.default_browser_unix = Default Browser (Unix) label.send_usage_statistics = Send usage statistics label.check_for_questionnaires = Check for questionnaires label.check_for_latest_version = Check for latest version label.url_linkfrom_sequence_id = URL link from Sequence ID label.use_proxy_server = Use a proxy server label.eps_rendering_style = EPS rendering style label.append_start_end = Append /start-end (/15-380) label.full_sequence_id = Full Sequence Id label.smooth_font = Smooth Font label.autocalculate_consensus = AutoCalculate Consensus label.pad_gaps = Pad Gaps label.pad_gaps_when_editing = Pad Gaps When Editing label.automatically_set_id_width = Automatically set ID width label.figure_id_column_width = Figure ID column width label.use_modeller_output = Use Modeller Output label.wrap_alignment = Wrap Alignment label.right_align_ids = Right Align Ids label.sequence_name_italics = Italic Sequence Ids label.open_overview = Open Overview label.default_colour_scheme_for_alignment = Default Colour Scheme for alignment label.annotation_shading_default = Annotation Shading Default label.default_minimum_colour_annotation_shading = Default Minimum Colour for annotation shading label.default_maximum_colour_annotation_shading = Default Maximum Colour for annotation shading label.visual = Visual label.connections = Connections label.output = Output label.editing = Editing label.das_settings = DAS Settings label.web_services = Web Services label.right_click_to_edit_currently_selected_parameter = Right click to edit currently selected parameter. label.let_jmol_manage_structure_colours = Let Jmol manage structure colours label.let_chimera_manage_structure_colours = Let Chimera manage structure colours label.marks_leaves_tree_not_associated_with_sequence = Marks leaves of tree not associated with a sequence label.index_web_services_menu_by_host_site = Index web services in menu by the host site label.option_want_informed_web_service_URL_cannot_be_accessed_jalview_when_starts_up = Check this option if you want to be informed
when a web service URL cannot be accessed by Jalview
when it starts up label.new_service_url = New Service URL label.edit_service_url = Edit Service URL label.delete_service_url = Delete Service URL label.details = Details label.options = Options label.parameters = Parameters label.available_das_sources = Available DAS Sources label.full_details = Full Details label.authority = Authority label.type = Type label.proxy_server = Proxy Server label.file_output = File Output label.select_input_type = Select input type label.set_options_for_type = Set options for type label.data_input_parameters = Data input parameters label.data_returned_by_service = Data returned by service label.rsbs_encoded_service = RSBS Encoded Service label.parsing_errors = Parsing errors label.simple_bioinformatics_rest_services = Simple Bioinformatics Rest Services label.web_service_discovery_urls = Web Service Discovery URLS label.input_parameter_name = Input Parameter name label.short_descriptive_name_for_service = Short descriptive name for service label.function_service_performs = What kind of function the service performs (e.g. alignment, analysis, search, etc). label.brief_description_service = Brief description of service label.url_post_data_service = URL to post data to service. Include any special parameters needed here label.optional_suffix = Optional suffix added to URL when retrieving results from service label.preferred_gap_character = Which gap character does this service prefer? label.gap_character = Gap character label.move_return_type_up_order= Move return type up order label.move_return_type_down_order= Move return type down order label.update_user_parameter_set = Update this existing user parameter set label.delete_user_parameter_set = Delete the currently selected user parameter set label.create_user_parameter_set = Create a new parameter set with the current settings. label.revert_changes_user_parameter_set = Undo all changes to the current parameter set label.start_job_current_settings = Start Job with current settings label.cancel_job_close_dialog = Close this dialog and cancel job label.input_output = Input/Output label.cut_paste = Cut'n'Paste label.adjusting_parameters_for_calculation = Adjusting parameters for existing Calculation label.2d_rna_structure_line = 2D RNA {0} (alignment) label.2d_rna_sequence_name = 2D RNA - {0} label.edit_name_and_description_current_group = Edit name and description of current group. label.view_structure_for = View structure for {0} label.view_all_structures = View all {0} structures. label.view_all_representative_structures = View all {0} representative structures. label.open_new_jmol_view_with_all_representative_structures_associated_current_selection_superimpose_using_alignment = Opens a new structure viewer with all representative structures\nassociated with the current selection\nsuperimposed with the current alignment. label.associate_structure_with_sequence = Associate Structure with Sequence label.from_file = From File label.enter_pdb_id = Enter PDB Id label.discover_pdb_ids = Discover PDB IDs label.text_colour = Text Colour action.set_text_colour = Text Colour... label.structure = Structure label.view_structure = View Structure label.view_protein_structure = View Protein Structure label.show_pdbstruct_dialog = 3D Structure Data... label.view_rna_structure = VARNA 2D Structure label.clustalx_colours = Clustalx colours label.above_identity_percentage = Above % Identity label.create_sequence_details_report_annotation_for = Annotation for {0} label.sequence_details_for = Sequence Details for {0} label.sequence_name = Sequence Name label.sequence_description = Sequence Description label.edit_sequence_name_description = Edit Sequence Name/Description label.spaces_converted_to_backslashes = Spaces have been converted to _ label.no_spaces_allowed_sequence_name = No spaces allowed in Sequence Name label.select_outline_colour = Select Outline Colour label.web_browser_not_found_unix = Unixers\: Couldn't find default web browser.\nAdd the full path to your browser in Preferences." label.web_browser_not_found = Web browser not found label.select_pdb_file_for = Select a PDB file for {0} label.html = HTML label.wrap = Wrap label.show_database_refs = Show Database Refs label.show_non_positional_features = Show Non-Positional Features label.save_png_image = Save As PNG Image label.load_tree_for_sequence_set = Load a tree for this sequence set label.export_image = Export Image label.vamsas_store = VAMSAS store label.translate_cDNA = Translate as cDNA label.reverse = Reverse label.reverse_complement = Reverse Complement label.linked_view_title = Linked CDS and protein view label.align = Align label.extract_scores = Extract Scores label.get_cross_refs = Get Cross-References label.sort_alignment_new_tree = Sort Alignment With New Tree label.add_sequences = Add Sequences label.new_window = New Window label.split_window = Split Window label.refresh_available_sources = Refresh Available Sources label.use_registry = Use Registry label.add_local_source = Add Local Source label.set_as_default = Set as Default label.show_labels = Show labels label.background_colour = Background Colour action.background_colour = Background Colour... label.associate_nodes_with = Associate Nodes With label.jalview_pca_calculation = Jalview PCA Calculation label.link_name = Link Name label.pdb_file = PDB file label.colour_with_jmol = Colour with Jmol label.colour_with_chimera = Colour with Chimera label.align_structures = Align Structures label.jmol = Jmol label.chimera = Chimera label.sort_alignment_by_tree = Sort Alignment By Tree label.mark_unlinked_leaves = Mark Unlinked Leaves label.associate_leaves_with = Associate Leaves With label.save_colour_scheme_with_unique_name_added_to_colour_menu = Save your colour scheme with a unique name and it will be added to the Colour menu label.case_sensitive = Case Sensitive label.lower_case_colour = Lower Case Colour label.index_by_host = Index by Host label.index_by_type = Index by Type label.enable_jabaws_services = Enable JABAWS Services label.display_warnings = Display Warnings label.move_url_up = Move URL Up label.move_url_down = Move URL Down label.add_sbrs_definition = Add a SBRS Definition label.edit_sbrs_definition = Edit SBRS Definition label.delete_sbrs_definition = Delete SBRS Definition label.your_sequences_have_been_verified = Your sequences have been verified against known sequence databases. Some of the ids have been\n altered, most likely the start/end residue will have been updated.\n Save your alignment to maintain the updated id.\n\n label.sequence_names_updated = Sequence names updated label.dbref_search_completed = DBRef search completed label.show_all_chains = Show all chains label.fetch_all_param = Fetch all {0} label.paste_new_window = Paste To New Window label.settings_for_param = Settings for {0} label.view_params = View {0} label.aacon_calculations = AACon Calculations label.aacon_settings = Change AACon Settings... tooltip.aacon_calculations = When checked, AACon calculations are updated automatically. tooltip.aacon_settings = Modify settings for AACon calculations. label.rnalifold_calculations = RNAAliFold Prediction label.rnalifold_settings = Change RNAAliFold settings... tooltip.rnalifold_calculations = When checked, RNA secondary structure predictions will be calculated for the alignment, and updated when edits are made. tooltip.rnalifold_settings = Modify settings for the RNAAliFold prediction. Use this to hide or show different results of the RNA calculation, and change RNA folding parameters. label.all_views = All Views label.align_sequences_to_existing_alignment = Align sequences to an existing alignment label.realign_with_params = Realign with {0} label.calcname_with_default_settings = {0} with Defaults label.action_with_default_settings = {0} with default settings label.edit_settings_and_run = Edit settings and run... label.view_and_change_parameters_before_alignment = View and change the parameters before alignment label.run_with_preset_params = Run {0} with preset label.view_and_change_parameters_before_running_calculation = View and change parameters before running calculation label.view_documentation = View documentation label.select_return_type = Select return type label.translation_of_params = Translation of {0} label.features_for_params = Features for - {0} label.annotations_for_params = Annotations for - {0} label.generating_features_for_params = Generating features for - {0} label.generating_annotations_for_params = Generating annotations for - {0} label.varna_params = VARNA - {0} label.sequence_feature_settings = Sequence Feature Settings label.pairwise_aligned_sequences = Pairwise Aligned Sequences label.original_data_for_params = Original Data for {0} label.points_for_params = Points for {0} label.transformed_points_for_params = Transformed points for {0} label.graduated_color_for_params = Graduated Feature Colour for {0} label.select_backgroud_colour = Select Background Colour label.invalid_font = Invalid Font label.separate_multiple_accession_ids = Enter one or more accession IDs separated by a semi-colon ";" label.separate_multiple_query_values = Enter one or more {0}s separated by a semi-colon ";" label.search_all = Enter one or more search values separated by a semi-colon ";" (Note: This Searches the entire database) label.replace_commas_semicolons = Replace commas with semi-colons label.parsing_failed_syntax_errors_shown_below_param = Parsing failed. Syntax errors shown below {0} label.parsing_failed_unrecoverable_exception_thrown_param = \nParsing failed. An unrecoverable exception was thrown\:\n {0} label.example_query_param = Example query: {0} label.enter_value_increase_conservation_visibility = Enter value to increase conservation visibility label.enter_percentage_identity_above_which_colour_residues = Enter % identity above which to colour residues label.wswublast_client_credits = To display sequence features an exact Uniprot id with 100% sequence identity match must be entered.\nIn order to display these features, try changing the names of your sequences to the ids suggested below.\n\nRunning WSWUBlast at EBI.\nPlease quote Pillai S., Silventoinen V., Kallio K., Senger M., Sobhany S., Tate J., Velankar S., Golovin A., Henrick K., Rice P., Stoehr P., Lopez R.\nSOAP-based services provided by the European Bioinformatics Institute.\nNucleic Acids Res. 33(1)\:W25-W28 (2005)); label.blasting_for_unidentified_sequence = BLASTing for unidentified sequences label.select_columns_containing = Select columns containing label.select_columns_not_containing = Select columns that do not contain label.hide_columns_containing = Hide columns containing label.hide_columns_not_containing = Hide columns that do not contain option.trim_retrieved_seqs = Trim retrieved sequences label.trim_retrieved_sequences = When the reference sequence is longer than the sequence that you are working with, only keep the relevant subsequences. label.use_sequence_id_1 = Use $SEQUENCE_ID$ or $SEQUENCE_ID=//=$ label.use_sequence_id_2 = \nto embed sequence id in URL label.ws_parameters_for = Parameters for {0} label.switch_server = Switch server label.choose_jabaws_server = Choose a server for running this service label.services_at = Services at {0} label.rest_client_submit = {0} using {1} label.fetch_retrieve_from =Retrieve from {0} label.fetch_retrieve_from_all_sources = Retrieve from all {0} sources in {1}
First is :{2} #label.feature_settings_click_drag = Click/drag feature types up or down to change render order.
Double click to select columns containing feature in alignment/current selection
Pressing Alt will select columns outside features rather than inside
Pressing Shift to modify current selection (rather than clear current selection)
Press CTRL or Command/Meta to toggle columns in/outside features
label.feature_settings_click_drag = Drag up or down to change render order.
Double click to select columns containing feature. label.transparency_tip = Adjust transparency to 'see through' feature colours. label.opt_and_params_further_details = see further details by right-clicking label.opt_and_params_show_brief_desc_image_link = Click to show brief description
Right click for further information. label.opt_and_params_show_brief_desc = Click to show brief description
label.adjusts_width_generated_eps_png = Adjusts the width of the generated EPS or PNG file to ensure even the longest sequence ID or annotation label is displayed label.manually_specify_width_left_column = Manually specify the width of the left hand column where sequence IDs and annotation labels will be rendered in exported alignment figures. This setting will be ignored if 'Automatically set ID width' is set label.job_created_when_checked = When checked, a job is created for every sequence in the current selection. label.when_checked_job_visible_region_and_results = When checked, a single job is created for the visible region and results mapped back onto their location in the alignment. Otherwise, a job would be created for every contiguous region visible in the alignment or current selection (e.g. a multiple alignment). label.flat_file_representation = Flat file representation of this rest service using the Really Simple Bioinformatics Service formalism label.result_of_parsing_rsbs = Results of parsing the RSBS representation label.user_preset = User Preset label.service_preset = Service Preset label.run_with_preset = Run {0} with preset label.view_service_doc_url = View {1} label.submit_sequence = Submit {0} {1} {2} {3} to
{4} action.by_title_param = By {0} label.alignment = Alignment label.secondary_structure_prediction = Secondary Structure Prediction label.sequence_database_search = Sequence Database Search label.analysis = Analysis label.protein_disorder = Protein Disorder label.source_from_db_source = Sources from {0} label.from_msname = from {0} label.superpose_with = Superpose with action.do = Do label.scale_label_to_column = Scale Label to Column label.add_new_row = Add New Row label.edit_label_description = Edit Label/Description label.hide_row = Hide This Row label.delete_row = Delete This Row label.show_all_hidden_rows = Show All Hidden Rows label.export_annotation = Export Annotation label.copy_consensus_sequence = Copy Consensus Sequence label.helix = Helix label.sheet = Sheet label.rna_helix = RNA Helix label.remove_annotation = Remove Annotation label.colour_by = Colour by... label.muscle_multiple_protein_sequence_alignment = Muscle Multiple Protein Sequence Alignment label.mafft_multiple_sequence_alignment = MAFFT Multiple Sequence Alignment label.clustalw_multiple_sequence_alignment = ClustalW Multiple Sequence Alignment label.jnet_secondary_structure_prediction = JNet Secondary Structure Prediction label.multiharmony = Multi-Harmony label.unable_start_web_service_analysis = Unable to start web service analysis label.job_couldnt_be_started_check_input = The Job couldn't be started. Please check your input, and the Jalview console for any warning messages. label.prompt_each_time = Prompt each time label.use_source = Use Source label.couldnt_save_project = Couldn't save project label.error_whilst_saving_current_state_to = Error whilst saving current state to {0} label.error_whilst_loading_project_from = Error whilst loading project from {0} label.couldnt_load_project = Couldn't load project label.pca_sequences_not_aligned = The sequences must be aligned before calculating PCA.\nTry using the Pad function in the edit menu,\nor one of the multiple sequence alignment web services. label.invalid_name_preset_exists = Invalid name - preset already exists. label.invalid_name = Invalid name label.set_proxy_settings = Please set up your proxy settings in the 'Connections' tab of the Preferences window label.proxy_authorization_failed = Proxy Authorization Failed label.internal_jalview_error = Internal Jalview Error label.secondary_structure_prediction_service_couldnt_be_located = The Secondary Structure Prediction Service named {0} at {1} couldn't be located. label.service_called_is_not_msa_service = The Service called \n{0}\nis not a \nMultiple Sequence Alignment Service\! label.msa_service_is_unknown = The Multiple Sequence Alignment Service named {0} is unknown label.service_called_is_not_seq_search_service = The Service called \n{0}\nis not a \nSequence Search Service\! label.seq_search_service_is_unknown = The Sequence Search Service named {0} is unknown label.feature_type = Feature Type label.display = Display label.service_url = Service URL label.copied_sequences = Copied sequences label.cut_sequences = Cut Sequences label.conservation_colour_increment = Conservation Colour Increment ({0}) label.percentage_identity_thereshold = Percentage Identity Threshold ({0}) label.error_unsupported_owwner_user_colour_scheme = Unsupported owner for User Colour scheme dialog label.save_alignment_to_file = Save Alignment to file label.save_features_to_file = Save Features to File label.save_annotation_to_file = Save Annotation to File label.no_features_on_alignment = No features found on alignment label.save_pdb_file = Save PDB File label.save_text_to_file = Save Text to File label.save_state = Save State label.restore_state = Restore State label.saving_jalview_project = Saving jalview project {0} label.loading_jalview_project = Loading jalview project {0} label.save_vamsas_document_archive = Save Vamsas Document Archive label.saving_vamsas_doc = Saving VAMSAS Document to {0} label.load_feature_colours = Load Feature Colours label.save_feature_colours = Save Feature Colour Scheme label.dataset_for = {0} Dataset for {1} label.select_startup_file = Select startup file label.select_default_browser = Select default web browser label.save_tree_as_newick = Save tree as newick file label.create_eps_from_tree = Create EPS file from tree label.create_png_from_tree = Create PNG image from tree label.save_colour_scheme = Save colour scheme label.edit_params_for = Edit parameters for {0} label.choose_filename_for_param_file = Choose a filename for this parameter file label.save_as_html = Save as HTML label.recently_opened = Recently Opened label.blasting_for_unidentified_sequence_jobs_running = BLASTing for unidentified sequences - {0} jobs running. label.tree_from = Tree from {0} label.webservice_job_title = {0} using {1} label.select_visible_region_of = selected {0} region of {1} label.visible = Visible label.select_unselect_visible_regions_from = select and unselected {0} regions from {1} label.visible_region_of = visible region of label.webservice_job_title_on = {0} using {1} on {2} label.updating_vamsas_session = Updating vamsas session label.loading_file = Loading File: {0} label.edit_params = Edit {0} error.not_implemented = Not implemented error.no_such_method_as_clone1_for = No such method as clone1 for {0} error.null_from_clone1 = Null from clone1! error.implementation_error_sortbyfeature = Implementation Error - sortByFeature method must be one of FEATURE_SCORE, FEATURE_LABEL or FEATURE_DENSITY. error.not_yet_implemented = Not yet implemented error.unknown_type_dna_or_pep = Unknown Type {0} - dna or pep are the only allowed values. error.implementation_error_dont_know_thereshold_annotationcolourgradient = Implementation error: don't know about threshold setting for current AnnotationColourGradient. error.implementation_error_embeddedpopup_not_null = Implementation error - embeddedPopup must be non-null error.invalid_colour_for_mycheckbox = Invalid color for MyCheckBox error.implementation_error_unrecognised_render_object_for_features_type = Implementation Error: Unrecognised render object {0} for features of type {1} error.implementation_error_unsupported_feature_colour_object = Implementation error: Unsupported feature colour object. error.invalid_separator_parameter = Invalid separator parameter - must be non-zero length error.alignment_cigararray_not_implemented = Alignment(CigarArray) not yet implemented error.weak_sequencei_equivalence_not_yet_implemented = Weak sequenceI equivalence not yet implemented. error.implementation_error_can_only_make_alignmnet_from_cigararray = Implementation Error - can only make an alignment view from a CigarArray of sequences. error.empty_view_cannot_be_updated = empty view cannot be updated. error.mismatch_between_number_of_sequences_in_block = Mismatch between number of sequences in block {0} ({1}) and the original view ({2}) error.padding_not_yet_implemented = Padding not yet implemented error.mismatch_between_visible_blocks_to_update_and_number_of_contigs_in_view = Mismatch between visible blocks to update and number of contigs in view (contigs=0,blocks={0}) error.unknown_seq_cigar_operation = Unknown SeqCigar operation {0} error.implementation_bug_parse_cigar_string = Implementation bug in parseCigarString error.implementation_error_invalid_operation_string = Implementation error. Invalid operation string. error.invalid_range_string = Invalid range string (must be zero or positive number) error.implementation_error_delete_range_out_of_bounds = Implementation Error: deleteRange out of bounds: start must be non-negative and less than end. error.implementation_error = Implementation error error.implementation_error_unknown_operation = Implementation Error! Unknown operation {0} error.implementation_error_unexpected_null_from_get_sequence_and_deletions = Implementation Error - unexpected null from getSequenceAndDeletions error.implementation_error_set_seq_null = Implementation Error - _setSeq(null,...) error.implementation_error_s = Implementation Error: _s= {0} error.implementation_error_seqcigar_possible = SeqCigar: Possible implementation error: sequence is longer than dataset sequence error.implmentation_bug_seq_null = Implementation Bug. Null seq error.implementation_bug_cigar_operation_list_range_list = Implementation Bug. Cigar Operation list!= range list error.not_yet_implemented_cigar_object_from_cigar_string = NOT YET Implemented: Constructing a Cigar object from a cigar string and a gapped sequence. error.implementation_bug_cigar_operation = Implementation Bug. Cigar Operation {0} {1} not one of {2}, {3}, or {4}. error.implementation_error_for_new_cigar = Implementation error for new Cigar(SequenceI) error.implementation_error_cigar_seq_no_operations = Implementation error: {0}th sequence Cigar has no operations. error.implementation_error_jmol_getting_data = Implementation error - Jmol seems to be still working on getting its data - report at http://issues.jalview.org/browse/JAL-1016 error.implementation_error_no_pdbentry_from_index = Implementation error - no corresponding pdbentry (for index {0}) to add sequences mappings to error.jmol_version_not_compatible_with_jalview_version = Jmol version {0} is not compatible with this version of Jalview. Report this problem at issues.jalview.org error.not_implemented_remove = Remove: Not implemented error.not_implemented_clone = Clone: Not implemented error.implementation_error_chimera_getting_data = Implementation error - Chimera seems to be still working on getting its data - report at http://issues.jalview.org/browse/JAL-1016 error.call_setprogressbar_before_registering_handler = call setProgressBar before registering the progress bar's handler. label.cancelled_params = Cancelled {0} error.implementation_error_cannot_show_view_alignment_frame = Implementation error: cannot show a view from another alignment in an AlignFrame. error.implementation_error_dont_know_about_thereshold_setting = Implementation error: don't know about threshold setting for current AnnotationColourGradient. error.eps_generation_not_implemented = EPS Generation not yet implemented error.png_generation_not_implemented = PNG Generation not yet implemented error.try_join_vamsas_session_another = Trying to join a vamsas session when another is already connected error.invalid_vamsas_session_id = Invalid vamsas session id error.implementation_error_cannot_create_groovyshell = Implementation Error. Cannot create groovyShell without Groovy on the classpath! label.groovy_support_failed = Jalview Groovy Support Failed label.couldnt_create_groovy_shell = Couldn't create the groovy Shell. Check the error log for the details of what went wrong. error.unsupported_version_calcIdparam = Unsupported Version for calcIdparam {0} error.implementation_error_cant_reorder_tree = Implementation Error: Can't reorder this tree. Not DefaultMutableTreeNode. error.invalid_value_for_option = Invalid value {0} for option {1} error.implementation_error_cannot_import_vamsas_doc = Implementation Error - cannot import existing vamsas document into an existing session, Yet! label.vamsas_doc_couldnt_be_opened_as_new_session = VAMSAS Document could not be opened as a new session - please choose another error.implementation_error_vamsas_operation_not_init = Impementation error! Vamsas Operations when client not initialised and connected error.jalview_no_connected_vamsas_session = Jalview not connected to Vamsas session error.implementation_error_cannot_recover_vamsas_object_mappings = IMPLEMENTATION ERROR: Cannot recover vamsas object mappings - no backup was made error.setstatus_called_non_existent_job_pane = setStatus called for non-existent job pane {0} error.implementation_error_cannot_find_marshaller_for_param_set =Implementation error: Can't find a marshaller for the parameter set error.implementation_error_old_jalview_object_not_bound =IMPLEMENTATION ERROR: old jalview object is not bound ! ({0}) error.implementation_error_vamsas_doc_class_should_bind_to_type = Implementation Error: Vamsas Document Class {0} should bind to a {1} (found a {2}) error.implementation_error_jalview_class_should_bind_to_type = Implementation Error: Jalview Class {0} should bind to a {1} (found a {2}) error.invalid_vamsas_rangetype_cannot_resolve_lists = Invalid vamsas RangeType - cannot resolve both lists of Pos and Seg from choice! error.implementation_error_maplist_is_null = Implementation error. MapList is null for initMapType. error.implementation_error_cannot_have_null_alignment = Implementation error: Cannot have null alignment property key error.implementation_error_null_fileparse = Implementation error. Null FileParse in copy constructor error.implementation_error_cannot_map_alignment_sequences = IMPLEMENTATION ERROR: Cannot map an alignment of sequences from different datasets into a single alignment in the vamsas document. error.implementation_error_cannot_duplicate_colour_scheme = Serious implementation error: cannot duplicate colourscheme {0} error.implementation_error_structure_selection_manager_null = Implementation error. Structure selection manager's context is 'null' exception.ssm_context_is_null = SSM context is null error.idstring_seqstrings_only_one_per_sequence = idstrings and seqstrings contain one string each per sequence error.cannot_have_mixed_length_replacement_vectors = Cannot have mixed length replacement vectors. Replacement vector for {0} is {1} strings long, and have already seen a {2} length vector. error.cannot_have_zero_length_vector_replacement_strings = Cannot have zero length vector of replacement strings - either 1 value or n values. error.implementation_error_multiple_single_sequence_prediction_jobs_not_supported = Implementation Error! Multiple single sequence prediction jobs are not yet supported error.implementation_error_invalid_msa_index_for_job =Implementation Error! Invalid msaIndex for JPredJob on parent MSA input object! error.implementation_error_startjob_called = Implementation error - StartJob(JpredJob) called on {0} error.multiple_jnet_subjob_merge_not_implemented = Multiple JNet subjob merging not yet implemented label.job_never_ran = Job never ran - input returned to user. error.implementation_error_minlen_must_be_greater_zero = Implementation error: minlen must be zero or more error.implementation_error_msawbjob_called = Implementation error - StartJob(MsaWSJob) called on a WSJobInstance {0} error.implementation_error_cannot_attach_ws_menu_entry = IMPLEMENTATION ERROR: cannot attach WS Menu Entry without service handle reference! error.parameter_migration_not_implemented_yet = Parameter migration not implemented yet error.implementation_error_cannot_set_jaba_option = Implementation error: cannot set Jaba Option to a value outside its allowed value range! error.implementation_error_valuetype_doesnt_support_jabaws_type = IMPLEMENTATION ERROR: jalview.ws.params.ValueConstrainI.ValueType does not support the JABAWS type : {0} error.cannot_create_jabaws_param_set = Cannot create a JabaWSParamSet from non-JabaWS parameters error.cannot_set_arguments_to_jabaws_param_set = Cannot set arguments to a JabaWSParamSet that are not JabaWS arguments error.implementation_error_runner_config_not_available = Implementation Error: Runner Config not available for a JABAWS service of type {0} ({1}) error.implementation_error_cannot_handle_jaba_param = Implementation Error: Cannot handle Jaba parameter object {0} error.implementation_error_attempt_to_delete_service_preset = Implementation error: Attempt to delete a service preset! error.implementation_error_cannot_locate_oldname_presetname = Implementation error: Can't locate either oldname ({0}) or presetName ({1}in the datastore!" error.implementation_error_jabaws_param_set_only_handled_by = Implementation error: JabaWsParamSets can only be handled by JabaParamStore error.cannot_set_source_file_for = Cannot set source file for {0} error.mismatch_service_instance_preset = Probable mismatch between service instance and preset! error.cannot_set_params_for_ws_preset = Cannot set Parameters for a Jaba Web service's preset error.implementation_error_can_only_instantiate_jaba_param_sets = Implementation error: Can only instantiate Jaba parameter sets error.no_aacon_service_found = No AACon service found error.implementation_error_couldnt_copy_value_constraint = Implementation error: could not copy ValueConstrain! error.couldnt_encode_as_utf8 = Couldn't encode {0} as UTF-8. error.tree_inputtype_not_yet_implemented = Tree InputType not yet implemented error.implementation_error_need_to_have_httpresponse = Implementation Error: need to have an HttpResponse to process error.dbrefsource_implementation_exception =DBRefSource Implementation Exception error.implementation_error_dbinstance_must_implement_interface = Implmentation Error - getDbInstances must be given a class that implements jalview.ws.seqfetcher.DbSourceProxy (was given{0}) error.implementation_error_must_init_dbsources =Implementation error. Must initialise dbSources label.view_controller_toggled_marked = {0} {1} columns containing features of type {2} across {3} sequence(s) label.toggled = Toggled label.marked = Marked label.not = not label.no_feature_of_type_found = No features of type {0} found. label.submission_params = Submission {0} label.empty_alignment_job = Empty Alignment Job label.add_new_sbrs_service = Add a new Simple Bioinformatics Rest Service label.edit_sbrs_entry = Edit Simple Bioinformatics Rest Service entry label.pca_recalculating = Recalculating PCA label.pca_calculating = Calculating PCA label.select_foreground_colour = Choose foreground colour label.select_colour_for_text = Select Colour for Text label.adjunst_foreground_text_colour_thereshold = Adjust Foreground Text Colour Threshold label.select_subtree_colour = Select Sub-Tree Colour label.create_new_sequence_features = Create New Sequence Feature(s) label.amend_delete_features = Amend/Delete Features for {0} exception.out_of_bounds_for_file = Out of bounds for file: i={0}, Final Buffer: i0={1} iend={2} exception.null_string_given_to_regex_search = Null String Given to Regex.search exception.null_string_like_given_to_regex_search = Null StringLike Given to Regex.search exception.null_string_given_to_regex_reverse_search = Null String Given to Regex.reverseSearch exception.null_string_like_given_to_regex_reverse_search = Null StringLike Given to Regex.reverseSearch exception.null_string_like_given_to_regex_search_from = Null String Given to Regex.searchFrom exception.null_string_like_given_to_regex_search_region = Null String Given to Regex.searchRegion exception.replace_null_regex_pointer = Replacer has null Regex pointer exception.bad_pattern_to_regex_perl_code = bad pattern to Regex.perlCode: {0} exception.no_stub_implementation_for_interface = There is no stub implementation for the interface: {0} exception.cannot_set_endpoint_address_unknown_port = Cannot set Endpoint Address for Unknown Port {0} exception.querying_matching_opening_parenthesis_for_non_closing_parenthesis = Querying matching opening parenthesis for non-closing parenthesis character {0} exception.mismatched_unseen_closing_char = Mismatched (unseen) closing character {0} exception.mismatched_closing_char = Mismatched closing character {0} exception.mismatched_opening_char = Mismatched opening character {0} at {1} exception.invalid_datasource_couldnt_obtain_reader = Invalid datasource. Could not obtain Reader exception.index_value_not_in_range = {0}: Index value {1} not in range [0..{2}] exception.unterminated_cigar_string = Unterminated cigar string exception.unexpected_operation_cigar_string_pos = Unexpected operation {0} in cigar string (position {1} in {2} exception.couldnt_parse_responde_from_annotated3d_server = Couldn't parse response from Annotate3d server exception.application_test_npe = Application test: throwing an NullPointerException It should arrive at the console exception.overwriting_vamsas_id_binding = Overwriting vamsas id binding exception.overwriting_jalview_id_binding = Overwriting jalview id binding error.implementation_error_unknown_file_format_string = Implementation error: Unknown file format string exception.failed_to_resolve_gzip_stream = Failed to resolve GZIP stream exception.problem_opening_file_also_tried = Problem opening {0} (also tried {1}) : {2} exception.problem_opening_file = Problem opening {0} : {1} exception.failed_to_read_data_from_source = Failed to read data from source: {0} exception.no_init_source_stream = Unitialised Source Stream exception.invalid_source_stream = Invalid Source Stream: {0} error.implementation_error_reset_called_for_invalid_source = Implementation Error: Reset called for invalid source. exception.number_of_residues_in_query_sequence_differ_from_prediction = Number of residues in {0} supposed query sequence ({1}\n{2})\ndiffer from number of prediction sites in prediction ({3}) label.mapped = mapped exception.jpredconcide_entry_has_unexpected_number_of_columns = JPredConcise: Entry ({0}) has an unexpected number of columns exception.couldnt_parse_concise_annotation_for_prediction = Couldn't parse concise annotation for prediction profile.\n{0} exception.newfile = NewickFile\: {0}\n label.no_tree_read_in = No Tree read in exception.rnaml_couldnt_access_datasource = Couldn't access datasource ({0}) exception.ranml_couldnt_process_data = Couldn't process data as RNAML file ({0}) exception.ranml_invalid_file = Invalid RNAML file ({0}) exception.ranml_problem_parsing_data = Problem parsing data as RNAML ({0}) exception.pfam_no_sequences_found = No sequences found (PFAM input) exception.stockholm_invalid_format = This file is not in valid STOCKHOLM format: First line does not contain '# STOCKHOLM' exception.couldnt_parse_sequence_line = Could not parse sequence line: {0} exception.error_parsing_line = Error parsing {0} exception.unknown_annotation_detected = Unknown annotation detected: {0} {1} exception.couldnt_store_sequence_mappings = Couldn't store sequence mappings for {0} exception.matrix_too_many_iteration = Too many iterations in {0} (max is {1}) exception.browser_not_found = Exception in finding browser: {0} exception.browser_unable_to_locate = Unable to locate browser: {0} exception.invocation_target_exception_creating_aedesc = InvocationTargetException while creating AEDesc: {0} exception.illegal_access_building_apple_evt= IllegalAccessException while building AppleEvent: {0} exception.instantiation_creating_aedesc = InstantiationException while creating AEDesc: {0} exception.unable_to_launch_url = Unable to launch URL: {0} exception.unable_to_create_internet_config = Unable to create an Internet Config instance: {0} exception.invocation_target_calling_url = InvocationTargetException while calling openURL: {0} exception.illegal_access_calling_url = IllegalAccessException while calling openURL: {0} exception.interrupted_launching_browser = InterruptedException while launching browser: {0} exception.das_source_doesnt_support_sequence_command = Source {0} does not support the sequence command. exception.invalid_das_source = Invalid das source: {0} exception.ebiembl_retrieval_failed_on = EBI EMBL XML retrieval failed on {0}:{1} label.no_embl_record_found = # No EMBL record retrieved for {0}:{1} label.embl_successfully_parsed = # Successfully parsed the {0} queries into an Alignment exception.no_pdb_records_for_chain = No PDB Records for {0} chain {1} exception.unexpected_handling_rnaml_translation_for_pdb = Unexpected exception when handling RNAML translation of PDB data exception.couldnt_recover_sequence_properties_for_alignment = Couldn't recover sequence properties for alignment exception.unknown_format_for_file = Unknown format {0} for file \: \n{1} label.remove_gaps = Remove Gaps exception.couldnt_recover_sequence_props_for_jnet_query = Couldn't recover sequence properties for JNet Query sequence! exception.server_timeout_try_later = Server timed out - try again later\n exception.web_service_returned_null_try_later= Server at {0} returned null object, it probably cannot be contacted. Try again later. exception.cannot_contact_service_endpoint_at = Cannot contact service endpoint at {0} error.implementation_error_cannot_find_service_url_in_given_set = Implementation error: Cannot find service url in the given url set! error.implementation_error_cannot_find_service_url_in_given_set_param_store = Implementation error: Cannot find service url in the given url set for this service parameter store ({0}} exception.jobsubmission_invalid_params_set = Invalid parameter set. Check Jalview implementation exception.notvaliddata_group_contains_less_than_min_seqs = Group contains less than {0} sequences. exception.outofmemory_loading_pdb_file = Out of memory loading PDB File exception.eps_coudnt_write_output_file = Could not write to the output file: {0} exception.eps_method_not_supported = Method not currently supported by EpsGraphics2D version {0} exception.eps_unable_to_get_inverse_matrix = Unable to get inverse of matrix: {0} warn.job_cannot_be_cancelled_close_window = This job cannot be cancelled.\nJust close the window. warn.service_not_supported = Service not supported! warn.input_is_too_big = Input is too big! warn.invalid_job_param_set = Invalid job parameter set! warn.oneseq_msainput_selection = The current selection only contains a single sequence. Do you want to submit all sequences for alignment instead ? info.job_couldnt_be_run_server_doesnt_support_program = Job could not be run because the server doesn't support this program.\n{0} info.job_couldnt_be_run_exceeded_hard_limit = Job could not be run because it exceeded a hard limit on the server.\n{0} info.job_couldnt_be_run_incorrect_param_setting = Job could not be run because some of the parameter settings are not supported by the server.\n{0}\nPlease check to make sure you have used the correct parameter set for this service\!\n info.no_jobs_ran = No jobs ran info.failed_to_submit_prediction = Failed to submit the prediction\:\n{0} {1} info.invalid_jnet_job_result_data ={0}\n{1}\nInvalid JNet job result data\!\n{2} info.failed_to_submit_sequences_for_alignment = Failed to submit sequences for alignment.\nIt is most likely that there is a problem with the server.\nJust close the window\n info.alignment_object_method_notes = \nAlignment Object Method Notes\n info.server_exception = \n{0} Server exception\!\n{1} info.invalid_msa_input_mininfo = Need at least two sequences with at least 3 residues each, with no hidden regions between them. info.invalid_msa_notenough = Not enough sequence data to align status.processing_commandline_args = Processing commandline arguments... status.das_features_being_retrived = DAS features being retrieved... status.searching_for_sequences_from = Searching for sequences from {0} status.finished_searching_for_sequences_from = Finished searching for sequences from {0} label.eps_file = EPS file label.png_image = PNG image status.saving_file = Saving {0} status.export_complete = {0} Export completed. status.fetching_pdb = Fetching PDB {0} status.refreshing_news = Refreshing news status.importing_vamsas_session_from = Importing VAMSAS session from {0} status.opening_params = Opening {0} status.waiting_sequence_database_fetchers_init = Waiting for Sequence Database Fetchers to initialise status.init_sequence_database_fetchers = Initialising Sequence Database Fetchers status.fetching_sequence_queries_from = Fetching {0} sequence queries from {1} status.finshed_querying = Finished querying status.parsing_results = Parsing results. status.processing = Processing... status.refreshing_web_service_menus = Refreshing Web Service Menus status.collecting_job_results = Collecting job results. status.fetching_das_sequence_features = Fetching DAS Sequence Features status.no_das_sources_active = No DAS Sources Active status.das_feature_fetching_cancelled = DAS Feature Fetching Cancelled status.das_feature_fetching_complete = DAS Feature Fetching Complete status.fetching_db_refs = Fetching db refs status.loading_cached_pdb_entries = Loading Cached PDB Entries status.searching_for_pdb_structures = Searching for PDB Structures status.opening_file = opening file status.colouring_chimera = Colouring Chimera label.font_doesnt_have_letters_defined = Font doesn't have letters defined\nso cannot be used\nwith alignment data label.font_too_small = Font size is too small label.error_loading_file_params = Error loading file {0} label.error_loading_jalview_file = Error loading Jalview file warn.out_of_memory_when_action = Out of memory when {0}\!\!\nSee help files for increasing Java Virtual Machine memory. warn.out_of_memory_loading_file = Out of memory loading file {0}\!\!\nSee help files for increasing Java Virtual Machine memory. label.out_of_memory = Out of memory label.invalid_id_column_width = Invalid ID Column width warn.user_defined_width_requirements = The user defined width for the\nannotation and sequence ID columns\nin exported figures must be\nat least 12 pixels wide. label.couldnt_create_sequence_fetcher = Couldn't create SequenceFetcher warn.couldnt_create_sequence_fetcher_client = Could not create the sequence fetcher client. Check error logs for details. warn.server_didnt_pass_validation = Service did not pass validation.\nCheck the Jalview Console for more details. warn.url_must_contain = Sequence URL must contain $SEQUENCE_ID$ or a regex $SEQUENCE_ID=//=$ warn.urls_not_contacted = URLs that could not be contacted warn.urls_no_jaba = URLs without any JABA Services info.validate_jabaws_server = Validate JabaWS Server ?\n(Look in console output for results) label.test_server = Test Server? info.you_want_jalview_to_find_uniprot_accessions = Do you want Jalview to find\nUniprot Accession ids for given sequence names? label.find_uniprot_accession_ids = Find Uniprot Accession Ids label.new_sequence_fetcher = New Sequence Fetcher label.additional_sequence_fetcher = Additional Sequence Fetcher label.select_database_retrieval_source = Select Database Retrieval Source label.overwrite_existing_file = Overwrite existing file? label.file_already_exists = File exists label.edit_jabaws_url = Edit JABAWS URL label.add_jabaws_url = Add new JABAWS URL label.news_from_jalview = News from http://www.jalview.org label.cut_paste_alignmen_file = Cut & Paste Alignment File label.enter_redundancy_thereshold = Enter the redundancy threshold label.select_dark_light_set_thereshold = Select a dark and light text colour, then set the threshold to
switch between colours, based on background colour label.select_feature_colour = Select Feature Colour label.delete_all = Delete all sequences warn.delete_all = Deleting all sequences will close the alignment window.
Confirm deletion or Cancel. label.add_annotations_for = Add annotations for action.choose_annotations = Choose Annotations... label.choose_annotations = Choose Annotations label.find = Find label.invalid_search = Search string invalid error.invalid_regex = Invalid regular expression label.ignore_gaps_consensus = Ignore Gaps In Consensus label.show_group_histogram = Show Group Histogram label.show_group_logo = Show Group Logo label.normalise_group_logo = Normalise Group Logo label.show_histogram = Show Histogram label.show_logo = Show Logo label.normalise_logo = Normalise Logo label.no_colour_selection_in_scheme = Please make a colour selection before applying colour scheme label.no_colour_selection_warn = Error saving colour scheme label.open_split_window? = Would you like to open as a split window, with cDNA and protein linked? label.open_split_window = Open split window label.no_mappings = No mappings found action.no = No action.yes = Yes label.for = for label.select_by_annotation = Select/Hide Columns by Annotation action.select_by_annotation = Select/Hide Columns by Annotation... label.threshold_filter = Threshold Filter action.hide = Hide action.select = Select label.alpha_helix = Alpha Helix label.beta_strand = Beta Strand label.turn = Turn label.select_all = Select All label.structures_filter = Structures Filter label.search_filter = Search Filter label.description = Description label.include_description= Include Description action.back = Back label.hide_insertions = Hide Insertions label.mark_as_representative = Mark as representative label.open_jabaws_web_page = Open JABAWS web page label.opens_the_jabaws_server_homepage = Opens the JABAWS server's homepage in web browser label.pdb_sequence_fetcher = PDB Sequence Fetcher label.result = result label.results = results label.structure_chooser = Structure Chooser label.select = Select : label.invert = Invert label.select_pdb_file = Select PDB File info.select_filter_option = Select Filter Option/Manual Entry info.associate_wit_sequence = Associate with Sequence label.search_result = Search Result label.found_structures_summary = Found Structures Summary label.configure_displayed_columns = Customise Displayed Options label.start_jalview = Start Jalview label.biojs_html_export = BioJS label.scale_as_cdna = Scale protein residues to codons label.scale_protein_to_cdna = Scale Protein to cDNA label.scale_protein_to_cdna_tip = Make protein residues same width as codons in split frame views info.select_annotation_row = Select Annotation Row info.enter_search_text_here = Enter Search Text Here info.enter_search_text_to_enable = Enter Search Text to Enable info.search_in_annotation_label = Search in {0} Label info.search_in_annotation_description = Search in {0} Description info.change_threshold_mode_to_enable = Change Threshold Mode to Enable label.couldnt_read_data = Couldn't read data label.embbed_biojson = Embed BioJSON to HTML export action.export_groups = Export Groups action.export_annotations = Export Annotations action.export_hidden_columns = Export Hidden Columns action.export_hidden_sequences = Export Hidden Sequences action.export_features = Export Features label.export_settings = Export Settings label.save_as_biojs_html = Save as BioJs HTML label.pdb_web-service_error = PDB Web-service Error label.structure_chooser_manual_association = Structure Chooser - Manual association label.structure_chooser_filter_time = Structure Chooser - Filter time ({0}) label.structure_chooser_no_of_structures = Structure Chooser - {0} Found ({1}) info.no_pdb_entry_found_for = No PDB entry found for {0} exception.unable_to_detect_internet_connection = Jalview is unable to detect an internet connection exception.fts_rest_service_no_longer_available = {0} rest services no longer available! exception.resource_not_be_found = The requested resource could not be found exception.fts_server_error = There seems to be an error from the {0} server exception.fts_server_unreachable = Jalview is unable to reach the {0} server. \nPlease ensure that you are connected to the internet and try again. label.nw_mapping = Needleman & Wunsch Alignment label.sifts_mapping = SIFTs Mapping label.mapping_method = Sequence \u27f7 Structure mapping method status.waiting_for_user_to_select_output_file = Waiting for user to select {0} file status.cancelled_image_export_operation = Cancelled {0} export operation info.error_creating_file = Error creating {0} file exception.outofmemory_loading_mmcif_file = Out of memory loading mmCIF File label.run_groovy = Run Groovy console script label.run_groovy_tip = Run the script in the Groovy console over this alignment label.couldnt_run_groovy_script = Failed to run Groovy script label.uniprot_sequence_fetcher = UniProt Sequence Fetcher action.next_page= >> action.prev_page= << label.next_page_tooltip=Next Page label.prev_page_tooltip=Previous Page exception.bad_request=Bad request. There is a problem with your input. exception.service_not_available=Service not available. The server is being updated, try again later.