JAL-1355 correct 'thereshold' to 'threshold' in message keys

[jalview.git] / resources / lang / Messages.properties

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.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.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.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\: = Name:
label.name_param = Name: {0}
label.group = Group
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.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).<br>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_threshold = Modify Identity Threshold...
label.modify_conservation_threshold = 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_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.<br>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.<br/>Please enter the path to Chimera (if installed),<br/>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 = <html>{0}</html>
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.</font></html>
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.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 = <html>Do you want to <em>ignore</em> the {0} files whose names did not match any sequence IDs ?</html>
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 = <p><h2>Annotation for {0} </h2></p><p>
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.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_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}.<br>Do you want to close the Chimera window as well?
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_threshold = No Threshold
label.threshold_feature_above_threshold = Above Threshold
label.threshold_feature_below_threshold = Below Threshold
label.adjust_threshold = 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_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.<br>Double-click to invert leaves.<br>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<br>the alignment when you open<br> 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<br>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 <br> 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 = <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<br>when a web service URL cannot be accessed by Jalview<br>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.from_file = From File
label.enter_pdb_id = Enter PDB Id (or pdbid:chaincode)
label.text_colour = Text Colour
action.set_text_colour = Text Colour...
label.structure = 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.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
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 $SEQUENCE_ID=/<regex>/=$
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}</html>
label.fetch_retrieve_from_all_sources = Retrieve from all {0} sources in {1}<br>First is :{2}<html> 
label.feature_settings_click_drag = Drag up or down to change render order.<br/>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 = <html>Click to show brief description<br><img src="{0}"/> Right click for further information.</html> 
label.opt_and_params_show_brief_desc = <html>Click to show brief description<br></html>
label.adjusts_width_generated_eps_png = <html>Adjusts the width of the generated EPS or PNG file to ensure even the longest sequence ID or annotation label is displayed</html>
label.manually_specify_width_left_column = <html>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</html>
label.job_created_when_checked = <html>When checked, a job is created for every sequence in the current selection.</html>
label.when_checked_job_visible_region_and_results = <html>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).</html>
label.flat_file_representation = <html>Flat file representation of this rest service using the Really Simple Bioinformatics Service formalism</html>
label.result_of_parsing_rsbs = <html>Results of parsing the RSBS representation</html>
label.user_preset = User Preset
label.service_preset = Service Preset
label.run_with_preset = Run {0} with preset
label.view_service_doc_url = <html>View <a href="{0}">{1}</a></html>
action.by_title_param = By {0}
label.source_from_db_source = Sources from {0}
label.from_msname = from {0}
label.superpose_with = Superpose with
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_threshold = 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.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_threshold_annotationcolourgradient = Implementation error: don't know about threshold setting for current AnnotationColourGradient.
error.invalid_separator_parameter = Invalid separator parameter - must be non-zero length
error.alignment_cigararray_not_implemented = Alignment(CigarArray) not yet implemented
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_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.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_threshold_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
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.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 {2} features of type {3}  across {4} sequence(s)
label.toggled = Toggled
label.marked = Marked
label.containing = containing
label.not_containing = not containing
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_threshold = 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.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.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.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}
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 $SEQUENCE_ID=/<regex>/=$
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_threshold = Enter the redundancy threshold
label.select_dark_light_set_threshold = <html><i>Select a dark and light text colour, then set the threshold to<br>switch between colours, based on background colour</i></html>
label.select_feature_colour = Select Feature Colour
label.delete_all = Delete all sequences
warn.delete_all = <html>Deleting all sequences will close the alignment window.<br>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
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
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.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.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.
status.launching_3d_structure_viewer = Launching 3D Structure viewer...
status.fetching_3d_structures_for_selected_entries = Fetching 3D Structures for selected entries...
status.fetching_dbrefs_for_sequences_without_valid_refs = Fetching db refs for {0} sequence(s) without valid db ref required for SIFTS mapping
status.fetching_3d_structures_for = Fetching 3D Structure for {0}
status.obtaining_mapping_with_sifts = Obtaining mapping with SIFTS
status.obtaining_mapping_with_nw_alignment = Obtaining mapping with NW alignment
status.exporting_alignment_as_x_file = Exporting alignment as {0} file
label.column = Column
label.cant_map_cds = Unable to map CDS to protein\nCDS missing or incomplete
label.operation_failed = Operation failed