X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=blobdiff_plain;f=resources%2Flang%2FMessages.properties;h=ae41ec762ae0b89f69a4f280ff5bae73fdb018d9;hp=ac6cdc4655645366c7bef808eff18c4ced8b6987;hb=231db849eac9ad8e23158e2285e76bd519829a84;hpb=8f992e8f0ecac1cfb85903ee8dce8f3dbf73d323 diff --git a/resources/lang/Messages.properties b/resources/lang/Messages.properties index ac6cdc4..ae41ec7 100644 --- a/resources/lang/Messages.properties +++ b/resources/lang/Messages.properties @@ -32,6 +32,7 @@ action.load_project = Load Project action.save_project = Save Project action.save_project_as = Save Project as... action.quit = Quit +label.quit_jalview = Quit Jalview? action.expand_views = Expand Views action.gather_views = Gather Views action.page_setup = Page Setup... @@ -117,12 +118,11 @@ action.paste_annotations = Paste Annotations action.format = Format action.select = Select action.new_view = New View +action.new_structure_view_with = Open new structure view with {0} 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 @@ -133,6 +133,8 @@ tooltip.select_highlighted_columns = Press B to mark highlighted columns, Ctrl-( action.deselect_all = Deselect all action.invert_selection = Invert selection action.using_jmol = Using Jmol +action.undo_changes_to_feature_settings = Undo all unapplied changes to feature settings +action.undo_changes_to_feature_settings_and_close_the_dialog = Undo all pending changes and close the feature settings dialog action.link = Link action.group_link = Group Link action.show_chain = Show Chain @@ -141,7 +143,6 @@ 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.url\: = URL: label.input_file_url = Enter URL or Input File @@ -163,7 +164,6 @@ 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 @@ -188,21 +188,22 @@ label.out_to_textbox = Output to Textbox label.occupancy = Occupancy # delete Clustal - use FileFormat name instead label.clustal = Clustal -# label.colourScheme_ as in JalviewColourScheme +# label.colourScheme_ as in JalviewColourScheme, spaces removed label.colourScheme_clustal = Clustalx label.colourScheme_blosum62 = BLOSUM62 Score -label.colourScheme_%_identity = Percentage Identity +label.colourScheme_%identity = Percentage Identity label.colourScheme_zappo = Zappo label.colourScheme_taylor = Taylor label.colourScheme_hydrophobic = Hydrophobicity -label.colourScheme_helix_propensity = Helix Propensity -label.colourScheme_strand_propensity = Strand Propensity -label.colourScheme_turn_propensity = Turn Propensity -label.colourScheme_buried_index = Buried Index +label.colourScheme_helixpropensity = Helix Propensity +label.colourScheme_strandpropensity = Strand Propensity +label.colourScheme_turnpropensity = Turn Propensity +label.colourScheme_buriedindex = Buried Index label.colourScheme_purine/pyrimidine = Purine/Pyrimidine label.colourScheme_nucleotide = Nucleotide -label.colourScheme_t-coffee_scores = T-Coffee Scores -label.colourScheme_rna_helices = By RNA Helices +label.colourScheme_t-coffeescores = T-Coffee Scores +label.colourScheme_rnahelices = By RNA Helices +label.colourScheme_sequenceid = Sequence ID Colour label.blc = BLC label.fasta = Fasta label.msf = MSF @@ -230,6 +231,7 @@ label.nucleotide = Nucleotide label.protein = Protein label.nucleotides = Nucleotides label.proteins = Proteins +label.CDS = CDS 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 @@ -267,11 +269,11 @@ 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.double_click_to_browse = Double-click to browse for file -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.viewer_path = Path to {0} program +label.viewer_path_tip = Jalview will first try any path entered here, else standard installation locations.
Double-click to browse for file. +label.invalid_viewer_path = Path not found or not executable +label.viewer_missing = Structure viewer not found.
Please enter the path to the executable (if installed),
or download and install the program. +label.open_viewer_failed = Error opening {0} - is it installed?\nCheck configured path in Structure tab of Jalview''s Preferences label.min_colour = Minimum Colour label.max_colour = Maximum Colour label.no_colour = No Colour @@ -327,6 +329,7 @@ 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.subsequence_matches_found = {0} subsequence matches found label.search_results= Search results {0} : {1} label.found_match_for = Found match for {0} label.font = Font: @@ -353,17 +356,11 @@ 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.select_character_rendering_style = {0} character rendering style +label.select_character_style_title = {0} Rendering options label.invert_selection = Invert Selection label.optimise_order = Optimise Order label.seq_sort_by_score = Sequence sort by Score @@ -371,14 +368,13 @@ label.load_colours = Load Colours label.save_colours = Save Colours label.load_colours_tooltip = Load feature colours and filters from file label.save_colours_tooltip = Save feature colours and filters to file -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.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 @@ -407,20 +403,14 @@ label.pdb_entries_couldnt_be_retrieved = The following pdb entries could not be 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.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 = Could not locate {0} +label.couldnt_locate = Couldn''t locate {0} label.url_not_found = URL not found 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 @@ -428,8 +418,6 @@ 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 @@ -502,11 +490,14 @@ 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.insert_gap = Insert 1 gap +label.insert_gaps = Insert {0} gaps +label.delete_gap = Delete 1 gap +label.delete_gaps = Delete {0} gaps label.sequence_details = Sequence Details -label.jmol_help = Jmol Help -label.chimera_help = Chimera Help +label.viewer_help = {0} 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.confirm_close_viewer = This will close Jalview''s connection to {0}.
Do you want to close the {1} window as well? label.all = All label.sort_by = Sort alignment by label.sort_by_score = Sort by Score @@ -522,9 +513,14 @@ 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.fetch_uniprot_references = Fetch Uniprot references +label.search_3dbeacons = 3D-Beacons Search +label.find_models_from_3dbeacons = Search 3D-Beacons for 3D structures and models +label.3dbeacons = 3D-Beacons +label.fetch_references_for = Fetch database references for {0} sequences ? +label.fetch_references_for_3dbeacons = 3D Beacons needs Uniprot References. Fetch database references for {0} sequences ? label.reset_min_max_colours_to_defaults = Reset min and max colours to defaults from user preferences. label.align_structures_using_linked_alignment_views = Superpose structures using {0} selected alignment view(s) -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 @@ -558,9 +554,6 @@ 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 @@ -570,7 +563,6 @@ 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 @@ -593,14 +585,22 @@ label.gap_symbol = Gap Symbol label.prot_alignment_colour = Protein Alignment Colour label.nuc_alignment_colour = Nucleotide Alignment Colour label.address = Address +label.host = Host label.port = Port -label.default_browser_unix = Default Browser (Unix) +label.default_browser_unix_windows = Default Browser (Unix, Windows) 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.no_proxy = No proxy servers +label.system_proxy = System proxy servers (http={0}; https={1}) +label.use_proxy_server = Use these proxy servers +label.auth_required = Authentication required +label.username = Username +label.password = Password +label.proxy_password_required = Proxy password required +label.not_stored = not stored in Preferences file +label.rendering_style = {0} rendering style label.append_start_end = Append /start-end (/15-380) label.full_sequence_id = Full Sequence Id label.smooth_font = Smooth Font @@ -622,13 +622,11 @@ 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.fetch_chimera_attributes = Fetch Chimera attributes -label.fetch_chimera_attributes_tip = Copy Chimera attribute to Jalview feature +label.fetch_viewer_attributes = Fetch {0} attributes +label.fetch_viewer_attributes_tip = Copy {0} attribute to Jalview feature 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 @@ -638,11 +636,7 @@ 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.proxy_servers = Proxy Servers label.file_output = File Output label.select_input_type = Select input type label.set_options_for_type = Set options for type @@ -686,7 +680,7 @@ 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.spaces_converted_to_underscores = 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." @@ -710,9 +704,6 @@ 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... @@ -720,15 +711,14 @@ label.associate_nodes_with = Associate Nodes With 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.let_viewer_manage_structure_colours = Let viewer manage structure colours +label.colour_with_viewer = Colour in structure viewer label.superpose_structures = Superpose Structures error.superposition_failed = Superposition failed: {0} label.insufficient_residues = Not enough aligned residues ({0}) to perform superposition -label.jmol = Jmol -label.chimera = Chimera -label.create_chimera_attributes = Write Jalview features -label.create_chimera_attributes_tip = Set Chimera residue attributes for visible features -label.attributes_set = {0} attribute values set on Chimera +label.create_viewer_attributes = Write Jalview features +label.create_viewer_attributes_tip = Set structure residue attributes for Jalview features +label.attributes_set = {0} attribute values set on {1} label.sort_alignment_by_tree = Sort Alignment By Tree label.mark_unlinked_leaves = Mark Unlinked Leaves label.associate_leaves_with = Associate Leaves With @@ -771,13 +761,16 @@ 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.translation_of_params = Translation of {0} (Table {1}) 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.sequence_feature_settings_for = Sequence Feature Settings for {0} +label.sequence_feature_settings_for_view = Sequence Feature Settings for view "{0}" +label.sequence_feature_settings_for_CDS_and_Protein = Sequence Feature Settings for CDS and Protein label.pairwise_aligned_sequences = Pairwise Aligned Sequences label.original_data_for_params = Original Data for {0} label.points_for_params = Points for {0} @@ -786,7 +779,7 @@ label.variable_color_for = Variable Feature Colour for {0} label.select_background_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.separate_multiple_query_values = Enter one or more {0} 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} @@ -853,7 +846,6 @@ 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} @@ -863,7 +855,7 @@ 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.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\! @@ -884,16 +876,11 @@ 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 @@ -908,7 +895,6 @@ 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} label.as_percentage = As Percentage @@ -949,29 +935,20 @@ error.call_setprogressbar_before_registering_handler = call setProgressBar befor 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.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_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 @@ -986,14 +963,13 @@ error.implementation_error_minlen_must_be_greater_zero = Implementation error: m 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_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! @@ -1001,18 +977,20 @@ error.cannot_set_params_for_ws_preset = Cannot set Parameters for a Jaba Web ser 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.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.no_highlighted_regions_marked = No highlighted regions marked 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.no_feature_of_type_found = No features of type {0} found +label.no_feature_found_selection = No features of type {0} found in selection label.submission_params = Submission {0} label.empty_alignment_job = Empty Alignment Job label.add_new_sbrs_service = Add a new Simple Bioinformatics Rest Service @@ -1021,7 +999,7 @@ 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.adjust_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} @@ -1056,21 +1034,23 @@ error.implementation_error_reset_called_for_invalid_source = Implementation Erro 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.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.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.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_launch = Unable to launch browser: {0} exception.browser_unable_to_locate = Unable to locate browser: {0} +exception.browser_os_not_supported = Launching browser on this operating system not supported. Use URL\n{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} @@ -1078,9 +1058,6 @@ exception.unable_to_create_internet_config = Unable to create an Internet Config 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 @@ -1095,7 +1072,6 @@ error.implementation_error_cannot_find_service_url_in_given_set_param_store = Im 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. @@ -1103,7 +1079,7 @@ 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_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 @@ -1120,48 +1096,36 @@ 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.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.searching_3d_beacons = Searching 3D Beacons +status.no_structures_discovered_from_3d_beacons = No models discovered from 3D Beacons status.opening_file_for = opening file for -status.colouring_chimera = Colouring Chimera +status.colouring_structures = Colouring structures 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 $SEQUENCE_ID$, $DB_ACCESSION$, or a 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 @@ -1180,6 +1144,7 @@ label.add_annotations_for = Add annotations for action.choose_annotations = Choose Annotations... label.choose_annotations = Choose Annotations label.find = Find +label.in = in label.invalid_search = Search string invalid error.invalid_regex = Invalid regular expression label.ignore_gaps_consensus = Ignore Gaps In Consensus @@ -1247,14 +1212,10 @@ 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 @@ -1266,8 +1227,6 @@ 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 @@ -1297,7 +1256,6 @@ label.edit_sequence_url_link = Edit sequence URL link warn.name_cannot_be_duplicate = User-defined URL names must be unique and cannot be MIRIAM ids label.output_seq_details = Output Sequence Details to list all database references label.urllinks = Links -label.default_cache_size = Default Cache Size action.clear_cached_items = Clear Cached Items label.togglehidden = Show hidden regions label.quality_descr = Alignment Quality based on Blosum62 scores @@ -1336,15 +1294,15 @@ label.numeric_required = The value should be numeric label.filter = Filter label.filters = Filters label.join_conditions = Join conditions with +label.delete_condition = Delete this condition label.score = Score label.colour_by_label = Colour by label label.variable_colour = Variable colour... -label.select_colour = Select colour +label.select_colour_for = Select colour for {0} option.enable_disable_autosearch = When ticked, search is performed automatically option.autosearch = Autosearch label.retrieve_ids = Retrieve IDs label.display_settings_for = Display settings for {0} features -label.simple = Simple label.simple_colour = Simple Colour label.colour_by_text = Colour by text label.graduated_colour = Graduated Colour @@ -1360,10 +1318,20 @@ label.most_bound_molecules = Most Bound Molecules label.most_polymer_residues = Most Polymer Residues label.cached_structures = Cached Structures label.free_text_search = Free Text Search +label.annotation_name = Annotation Name +label.annotation_description = Annotation Description +label.edit_annotation_name_description = Edit Annotation Name/Description +label.alignment = alignment +label.pca = PCA +label.create_image_of = Create {0} image of {1} +label.click_to_edit = Click to edit, right-click for menu label.backupfiles_confirm_delete = Confirm delete label.backupfiles_confirm_delete_old_files = Delete the following older backup files? (see the Backups tab in Preferences for more options) label.backupfiles_confirm_save_file = Confirm save file -label.backupfiles_confirm_save_file_backupfiles_roll_wrong = Something possibly went wrong with the backups of this file, write the new file anyway? +label.backupfiles_confirm_save_file_backupfiles_roll_wrong = Something possibly went wrong with the backups of this file. +label.backupfiles_confirm_save_new_saved_file_ok = The new saved file seems okay. +label.backupfiles_confirm_save_new_saved_file_not_ok = The new saved file might not be okay. +label.continue_operation = Continue operation? label.backups = Backups label.backup = Backup label.backup_files = Backup Files @@ -1372,14 +1340,14 @@ label.backup_filename_strategy = Backup filename strategy label.append_to_filename = Append to filename (%n is replaced by the backup number) label.append_to_filename_tooltip = %n in the text will be replaced by the backup number. The text will appear after the filename. See the summary box above. label.index_digits = Number of digits to use for the backup number (%n) -label.summary_of_backups_scheme = Summary of backup scheme +label.scheme_examples = Scheme examples label.increment_index = Increase appended text numbers - newest file has largest number. label.reverse_roll = "Roll" appended text numbers - newest backup file is always number 1. label.keep_files = Deleting old backup files label.keep_all_backup_files = Do not delete old backup files label.keep_only_this_number_of_backup_files = Keep only this number of most recent backup files -label.autodelete_old_backup_files = Autodelete old backup files: -label.confirm_delete = Always ask +label.autodelete_old_backup_files = Auto-delete old backup files: +label.always_ask = Always ask label.auto_delete = Automatically delete label.filename = filename label.braced_oldest = (oldest) @@ -1388,13 +1356,59 @@ label.configuration = Configuration label.configure_feature_tooltip = Click to configure variable colour or filters label.schemes = Schemes label.customise = Customise +label.custom = Custom label.default = Default label.single_file = Single backup label.keep_all_versions = Keep all versions label.rolled_backups = Rolled backup files -label.previously_saved_scheme = Previously saved scheme +label.customise_description = Select Customise, make changes, and click on OK to save your own custom scheme +label.custom_description = Your own saved scheme +label.default_description = Keep the last three versions of the file +label.single_file_description = Keep the last version of the file +label.keep_all_versions_description = Keep all previous versions of the file +label.rolled_backups_description = Keep the last nine versions of the file from _bak.1 (newest) to _bak.9 (oldest) +label.cancel_changes_description = Cancel changes made to your last saved Custom scheme label.no_backup_files = NO BACKUP FILES label.include_backup_files = Include backup files label.cancel_changes = Cancel changes -label.warning_confirm_change_reverse = Warning!\nIf you change the increment/decrement of the backup filename number, without changing the suffix or digits,\nthis may cause loss of backup files created with the previous backup filename scheme.\nAre you sure you wish to do this? -label.change_increment_decrement = Change increment/decrement? \ No newline at end of file +label.warning_confirm_change_reverse = Warning!\nIf you change the increment/decrement of the backup filename number, without changing the suffix or number of digits,\nthis may cause loss of backup files created with the previous backup filename scheme.\nAre you sure you wish to do this? +label.change_increment_decrement = Change increment/decrement? +label.newerdelete_replacement_line = Backup file\n''{0}''\t(modified {2}, size {4})\nis to be deleted and replaced by apparently older file\n''{1}''\t(modified {3}, size {5}). +label.confirm_deletion_or_rename = Confirm deletion of ''{0}'' or rename to ''{1}''? +label.newerdelete_line = Backup file\n''{0}''\t(modified {2}, size {4})\nis to be deleted but is newer than the oldest remaining backup file\n''{1}''\t(modified {3}, size {5}). +label.confirm_deletion = Confirm deletion of ''{0}''? +label.delete = Delete +label.rename = Rename +label.keep = Keep +label.file_info = (modified {0}, size {1}) +label.annotation_name = Annotation Name +label.annotation_description = Annotation Description +label.edit_annotation_name_description = Edit Annotation Name/Description +label.alignment = alignment +label.pca = PCA +label.create_image_of = Create {0} image of {1} +label.click_to_edit = Click to edit, right-click for menu +label.by_annotation_tooltip = Annotation Colour is configured from the main Colour menu +label.show_linked_features = Show {0} features +label.on_top = on top +label.include_linked_features = Include {0} features +label.include_linked_tooltip = Include visible {0} features
converted to local sequence coordinates +label.features_not_shown = {0} feature(s) not shown +label.no_features_to_sort_by = No features to sort by +label.ignore_hidden = Ignore hidden columns +label.ignore_hidden_tooltip = Ignore any characters in hidden columns when matching +label.log_level = Log level +label.log_level_tooltip = Temporarily set the log level for this console. The log level will revert to {0} when this Java console is closed. +label.copy_to_clipboard = Copy to clipboard +label.copy_to_clipboard_tooltip = Copy all of the log text in this console to the system clipboard +label.startup = Startup +label.memory = Memory +label.customise_memory_settings = Customise maximum memory settings +label.memory_setting_text = New memory settings will only come into effect the next time you start Jalview +label.maximum_memory_used = Maximum memory limited to both +label.percent_of_physical_memory = Maximum percent of physical memory +label.maximum_memory = Maximum absolute memory +label.maximum_memory_tooltip = Enter memory as an integer number optionally followed by 'b', 'k', 'm', 'g' or 't' +label.adjustments_for_this_computer = Adjustments for this computer +label.memory_example_text = Maximum memory that would be used with these settings on this computer +label.memory_example_tooltip = The memory allocated to Jalview is the smaller of the percentage of physical memory (default 90%) and the maximum absolute memory (default 32GB). If your computer's memory cannot be ascertained then the maximum absolute memory defaults to 8GB (if not customised).
Jalview will always try and reserve 512MB for the OS and at least 512MB for itself.