X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=resources%2Flang%2FMessages.properties;h=a86154c45282f9d0ae2ec8ebb3fe1d8eb769a732;hb=7dc7fb2a35c435d825bc91c5ae60ec6073419a69;hp=1e91f359dfea1cc34973786b4bc13739bffe44ab;hpb=303efec33360f77648cc2c7583934cdfd1ae76ae;p=jalview.git diff --git a/resources/lang/Messages.properties b/resources/lang/Messages.properties index 1e91f35..a86154c 100644 --- a/resources/lang/Messages.properties +++ b/resources/lang/Messages.properties @@ -125,6 +125,8 @@ action.change_font_tree_panel = Change Font (Tree Panel) action.colour = Colour action.calculate = Calculate action.select_all = Select all +action.select_highlighted_columns = Select Highlighted Columns +tooltip.select_highlighted_columns = Press B to mark highlighted columns, Ctrl-(or Cmd)-B to toggle, and Alt-B to mark all but highlighted columns action.deselect_all = Deselect all action.invert_selection = Invert selection action.using_jmol = Using Jmol @@ -221,8 +223,8 @@ label.proteins = Proteins label.to_new_alignment = To New Alignment label.to_this_alignment = Add To This Alignment label.apply_colour_to_all_groups = Apply Colour To All Groups -label.modify_identity_thereshold = Modify Identity Threshold... -label.modify_conservation_thereshold = Modify Conservation Threshold... +label.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 @@ -319,10 +321,9 @@ 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.colour_residues_above_occurence = Colour residues above % occurrence label.set_this_label_text = set this label text label.sequences_from = Sequences from {0} label.successfully_loaded_file = Successfully loaded file {0} @@ -383,14 +384,14 @@ label.select_at_least_three_bases_in_at_least_one_sequence_to_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.automatically_associate_structure_files_with_sequences_same_name = Do you want to automatically associate the {0} structure file(s) with sequences in the alignment that have the same name? +label.automatically_associate_structure_files_by_name = Automatically Associate Structure files by name label.ignore_unmatched_dropped_files_info = Do you want to ignore the {0} files whose names did not match any sequence IDs ? label.ignore_unmatched_dropped_files = Ignore unmatched dropped files? label.view_name_original = Original label.enter_view_name = Enter View Name label.enter_label = Enter label -label.enter_label_for_the_structure = Enter a label for the structure? +label.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 @@ -515,10 +516,10 @@ label.reset_min_max_colours_to_defaults = Reset min and max colours to defaults label.align_structures_using_linked_alignment_views = Align structures using {0} linked alignment views label.connect_to_session = Connect to session {0} label.threshold_feature_display_by_score = Threshold the feature display by score. -label.threshold_feature_no_thereshold = No Threshold -label.threshold_feature_above_thereshold = Above Threshold -label.threshold_feature_below_thereshold = Below Threshold -label.adjust_thereshold = Adjust threshold +label.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 @@ -730,8 +731,8 @@ 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.your_sequences_have_been_verified = Your sequences have been verified against known sequence databases.\n(Use Calculate | Show flanking regions to show enclosing sequence.)\nTo preserve data changes, save your alignment.\n\n +label.sequences_updated = Sequences updated label.dbref_search_completed = DBRef search completed label.show_all_chains = Show all chains label.fetch_all_param = Fetch all {0} @@ -773,7 +774,7 @@ 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.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} @@ -788,8 +789,10 @@ label.hide_columns_containing = Hide columns containing label.hide_columns_not_containing = Hide columns that do not contain option.trim_retrieved_seqs = Trim retrieved sequences label.trim_retrieved_sequences = When the reference sequence is longer than the sequence that you are working with, only keep the relevant subsequences. -label.use_sequence_id_1 = Use $SEQUENCE_ID$ or $SEQUENCE_ID=//=$ -label.use_sequence_id_2 = \nto embed sequence id in URL +label.use_sequence_id_1 = Use $DB_ACCESSION$ or $DB_ACCESSION=//=$ +label.use_sequence_id_2 = to embed accession id in URL +label.use_sequence_id_3 = Use $SEQUENCE_ID$ similarly to embed sequence id +label.use_sequence_id_4 = label.ws_parameters_for = Parameters for {0} label.switch_server = Switch server label.choose_jabaws_server = Choose a server for running this service @@ -832,7 +835,7 @@ 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.jnet_secondary_structure_prediction = JPred 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. @@ -859,7 +862,7 @@ label.service_url = Service URL label.copied_sequences = Copied sequences label.cut_sequences = Cut Sequences label.conservation_colour_increment = Conservation Colour Increment ({0}) -label.percentage_identity_thereshold = Percentage Identity Threshold ({0}) +label.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 @@ -902,7 +905,7 @@ error.null_from_clone1 = Null from clone1! error.implementation_error_sortbyfeature = Implementation Error - sortByFeature method must be one of FEATURE_SCORE, FEATURE_LABEL or FEATURE_DENSITY. error.not_yet_implemented = Not yet implemented error.unknown_type_dna_or_pep = Unknown Type {0} - dna or pep are the only allowed values. -error.implementation_error_dont_know_thereshold_annotationcolourgradient = Implementation error: don't know about threshold setting for current AnnotationColourGradient. +error.implementation_error_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. @@ -933,7 +936,7 @@ 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_thereshold_setting = Implementation error: don't know about threshold setting for current AnnotationColourGradient. +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 @@ -966,7 +969,7 @@ error.cannot_have_zero_length_vector_replacement_strings = Cannot have zero leng 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 +error.multiple_jnet_subjob_merge_not_implemented = Multiple JPred 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} @@ -1007,7 +1010,7 @@ 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_thereshold = Adjust Foreground Text Colour Threshold +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} @@ -1074,7 +1077,7 @@ exception.unexpected_handling_rnaml_translation_for_pdb = Unexpected exception w 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.couldnt_recover_sequence_props_for_jnet_query = Couldn't recover sequence properties for JPred 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} @@ -1096,7 +1099,7 @@ info.job_couldnt_be_run_exceeded_hard_limit = Job could not be run because it ex 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.invalid_jnet_job_result_data ={0}\n{1}\nInvalid JPred 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} @@ -1129,7 +1132,7 @@ 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.opening_file_for = opening file for 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 @@ -1143,7 +1146,7 @@ warn.user_defined_width_requirements = The user defined width for the\nannotatio label.couldnt_create_sequence_fetcher = Couldn't create SequenceFetcher warn.couldnt_create_sequence_fetcher_client = Could not create the sequence fetcher client. Check error logs for details. warn.server_didnt_pass_validation = Service did not pass validation.\nCheck the Jalview Console for more details. -warn.url_must_contain = Sequence URL must contain $SEQUENCE_ID$ or a regex $SEQUENCE_ID=//=$ +warn.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) @@ -1159,8 +1162,8 @@ label.edit_jabaws_url = Edit JABAWS URL label.add_jabaws_url = Add new JABAWS URL label.news_from_jalview = News from http://www.jalview.org label.cut_paste_alignmen_file = Cut & Paste Alignment File -label.enter_redundancy_thereshold = Enter the redundancy threshold -label.select_dark_light_set_thereshold = Select a dark and light text colour, then set the threshold to
switch between colours, based on background colour +label.enter_redundancy_threshold = Enter the redundancy threshold +label.select_dark_light_set_threshold = Select a dark and light text colour, then set the threshold to
switch between colours, based on background colour label.select_feature_colour = Select Feature Colour label.delete_all = Delete all sequences warn.delete_all = Deleting all sequences will close the alignment window.
Confirm deletion or Cancel. @@ -1267,3 +1270,8 @@ 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 +label.SEQUENCE_ID_no_longer_used = $SEQUENCE_ID$ is no longer used for DB accessions +label.SEQUENCE_ID_for_DB_ACCESSION1 = Please review your URL links in the 'Connections' tab of the Preferences window: +label.SEQUENCE_ID_for_DB_ACCESSION2 = URL links using '$SEQUENCE_ID$' for DB accessions now use '$DB_ACCESSION$'. +label.do_not_display_again = Do not display this message again +label.output_seq_details = Output Sequence Details to list all database references