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
+tooltip.left_justify = Left justify whole alignment or selected region
+tooltip.right_justify = Right justify whole alignment or selected region
+action.left_justify = Left Justify
+action.right_justify = Right Justify
action.boxes = Boxes
action.text = Text
action.by_pairwise_id = By Pairwise Identity
action.by_tree_order = By Tree Order
action.sort = Sort
action.calculate_tree = Calculate Tree...
-action.calculate_tree_pca = Calculate Tree or PCA...
+action.calculate_tree_pca = Calculate Tree, PCA or PaSiMap...
action.help = Help
action.by_annotation = By Annotation...
action.invert_sequence_selection = Invert Sequence Selection
label.undo_command = Undo {0}
label.redo_command = Redo {0}
label.principal_component_analysis = Principal Component Analysis
+label.pasimap = PaSiMap
label.average_distance_identity = Average Distance Using % Identity
label.neighbour_joining_identity = Neighbour Joining Using % Identity
label.choose_calculation = Choose Calculation
label.colourScheme_t-coffeescores = T-Coffee Scores
label.colourScheme_rnahelices = By RNA Helices
label.colourScheme_sequenceid = Sequence ID Colour
-label.colourScheme_gecos\:flower = gecos Flower
-label.colourScheme_gecos\:blossom = gecos Blossom
-label.colourScheme_gecos\:sunset = gecos Sunset
-label.colourScheme_gecos\:ocean = gecos Ocean
+label.colourScheme_gecos-flower = gecos Flower
+label.colourScheme_gecos-blossom = gecos Blossom
+label.colourScheme_gecos-sunset = gecos Sunset
+label.colourScheme_gecos-ocean = gecos Ocean
label.blc = BLC
label.fasta = Fasta
label.msf = MSF
label.group_consensus = Group Consensus
label.group_conservation = Group Conservation
label.show_consensus_histogram = Show Consensus Histogram
+label.show_ssconsensus_histogram = Show SS Consensus Histogram
label.show_consensus_logo = Show Consensus Logo
+label.show_ssconsensus_logo = Show SS Consensus Logo
label.norm_consensus_logo = Normalise Consensus Logo
label.apply_all_groups = Apply to all groups
label.autocalculated_annotation = Autocalculated Annotation
+label.show_secondary_structure = Show Secondary Structure
label.show_first = Show first
label.show_last = Show last
label.struct_from_pdb = Process secondary structure from PDB
label.output_values = Output Values...
label.output_points = Output points...
label.output_transformed_points = Output transformed points
+label.output_alignment = Output pairwise alignments
+label.pairwise_alignment_for_params = Pairwise alignments for {0}
label.input_data = Input Data...
label.nucleotide_matrix = Nucleotide matrix
label.protein_matrix = Protein matrix
label.successfully_loaded_file = Successfully loaded file {0}
label.successfully_loaded_matrix = Successfully loaded score matrix {0}
label.successfully_saved_to_file_in_format = Successfully saved to file: {0} in {1} format.
+label.successfully_printed_to_stdout_in_format = Successfully printed to STDOUT in {0} 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.alignment_output_command = Alignment output - {0}
label.annotations = Annotations
label.structure_options = Structure Options
+label.structure_import_options = Structure Import Options
label.features = Features
label.overview_params = Overview {0}
label.paste_newick_file = Paste Newick file
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.pasimap_details = PaSiMap details
label.redundancy_threshold_selection = Redundancy threshold selection
label.user_defined_colours = User defined colours
label.jalviewLite_release = JalviewLite - Release {0}
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.load_pae_matrix_file_associate_with_structure = Load a PAE matrix file and associate it with structure {0}
label.reveal_hidden_columns = Reveal Hidden Columns with Right Mouse Button
label.dark_colour = Dark Colour
label.light_colour = Light Colour
label.maximize_window = Maximize Window
label.conservation = Conservation
label.consensus = Consensus
+label.ssConsensus = Secondary Structure Consensus
label.histogram = Histogram
label.logo = Logo
label.non_positional_features = List Non-positional Features
label.sequence_name = Sequence Name
label.sequence_description = Sequence Description
label.edit_sequence_name_description = Edit Sequence Name/Description
-label.spaces_converted_to_underscores = Spaces have been converted to _
+label.spaces_converted_to_underscores = Spaces have been converted to underscores (_)
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.select_pae_matrix_file_for = Select a PAE matrix file for {0}
label.html = HTML
label.wrap = Wrap
label.show_database_refs = Show Database Refs
label.edit_sbrs_entry = Edit Simple Bioinformatics Rest Service entry
label.pca_recalculating = Recalculating PCA
label.pca_calculating = Calculating PCA
+label.pasimap_recalculating = Recalculating PaSiMap
+label.pasimap_calculating = Calculating PaSiMap
label.select_foreground_colour = Choose foreground colour
label.select_colour_for_text = Select Colour for Text
label.adjust_foreground_text_colour_threshold = Adjust Foreground Text Colour Threshold
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.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= >>
label.quality_descr = Alignment Quality based on Blosum62 scores
label.conservation_descr = Conservation of total alignment less than {0}% gaps
label.consensus_descr = PID
+label.ssconsensus_label = Secondary Structure Consensus
+label.ssconsensus_descr = SS Consensus
label.complement_consensus_descr = PID for cDNA
label.strucconsensus_descr = PID for base pairs
label.occupancy_descr = Number of aligned positions
label.edit_annotation_name_description = Edit Annotation Name/Description
label.alignment = alignment
label.pca = PCA
+label.pasimap = PaSiMap
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.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).<br>Jalview will always try and reserve 512MB for the OS and at least 512MB for itself.
warning.wrong_jvm_version_title = Wrong Java Version
warning.wrong_jvm_version_message = The Java version being used (Java {0}) may lead to problems.\nThis installation of Jalview should be used with Java {1}.
+label.alphafold_reliability = Alphafold Reliability
+label.tftype_default = Default
+label.tftype_plddt = pLDDT
+label.optional = (optional)
+label.choose_tempfac_type = Choose Temperature Factor type
+label.interpret_tempfac_as = Interpret Temperature Factor as
+label.add_pae_matrix_file = Add PAE matrix file
+label.nothing_selected = Nothing selected
+prompt.analytics_title = Jalview Usage Statistics
+prompt.analytics = Do you want to help make Jalview better by enabling the collection of usage statistics with Plausible analytics?\nYou can enable or disable usage tracking in the preferences.
+label.working_ellipsis = Working ...
+action.show_groups_on_matrix = Show groups on matrix
+action.show_groups_on_matrix_tooltip = When enabled, clusters defined on the matrix's associated tree or below the assigned threshold are shown as different colours on the matrix annotation row
+action.show_tree_for_matrix = Show tree for matrix
+action.show_tree_for_matrix_tooltip = Opens a tree viewer to display the average distance tree for the matrix
+action.cluster_matrix = Cluster matrix
+action.clustering_matrix_for = Calculating tree for matrix {0} and clustering at {1}
+action.cluster_matrix_tooltip = Computes an average distance tree for the matrix and displays it
+label.all_known_alignment_files = All known alignment files
+label.command_line_arguments = Command Line Arguments
+warning.using_old_command_line_arguments = It looks like you are using old command line arguments. These are now deprecated and will be removed in a future release of Jalview.\nFind out about the new command line arguments at\n
+warning.using_mixed_command_line_arguments = Jalview cannot use both old (-arg) and new (--arg) command line arguments. Please check your command line arguments.\ne.g. {0} and {1}
+warning.the_following_errors = The following errors and warnings occurred whilst processing files:
+action.show_hetatm = Show Ligands (HETATM)
git://source.jalview.org / jalview.git / blobdiff