/* $RCSfile$ * $Author: hansonr $ * $Date: 2023-07-07 17:55:52 -0500 (Fri, 07 Jul 2023) $ * $Revision: 22527 $ * AH 2022-02-08, one more term passed to GT localization * * Copyright (C) 2000-2022 The Jmol Development Team * * Contact: jmol-developers@lists.sf.net * * This library is free software; you can redistribute it and/or * modify it under the terms of the GNU Lesser General Public * License as published by the Free Software Foundation; either * version 2.1 of the License, or (at your option) any later version. * * This library is distributed in the hope that it will be useful, * but WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU * Lesser General Public License for more details. * * You should have received a copy of the GNU Lesser General Public * License along with this library; if not, write to the Free Software * Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA. */ package org.jmol.popup; import java.util.Properties; import org.jmol.i18n.GT; import org.jmol.viewer.JC; import org.jmol.viewer.Viewer; import javajs.util.PT; public class MainPopupResourceBundle extends PopupResource { private final static String MENU_NAME = "popupMenu"; @Override public String getMenuName() { return MENU_NAME; } public MainPopupResourceBundle(String menuStructure, Properties menuText) { super(menuStructure, menuText); } @Override protected void buildStructure(String menuStructure) { addItems(menuContents); addItems(structureContents); if (menuStructure != null) setStructure(menuStructure, new GT()); } private static String Box(String cmd) { return "if (showBoundBox or showUnitcell) {"+cmd+"} else {boundbox on;"+cmd+";boundbox off}"; } private static String[][] menuContents = { { "@COLOR", "black darkgray lightgray white - red orange yellow green cyan blue indigo violet"}, { "@AXESCOLOR", "gray salmon maroon olive slateblue gold orchid"}, { MENU_NAME, "fileMenu modelSetMenu FRAMESbyModelComputedMenu configurationComputedMenu " + "- selectMenuText viewMenu renderMenu colorMenu " + "- surfaceMenu FILEUNITMenu " + "- sceneComputedMenu zoomMenu spinMenu VIBRATIONMenu spectraMenu FRAMESanimateMenu " + "- measureMenu pickingMenu " + "- showConsole JSConsole showMenu computationMenu " + "- languageComputedMenu aboutMenu" }, { "fileMenu", "loadMenu saveMenu exportMenu SIGNEDJAVAcaptureMenuSPECIAL " }, { "loadMenu", "SIGNEDloadFile SIGNEDloadUrl SIGNEDloadPdb SIGNEDloadMol SIGNEDloadScript - " + "reload SIGNEDloadFileUnitCell" }, { "saveMenu", "writeFileTextVARIABLE writeState writeHistory SIGNEDwriteJmol SIGNEDwriteIsosurface "} , { "exportMenu", "SIGNEDNOGLwriteGif SIGNEDNOGLwriteJpg SIGNEDNOGLwritePng " + "SIGNEDNOGLwritePngJmol SIGNEDNOGLwritePovray - " + "SIGNEDNOGLwriteVrml SIGNEDNOGLwriteX3d SIGNEDNOGLwriteSTL" }, { "selectMenuText", "hideNotSelectedCB showSelectionsCB - selectAll selectNone invertSelection - elementsComputedMenu SYMMETRYSelectComputedMenu - " + "PDBproteinMenu PDBnucleicMenu PDBheteroMenu PDBcarboMenu PDBnoneOfTheAbove" }, { "PDBproteinMenu", "PDBaaResiduesComputedMenu - " + "allProtein proteinBackbone proteinSideChains - " + "polar nonpolar - " + "positiveCharge negativeCharge noCharge" }, { "PDBcarboMenu", "PDBcarboResiduesComputedMenu - allCarbo" }, { "PDBnucleicMenu", "PDBnucleicResiduesComputedMenu - allNucleic nucleicBackbone nucleicBases - DNA RNA - " + "atPairs auPairs gcPairs - aaStructureMenu" }, { "PDBheteroMenu", "PDBheteroComputedMenu - allHetero Solvent Water - " + "Ligand exceptWater nonWaterSolvent" }, { "viewMenu", "best front left right top bottom back - axisX axisY axisZ - axisA axisB axisC" }, { "renderMenu", "renderSchemeMenu - atomMenu labelMenu bondMenu hbondMenu ssbondMenu - " + "PDBstructureMenu - [set_axes]Menu [set_boundbox]Menu [set_UNITCELL]Menu - perspectiveDepthCB stereoMenu" }, { "renderSchemeMenu", "renderCpkSpacefill renderBallAndStick " + "renderSticks renderWireframe PDBrenderCartoonsOnly PDBrenderTraceOnly" }, { "atomMenu", "showHydrogensCB - atomNone - " + "atom15 atom20 atom25 atom50 atom75 atom100" }, { "bondMenu", "bondNone bondWireframe - " + "bond100 bond150 bond200 bond250 bond300" }, { "hbondMenu", "hbondCalc hbondNone hbondWireframe - " + "PDBhbondSidechain PDBhbondBackbone - " + "hbond100 hbond150 hbond200 hbond250 hbond300" }, { "ssbondMenu", "ssbondNone ssbondWireframe - " + "PDBssbondSidechain PDBssbondBackbone - " + "ssbond100 ssbond150 ssbond200 ssbond250 ssbond300" }, { "PDBstructureMenu", "structureNone - " + "backbone cartoon cartoonRockets ribbons rockets strands trace" }, { "VIBRATIONvectorMenu", "vectorOff vectorOn vibScale20 vibScale05 vector3 vector005 vector01 - " + "vectorScale02 vectorScale05 vectorScale1 vectorScale2 vectorScale5" }, { "stereoMenu", "stereoNone stereoRedCyan stereoRedBlue stereoRedGreen stereoCrossEyed stereoWallEyed" }, { "labelMenu", "labelNone - " + "labelSymbol labelName labelNumber - " + "labelPositionMenu" }, { "labelPositionMenu", "labelCentered labelUpperRight labelLowerRight labelUpperLeft labelLowerLeft" }, { "colorMenu", "colorrasmolCB [color_]schemeMenu - [color_atoms]Menu [color_bonds]Menu [color_hbonds]Menu [color_ssbonds]Menu colorPDBStructuresMenu [color_isosurface]Menu" + " - [color_labels]Menu [color_vectors]Menu - [color_axes]Menu [color_boundbox]Menu [color_UNITCELL]Menu [color_background]Menu" }, { "[color_atoms]Menu", "schemeMenu - @COLOR - opaque translucent" }, { "[color_bonds]Menu", "none - @COLOR - opaque translucent" }, { "[color_hbonds]Menu", null }, { "[color_ssbonds]Menu", null }, { "[color_labels]Menu", null }, { "[color_vectors]Menu", null }, { "[color_backbone]Menu", "none - schemeMenu - @COLOR - opaque translucent" }, { "[color_cartoon]sMenu", null }, { "[color_ribbon]sMenu", null }, { "[color_rockets]Menu", null }, { "[color_strands]Menu", null }, { "[color_trace]Menu", null }, { "[color_background]Menu", "@COLOR" }, { "[color_isosurface]Menu", "@COLOR - opaque translucent" }, { "[color_axes]Menu", "@AXESCOLOR" }, { "[color_boundbox]Menu", null }, { "[color_UNITCELL]Menu", null }, { "colorPDBStructuresMenu", "[color_backbone]Menu [color_cartoon]sMenu [color_ribbon]sMenu [color_rockets]Menu [color_strands]Menu [color_trace]Menu" }, { "schemeMenu", "cpk molecule formalcharge partialcharge - altloc#PDB amino#PDB chain#PDB group#PDB monomer#PDB shapely#PDB structure#PDB relativeTemperature#BFACTORS fixedTemperature#BFACTORS property_vxyz#VIBRATION" }, { "[color_]schemeMenu", null }, { "zoomMenu", "zoom50 zoom100 zoom150 zoom200 zoom400 zoom800 - " + "zoomIn zoomOut" }, { "spinMenu", "spinOn spinOff - " + "[set_spin_X]Menu [set_spin_Y]Menu [set_spin_Z]Menu - " + "[set_spin_FPS]Menu" }, { "VIBRATIONMenu", "vibrationOff vibrationOn vibration20 vibration05 VIBRATIONvectorMenu" }, { "spectraMenu", "hnmrMenu cnmrMenu" }, { "FRAMESanimateMenu", "animModeMenu - play pause resume stop - nextframe prevframe rewind - playrev restart - " + "FRAMESanimFpsMenu" }, { "FRAMESanimFpsMenu", "animfps5 animfps10 animfps20 animfps30 animfps50" }, { "measureMenu", "showMeasurementsCB - " + "measureOff measureDistance measureAngle measureTorsion PDBmeasureSequence - " + "measureDelete measureList - distanceNanometers distanceAngstroms distancePicometers distanceHz" }, { "pickingMenu", "pickOff pickCenter pickIdent pickLabel pickAtom " + "pickMolecule pickElement - dragAtom dragMolecule - pickSpin - modelKitMode - PDBpickChain PDBpickGroup SYMMETRYpickSite" }, { "computationMenu", "minimize modelkit" /* calculateVolume*/ }, { "showMenu", "showHistory showFile showFileHeader - " + "showOrient showMeasure - " + "showSpacegroup showState SYMMETRYshowSymmetry UNITCELLshow - showIsosurface showMo - extractMOL" }, { "SIGNEDJAVAcaptureMenuSPECIAL", "SIGNEDJAVAcaptureRock SIGNEDJAVAcaptureSpin - SIGNEDJAVAcaptureBegin SIGNEDJAVAcaptureEnd SIGNEDJAVAcaptureOff SIGNEDJAVAcaptureOn SIGNEDJAVAcaptureFpsSPECIAL SIGNEDJAVAcaptureLoopingSPECIAL" }, { "[set_spin_X]Menu", "s0 s5 s10 s20 s30 s40 s50" }, { "[set_spin_Y]Menu", null }, { "[set_spin_Z]Menu", null }, { "[set_spin_FPS]Menu", null }, { "animModeMenu", "onceThrough palindrome loop" }, { "surfaceMenu", "surfDots surfVDW surfSolventAccessible14 surfSolvent14 surfMolecular surf2MEP surfMEP surfMoComputedMenuText - surfOpaque surfTranslucent surfOff" }, { "FILEUNITMenu", "SYMMETRYShowComputedMenu FILEMOLload FILEUNITone FILEUNITnine FILEUNITnineRestricted FILEUNITninePoly" }, { "[set_axes]Menu", "on off#axes dotted - byPixelMenu byAngstromMenu" }, { "[set_boundbox]Menu", null }, { "[set_UNITCELL]Menu", null }, { "byPixelMenu", "1p 3p 5p 10p" }, { "byAngstromMenu", "10a 20a 25a 50a 100a" }, { "aboutMenu", "jmolMenu systemMenu" }, { "jmolMenu", "APPLETid version date - help - mouse translations jmolorg" }, { "systemMenu", "os javaVender javaVersion JAVAprocessors JAVAmemMax JAVAmemTotal" }, }; @Override protected String[] getWordContents() { boolean wasTranslating = GT.setDoTranslate(true); String vdw = GT.$("{0}% van der Waals"); String exm = GT.$("Export {0} 3D model"); String exi = GT.$("Export {0} image"); String rld = GT.$("Reload {0}"); String scl = GT.$("Scale {0}"); String ang = GT.$("{0} \u00C5"); String pxl = GT.$("{0} px"); String[] words = new String[] { // note that these are now ordered by value, not be key. "cnmrMenu", GT.$("13C-NMR"), "hnmrMenu", GT.$("1H-NMR"), "aboutMenu", GT.$("About..."), "negativeCharge", GT.$("Acidic Residues (-)"), "allModelsText", GT.$("All {0} models"), "allHetero", GT.$("All PDB \"HETATM\""), "Solvent", GT.$("All Solvent"), "Water", GT.$("All Water"), "selectAll", GT.$("All"), "allProtein", null, "allNucleic", null, "allCarbo", null, "altloc#PDB", GT.$("Alternative Location"), "amino#PDB", GT.$("Amino Acid"), "byAngstromMenu", GT.$("Angstrom Width"), "animModeMenu", GT.$("Animation Mode"), "FRAMESanimateMenu", GT.$("Animation"), "atPairs", GT.$("AT pairs"), "atomMenu", GT.$("Atoms"), "[color_atoms]Menu", null, "atomsText", GT.$("atoms: {0}"), "auPairs", GT.$("AU pairs"), "[color_axes]Menu", GT.$("Axes"), "showAxesCB", null, "[set_axes]Menu", null, "axisA", GT.$("Axis a"), "axisB", GT.$("Axis b"), "axisC", GT.$("Axis c"), "axisX", GT.$("Axis x"), "axisY", GT.$("Axis y"), "axisZ", GT.$("Axis z"), "back", GT.$("Back"), "proteinBackbone", GT.$("Backbone"), "nucleicBackbone", null, "backbone", null, "[color_backbone]Menu", null, "[color_background]Menu", GT.$("Background"), "renderBallAndStick", GT.$("Ball and Stick"), "nucleicBases", GT.$("Bases"), "positiveCharge", GT.$("Basic Residues (+)"), "best", GT.$("Best"), "biomoleculeText", GT.$("biomolecule {0} ({1} atoms)"), "biomoleculesMenuText", GT.$("Biomolecules"), "black", GT.$("Black"), "blue", GT.$("Blue"), "bondMenu", GT.$("Bonds"), "[color_bonds]Menu", null, "bondsText", GT.$("bonds: {0}"), "bottom", GT.$("Bottom"), "[color_boundbox]Menu", GT.$("Boundbox"), "[set_boundbox]Menu", null, "showBoundBoxCB", null, "PDBheteroComputedMenu", GT.$("By HETATM"), "PDBaaResiduesComputedMenu", GT.$("By Residue Name"), "PDBnucleicResiduesComputedMenu", null, "PDBcarboResiduesComputedMenu", null, "schemeMenu", GT.$("By Scheme"), "[color_]schemeMenu", null, "hbondCalc", GT.$("Calculate"), "SIGNEDJAVAcaptureRock", GT.$("Capture rock"), "SIGNEDJAVAcaptureSpin", GT.$("Capture spin"), "SIGNEDJAVAcaptureMenuSPECIAL", GT.$("Capture"), "PDBcarboMenu", GT.$("Carbohydrate"), "cartoonRockets", GT.$("Cartoon Rockets"), "PDBrenderCartoonsOnly", GT.$("Cartoon"), "cartoon", null, "[color_cartoon]sMenu", null, "pickCenter", GT.$("Center"), "labelCentered", GT.$("Centered"), "chain#PDB", GT.$("Chain"), "chainsText", GT.$("chains: {0}"), "colorChargeMenu", GT.$("Charge"), "measureAngle", GT.$("Click for angle measurement"), "measureDistance", GT.$("Click for distance measurement"), "measureTorsion", GT.$("Click for torsion (dihedral) measurement"), "PDBmeasureSequence", GT.$("Click two atoms to display a sequence in the console"), "modelSetCollectionText", GT.$("Collection of {0} models"), "colorMenu", GT.$("Color"), // "optionsMenu", GT.$("Compatibility"), "computationMenu", GT.$("Computation"), "configurationMenuText", GT.$("Configurations ({0})"), "configurationComputedMenu", GT.$("Configurations"), "showConsole", GT.$("Console"), "renderCpkSpacefill", GT.$("CPK Spacefill"), "stereoCrossEyed", GT.$("Cross-eyed viewing"), "showState", GT.$("Current state"), "cyan", GT.$("Cyan"), "darkgray", GT.$("Dark Gray"), "measureDelete", GT.$("Delete measurements"), "SIGNEDJAVAcaptureOff", GT.$("Disable capturing"), "hideNotSelectedCB", GT.$("Display Selected Only"), "distanceAngstroms", GT.$("Distance units Angstroms"), "distanceNanometers", GT.$("Distance units nanometers"), "distancePicometers", GT.$("Distance units picometers"), "distanceHz", GT.$("Distance units hz (NMR J-coupling)"), "ssbondMenu", GT.$("Disulfide Bonds"), "[color_ssbonds]Menu", null, "DNA", GT.$("DNA"), "surfDots", GT.$("Dot Surface"), "dotted", GT.$("Dotted"), "measureOff", GT.$("Double-Click begins and ends all measurements"), "cpk", GT.$("Element (CPK)"), "elementsComputedMenu", GT.$("Element"), "SIGNEDJAVAcaptureEnd", GT.$("End capturing"), "exportMenu", GT.$("Export"), "extractMOL", GT.$("Extract MOL data"), "showFile", GT.$("File Contents"), "showFileHeader", GT.$("File Header"), "fileMenu", GT.$("File"), "formalcharge", GT.$("Formal Charge"), "front", GT.$("Front"), "gcPairs", GT.$("GC pairs"), "gold", GT.$("Gold"), "gray", GT.$("Gray"), "green", GT.$("Green"), "group#PDB", GT.$("Group"), "groupsText", GT.$("groups: {0}"), "PDBheteroMenu", GT.$("Hetero"), "off#axes", GT.$("Hide"), "showHistory", GT.$("History"), "hbondMenu", GT.$("Hydrogen Bonds"), "[color_hbonds]Menu", null, "pickIdent", GT.$("Identity"), "indigo", GT.$("Indigo"), "none", GT.$("Inherit"), "invertSelection", GT.$("Invert Selection"), "showIsosurface", GT.$("Isosurface JVXL data"), "help", GT.$("Jmol Script Commands") , "pickLabel", GT.$("Label"), "labelMenu", GT.$("Labels"), "[color_labels]Menu", null, "languageComputedMenu", GT.$("Language"), "left", GT.$("Left"), "Ligand", GT.$("Ligand"), "lightgray", GT.$("Light Gray"), "measureList", GT.$("List measurements"), "loadBiomoleculeText", GT.$("load biomolecule {0} ({1} atoms)"), "SIGNEDloadFileUnitCell", GT.$("Load full unit cell"), "loadMenu", GT.$("Load"), "loop", GT.$("Loop"), "labelLowerLeft", GT.$("Lower Left"), "labelLowerRight", GT.$("Lower Right"), "mainMenuText", GT.$("Main Menu"), "opaque", GT.$("Make Opaque"), "surfOpaque", null, "translucent", GT.$("Make Translucent"), "surfTranslucent", null, "maroon", GT.$("Maroon"), "measureMenu", GT.$("Measurements"), "showMeasure", null, "modelMenuText", GT.$("model {0}"), "hiddenModelSetText", GT.$("Model information"), "modelkit", GT.$("Model kit"), "showModel", GT.$("Model"), "FRAMESbyModelComputedMenu", GT.$("Model/Frame"), "modelKitMode", GT.$("modelKitMode"), "surf2MEP", GT.$("Molecular Electrostatic Potential (range -0.1 0.1)"), "surfMEP", GT.$("Molecular Electrostatic Potential (range ALL)"), "showMo", GT.$("Molecular orbital JVXL data"), "surfMoComputedMenuText", GT.$("Molecular Orbitals ({0})"), "surfMolecular", GT.$("Molecular Surface"), //"calculateVolume", GT.$("Molecular volume"), "molecule", GT.$("Molecule"), "monomer#PDB", GT.$("Monomer"), "mouse", GT.$("Mouse Manual") , // "pickDraw" , GT.$("moves arrows"), "nextframe", GT.$("Next Frame"), "modelSetMenu", GT.$("No atoms loaded"), "exceptWater", GT.$("Nonaqueous HETATM") + " (hetero and not water)", "nonWaterSolvent",GT.$("Nonaqueous Solvent") + " (solvent and not water)", "PDBnoneOfTheAbove", GT.$("None of the above"), "selectNone", GT.$("None"), "stereoNone", null, "labelNone", null, "nonpolar", GT.$("Nonpolar Residues"), "PDBnucleicMenu", GT.$("Nucleic"), "atomNone", GT.$("Off"), "bondNone", null, "hbondNone", null, "ssbondNone", null, "structureNone", null, "vibrationOff", null, "vectorOff", null, "spinOff", null, "pickOff", null, "surfOff", null, "olive", GT.$("Olive"), "bondWireframe", GT.$("On"), "hbondWireframe", null, "ssbondWireframe", null, "vibrationOn", null, "vectorOn", null, "spinOn", null, "on", null, "SIGNEDloadPdb", GT.$("Get PDB file"), "SIGNEDloadMol", GT.$("Get MOL file"), "SIGNEDloadFile", GT.$("Open local file"), "SIGNEDloadScript", GT.$("Open script"), "SIGNEDloadUrl", GT.$("Open URL"), "minimize", GT.$("Optimize structure"), "orange", GT.$("Orange"), "orchid", GT.$("Orchid"), "showOrient", GT.$("Orientation"), "palindrome", GT.$("Palindrome"), "partialcharge", GT.$("Partial Charge"), "pause", GT.$("Pause"), "perspectiveDepthCB", GT.$("Perspective Depth"), "byPixelMenu", GT.$("Pixel Width"), "onceThrough", GT.$("Play Once"), "play", GT.$("Play"), "polar", GT.$("Polar Residues"), "polymersText", GT.$("polymers: {0}"), "labelPositionMenu", GT.$("Position Label on Atom"), "prevframe", GT.$("Previous Frame"), "PDBproteinMenu", GT.$("Protein"), "colorrasmolCB", GT.$("RasMol Colors"), "red", GT.$("Red"), "stereoRedBlue", GT.$("Red+Blue glasses"), "stereoRedCyan", GT.$("Red+Cyan glasses"), "stereoRedGreen", GT.$("Red+Green glasses"), "SIGNEDJAVAcaptureOn", GT.$("Re-enable capturing"), "FILEUNITninePoly", GT.$("Reload + Polyhedra"), "reload", GT.$("Reload"), "restart", GT.$("Restart"), "resume", GT.$("Resume"), "playrev", GT.$("Reverse"), "rewind", GT.$("Rewind"), "ribbons", GT.$("Ribbons"), "[color_ribbon]sMenu", null, "right", GT.$("Right"), "RNA", GT.$("RNA"), "rockets", GT.$("Rockets"), "[color_rockets]Menu", null, "salmon", GT.$("Salmon"), "writeFileTextVARIABLE", GT.$("Save a copy of {0}"), "SIGNEDwriteJmol", GT.$("Save as PNG/JMOL (image+zip)"), "SIGNEDwriteIsosurface", GT.$("Save JVXL isosurface"), "writeHistory", GT.$("Save script with history"), "writeState", GT.$("Save script with state"), "saveMenu", GT.$("Save"), "sceneComputedMenu" , GT.$("Scenes"), "renderSchemeMenu", GT.$("Scheme"), "aaStructureMenu", GT.$("Secondary Structure"), "structure#PDB", null, "selectMenuText", GT.$("Select ({0})"), "pickAtom", GT.$("Select atom"), "dragAtom", GT.$("Drag atom"), "dragMolecule", GT.$("Drag molecule"), "PDBpickChain", GT.$("Select chain"), "pickElement", GT.$("Select element"), "PDBpickGroup", GT.$("Select group"), "pickMolecule", GT.$("Select molecule"), "SYMMETRYpickSite", GT.$("Select site"), // "selectMenu", GT.$("Select"), "showSelectionsCB", GT.$("Selection Halos"), "SIGNEDJAVAcaptureFpsSPECIAL", GT.$("Set capture replay rate"), "[set_spin_FPS]Menu", GT.$("Set FPS"), "FRAMESanimFpsMenu", null, "PDBhbondBackbone", GT.$("Set H-Bonds Backbone"), "PDBhbondSidechain", GT.$("Set H-Bonds Side Chain"), "pickingMenu", GT.$("Set picking"), "PDBssbondBackbone", GT.$("Set SS-Bonds Backbone"), "PDBssbondSidechain", GT.$("Set SS-Bonds Side Chain"), "[set_spin_X]Menu", GT.$("Set X Rate"), "[set_spin_Y]Menu", GT.$("Set Y Rate"), "[set_spin_Z]Menu", GT.$("Set Z Rate"), "shapely#PDB", GT.$("Shapely"), "showHydrogensCB", GT.$("Show Hydrogens"), "showMeasurementsCB", GT.$("Show Measurements"), "SYMMETRYpickSymmetry", GT.$("Show symmetry operation"), "showMenu", GT.$("Show"), "proteinSideChains", GT.$("Side Chains"), "slateblue", GT.$("Slate Blue"), "SYMMETRYShowComputedMenu", GT.$("Space Group"), "showSpacegroup", null, "spectraMenu", GT.$("Spectra"), "spinMenu", GT.$("Spin"), "pickSpin", null, "SIGNEDJAVAcaptureBegin", GT.$("Start capturing"), "stereoMenu", GT.$("Stereographic"), "renderSticks", GT.$("Sticks"), "stop", GT.$("Stop"), "strands", GT.$("Strands"), "[color_strands]Menu", null, "PDBstructureMenu", GT.$("Structures"), "colorPDBStructuresMenu", null, "renderMenu", GT.$("Style"), "[color_isosurface]Menu", GT.$("Surfaces"), "surfaceMenu", null, "SYMMETRYSelectComputedMenu", GT.$("Symmetry"), "SYMMETRYshowSymmetry", null, "FILEUNITMenu", null, "systemMenu", GT.$("System"), "relativeTemperature#BFACTORS", GT.$("Temperature (Relative)"), "fixedTemperature#BFACTORS", GT.$("Temperature (Fixed)"), "SIGNEDJAVAcaptureLoopingSPECIAL", GT.$("Toggle capture looping"), "top", PT.split(GT.$("Top[as in \"view from the top, from above\" - (translators: remove this bracketed part]"), "[")[0], "PDBrenderTraceOnly", GT.$("Trace"), "trace", null, "[color_trace]Menu", null, "translations", GT.$("Translations") , "noCharge", GT.$("Uncharged Residues"), "[color_UNITCELL]Menu", GT.$("Unit cell"), "UNITCELLshow", null, "[set_UNITCELL]Menu", null, "showUNITCELLCB", null, "labelUpperLeft", GT.$("Upper Left"), "labelUpperRight", GT.$("Upper Right"), "surfVDW", GT.$("van der Waals Surface"), "VIBRATIONvectorMenu", GT.$("Vectors"), "property_vxyz#VIBRATION", null, "[color_vectors]Menu", null, "VIBRATIONMenu", GT.$("Vibration"), "viewMenuText", GT.$("View {0}"), "viewMenu", GT.$("View"), "violet", GT.$("Violet"), "stereoWallEyed", GT.$("Wall-eyed viewing"), "white", GT.$("White"), "renderWireframe", GT.$("Wireframe"), "labelName", GT.$("With Atom Name"), "labelNumber", GT.$("With Atom Number"), "labelSymbol", GT.$("With Element Symbol"), "yellow", GT.$("Yellow"), "zoomIn", GT.$("Zoom In"), "zoomOut", GT.$("Zoom Out"), "zoomMenu", GT.$("Zoom"), "vector005", GT.o(ang, "0.05"), "bond100", GT.o(ang, "0.10"), "hbond100", null, "ssbond100", null, "vector01", null, "10a", null, "bond150", GT.o(ang, "0.15"), "hbond150", null, "ssbond150", null, "bond200", GT.o(ang, "0.20"), "hbond200", null, "ssbond200", null, "20a", null, "bond250", GT.o(ang, "0.25"), "hbond250", null, "ssbond250", null, "25a", null, "bond300", GT.o(ang, "0.30"), "hbond300", null, "ssbond300", null, "50a", GT.o(ang, "0.50"), "100a", GT.o(ang, "1.0"), "1p", GT.i(pxl, 1), "10p", GT.i(pxl, 10), "3p", GT.i(pxl, 3), "vector3", null, "5p", GT.i(pxl, 5), "atom100", GT.i(vdw, 100), "atom15", GT.i(vdw, 15), "atom20", GT.i(vdw, 20), "atom25", GT.i(vdw, 25), "atom50", GT.i(vdw, 50), "atom75", GT.i(vdw, 75), "SIGNEDNOGLwriteIdtf", GT.o(exm, "IDTF"), "SIGNEDNOGLwriteMaya", GT.o(exm, "Maya"), "SIGNEDNOGLwriteVrml", GT.o(exm, "VRML"), "SIGNEDNOGLwriteX3d", GT.o(exm, "X3D"), "SIGNEDNOGLwriteSTL", GT.o(exm, "STL"), "SIGNEDNOGLwriteGif", GT.o(exi, "GIF"), "SIGNEDNOGLwriteJpg", GT.o(exi, "JPG"), "SIGNEDNOGLwritePng", GT.o(exi, "PNG"), "SIGNEDNOGLwritePngJmol", GT.o(exi, "PNG+JMOL"), "SIGNEDNOGLwritePovray", GT.o(exi, "POV-Ray"), "FILEUNITnineRestricted", GT.o(GT.$("Reload {0} + Display {1}"), new Object[] { "{444 666 1}", "555" } ), "FILEMOLload", GT.o(rld, "(molecular)"), "FILEUNITone", GT.o(rld, "{1 1 1}"), "FILEUNITnine", GT.o(rld, "{444 666 1}"), "vectorScale02", GT.o(scl, "0.2"), "vectorScale05", GT.o(scl, "0.5"), "vectorScale1", GT.o(scl, "1"), "vectorScale2", GT.o(scl, "2"), "vectorScale5", GT.o(scl, "5"), "surfSolvent14", GT.o(GT.$("Solvent Surface ({0}-Angstrom probe)"), "1.4"), "surfSolventAccessible14",GT.o(GT.$("Solvent-Accessible Surface (VDW + {0} Angstrom)"), "1.4"), "vibration20", "*2", "vibration05", "/2", "JAVAmemTotal", "?", "JAVAmemMax",null, "JAVAprocessors",null, "s0", "0", "animfps10", "10", "s10",null, "zoom100", "100%", "zoom150", "150%", "animfps20", "20", "s20",null, "zoom200", "200%", "animfps30", "30", "s30",null, "s40", "40", "zoom400", "400%", "animfps5", "5", "s5",null, "animfps50", "50", "s50",null, "zoom50", "50%", "zoom800", "800%", "JSConsole", GT.$("JavaScript Console"), "jmolMenu", "Jmol", "date" , JC.date, "version", JC.version, "javaVender", Viewer.strJavaVendor, "javaVersion", Viewer.strJavaVersion, "os", Viewer.strOSName, "jmolorg","http://www.jmol.org" , }; GT.setDoTranslate(wasTranslating); for (int i = 1, n = words.length; i < n; i += 2) if (words[i] == null) words[i] = words[i - 2]; return words; } private static String[][] structureContents = { {"jmolorg", "show url \"http://www.jmol.org\"" }, {"help", "help" }, {"mouse", "show url \"http://wiki.jmol.org/index.php/Mouse_Manual\""}, {"translations", "show url \"http://wiki.jmol.org/index.php/Internationalisation\""}, { "colorrasmolCB", ""}, { "hideNotSelectedCB", "set hideNotSelected true | set hideNotSelected false; hide(none)" }, { "perspectiveDepthCB", ""}, { "showAxesCB", "set showAxes true | set showAxes false;set axesMolecular" }, { "showBoundBoxCB", ""}, { "showHydrogensCB", ""}, { "showMeasurementsCB", ""}, { "showSelectionsCB", ""}, { "showUNITCELLCB", ""}, { "selectAll", "SELECT all" }, { "selectNone", "SELECT none" }, { "invertSelection", "SELECT not selected" }, { "allProtein", "SELECT protein" }, { "proteinBackbone", "SELECT protein and backbone" }, { "proteinSideChains", "SELECT protein and not backbone" }, { "polar", "SELECT protein and polar" }, { "nonpolar", "SELECT protein and not polar" }, { "positiveCharge", "SELECT protein and basic" }, { "negativeCharge", "SELECT protein and acidic" }, { "noCharge", "SELECT protein and not (acidic,basic)" }, { "allCarbo", "SELECT carbohydrate" }, { "allNucleic", "SELECT nucleic" }, { "DNA", "SELECT dna" }, { "RNA", "SELECT rna" }, { "nucleicBackbone", "SELECT nucleic and backbone" }, { "nucleicBases", "SELECT nucleic and not backbone" }, { "atPairs", "SELECT a,t" }, { "gcPairs", "SELECT g,c" }, { "auPairs", "SELECT a,u" }, { "A", "SELECT a" }, { "C", "SELECT c" }, { "G", "SELECT g" }, { "T", "SELECT t" }, { "U", "SELECT u" }, { "allHetero", "SELECT hetero" }, { "Solvent", "SELECT solvent" }, { "Water", "SELECT water" }, // same as ligand { "exceptSolvent", "SELECT hetero and not solvent" }, { "nonWaterSolvent", "SELECT solvent and not water" }, { "exceptWater", "SELECT hetero and not water" }, { "Ligand", "SELECT ligand" }, // not implemented { "Lipid", "SELECT lipid" }, { "PDBnoneOfTheAbove", "SELECT not(hetero,protein,nucleic,carbohydrate)" }, { "best", "rotate best -1.0" }, { "front", Box( "moveto 2.0 front;delay 1" ) }, { "left", Box( "moveto 1.0 front;moveto 2.0 left;delay 1" ) }, { "right", Box( "moveto 1.0 front;moveto 2.0 right;delay 1" ) }, { "top", Box( "moveto 1.0 front;moveto 2.0 top;delay 1" ) }, { "bottom", Box( "moveto 1.0 front;moveto 2.0 bottom;delay 1" ) }, { "back", Box( "moveto 1.0 front;moveto 2.0 back;delay 1" ) }, { "axisA", "moveto axis a"}, { "axisB", "moveto axis b"}, { "axisC", "moveto axis c"}, { "axisX", "moveto axis x"}, { "axisY", "moveto axis y"}, { "axisZ", "moveto axis z"}, { "renderCpkSpacefill", "restrict bonds not selected;select not selected;spacefill 100%;color cpk" }, { "renderBallAndStick", "restrict bonds not selected;select not selected;spacefill 23%AUTO;wireframe 0.15;color cpk" }, { "renderSticks", "restrict bonds not selected;select not selected;wireframe 0.3;color cpk" }, { "renderWireframe", "restrict bonds not selected;select not selected;wireframe on;color cpk" }, { "PDBrenderCartoonsOnly", "restrict bonds not selected;select not selected;cartoons on;color structure" }, { "PDBrenderTraceOnly", "restrict bonds not selected;select not selected;trace on;color structure" }, { "atomNone", "cpk off" }, { "atom15", "cpk 15%" }, { "atom20", "cpk 20%" }, { "atom25", "cpk 25%" }, { "atom50", "cpk 50%" }, { "atom75", "cpk 75%" }, { "atom100", "cpk on" }, { "bondNone", "wireframe off" }, { "bondWireframe", "wireframe on" }, { "bond100", "wireframe .1" }, { "bond150", "wireframe .15" }, { "bond200", "wireframe .2" }, { "bond250", "wireframe .25" }, { "bond300", "wireframe .3" }, { "hbondCalc", "hbonds calculate" }, { "hbondNone", "hbonds off" }, { "hbondWireframe", "hbonds on" }, { "PDBhbondSidechain", "set hbonds sidechain" }, { "PDBhbondBackbone", "set hbonds backbone" }, { "hbond100", "hbonds .1" }, { "hbond150", "hbonds .15" }, { "hbond200", "hbonds .2" }, { "hbond250", "hbonds .25" }, { "hbond300", "hbonds .3" }, { "ssbondNone", "ssbonds off" }, { "ssbondWireframe", "ssbonds on" }, { "PDBssbondSidechain", "set ssbonds sidechain" }, { "PDBssbondBackbone", "set ssbonds backbone" }, { "ssbond100", "ssbonds .1" }, { "ssbond150", "ssbonds .15" }, { "ssbond200", "ssbonds .2" }, { "ssbond250", "ssbonds .25" }, { "ssbond300", "ssbonds .3" }, { "structureNone", "backbone off;cartoons off;ribbons off;rockets off;strands off;trace off;" }, { "backbone", "restrict not selected;select not selected;backbone 0.3" }, { "cartoon", "restrict not selected;select not selected;set cartoonRockets false;cartoons on" }, { "cartoonRockets", "restrict not selected;select not selected;set cartoonRockets;cartoons on" }, { "ribbons", "restrict not selected;select not selected;ribbons on" }, { "rockets", "restrict not selected;select not selected;rockets on" }, { "strands", "restrict not selected;select not selected;strands on" }, { "trace", "restrict not selected;select not selected;trace 0.3" }, { "vibrationOff", "vibration off" }, { "vibrationOn", "vibration on" }, { "vibration20", "vibrationScale *= 2" }, { "vibration05", "vibrationScale /= 2" }, { "vectorOff", "vectors off" }, { "vectorOn", "vectors on" }, { "vector3", "vectors 3" }, { "vector005", "vectors 0.05" }, { "vector01", "vectors 0.1" }, { "vectorScale02", "vector scale 0.2" }, { "vectorScale05", "vector scale 0.5" }, { "vectorScale1", "vector scale 1" }, { "vectorScale2", "vector scale 2" }, { "vectorScale5", "vector scale 5" }, { "stereoNone", "stereo off" }, { "stereoRedCyan", "stereo redcyan 3" }, { "stereoRedBlue", "stereo redblue 3" }, { "stereoRedGreen", "stereo redgreen 3" }, { "stereoCrossEyed", "stereo -5" }, { "stereoWallEyed", "stereo 5" }, { "labelNone", "label off" }, { "labelSymbol", "label %e" }, { "labelName", "label %a" }, { "labelNumber", "label %i" }, { "labelCentered", "set labeloffset 0 0" }, { "labelUpperRight", "set labeloffset 4 4" }, { "labelLowerRight", "set labeloffset 4 -4" }, { "labelUpperLeft", "set labeloffset -4 4" }, { "labelLowerLeft", "set labeloffset -4 -4" }, { "zoom50", "zoom 50" }, { "zoom100", "zoom 100" }, { "zoom150", "zoom 150" }, { "zoom200", "zoom 200" }, { "zoom400", "zoom 400" }, { "zoom800", "zoom 800" }, { "zoomIn", "move 0 0 0 40 0 0 0 0 1" }, { "zoomOut", "move 0 0 0 -40 0 0 0 0 1" }, { "spinOn", "spin on" }, { "spinOff", "spin off" }, { "s0", "0" }, { "s5", "5" }, { "s10", "10" }, { "s20", "20" }, { "s30", "30" }, { "s40", "40" }, { "s50", "50" }, { "onceThrough", "anim mode once#" }, { "palindrome", "anim mode palindrome#" }, { "loop", "anim mode loop#" }, { "play", "anim play#" }, { "pause", "anim pause#" }, { "resume", "anim resume#" }, { "stop", "anim off#" }, { "nextframe", "frame next#" }, { "prevframe", "frame prev#" }, { "playrev", "anim playrev#" }, { "rewind", "anim rewind#" }, { "restart", "anim on#" }, { "animfps5", "anim fps 5#" }, { "animfps10", "anim fps 10#" }, { "animfps20", "anim fps 20#" }, { "animfps30", "anim fps 30#" }, { "animfps50", "anim fps 50#" }, { "measureOff", "set pickingstyle MEASURE OFF; set picking OFF" }, { "measureDistance", "set pickingstyle MEASURE; set picking MEASURE DISTANCE" }, { "measureAngle", "set pickingstyle MEASURE; set picking MEASURE ANGLE" }, { "measureTorsion", "set pickingstyle MEASURE; set picking MEASURE TORSION" }, { "PDBmeasureSequence", "set pickingstyle MEASURE; set picking MEASURE SEQUENCE" }, { "measureDelete", "measure delete" }, { "measureList", "console on;show measurements" }, { "distanceNanometers", "select *; set measure nanometers" }, { "distanceAngstroms", "select *; set measure angstroms" }, { "distancePicometers", "select *; set measure picometers" }, { "distanceHz", "select *; set measure hz" }, { "pickOff", "set picking off" }, { "pickCenter", "set picking center" }, // { "pickDraw" , "set picking draw" }, { "pickIdent", "set picking ident" }, { "pickLabel", "set picking label" }, { "pickAtom", "set picking atom" }, { "dragAtom", "set picking dragAtom" }, { "dragMolecule", "set picking dragMolecule" }, { "PDBpickChain", "set picking chain" }, { "pickElement", "set picking element" }, { "modelKitMode", "set modelKitMode" }, { "PDBpickGroup", "set picking group" }, { "pickMolecule", "set picking molecule" }, { "SYMMETRYpickSite", "set picking site" }, { "pickSpin", "set picking spin" }, { "SYMMETRYpickSymmetry", "set picking symmetry" }, { "showConsole", "console" }, { "JSConsole", "JSCONSOLE" }, { "showFile", "console on;show file" }, { "showFileHeader", "console on;getProperty FileHeader" }, { "showHistory", "console on;show history" }, { "showIsosurface", "console on;show isosurface" }, { "showMeasure", "console on;show measure" }, { "showMo", "console on;show mo" }, { "showModel", "console on;show model" }, { "showOrient", "console on;show orientation" }, { "showSpacegroup", "console on;show spacegroup" }, { "showState", "console on;show state" }, { "reload", "load \"\"" }, { "SIGNEDloadPdb", JC.getMenuScript("openPDB") }, { "SIGNEDloadMol", JC.getMenuScript("openMOL") }, { "SIGNEDloadFile", "load ?" }, { "SIGNEDloadUrl", "load http://?" }, { "SIGNEDloadFileUnitCell", "load ? {1 1 1}" }, { "SIGNEDloadScript", "script ?.spt" }, { "SIGNEDJAVAcaptureRock", "animation mode loop;capture '?Jmol.gif' rock y 10"}, { "SIGNEDJAVAcaptureSpin", "animation mode loop;capture '?Jmol.gif' spin y"}, { "SIGNEDJAVAcaptureBegin", "capture '?Jmol.gif'" }, { "SIGNEDJAVAcaptureEnd", "capture ''"}, { "SIGNEDJAVAcaptureOff", "capture off"}, { "SIGNEDJAVAcaptureOn", "capture on"}, { "SIGNEDJAVAcaptureFpsSPECIAL", "animation fps @{0+prompt('Capture replay frames per second?', animationFPS)};prompt 'animation FPS ' + animationFPS"}, { "SIGNEDJAVAcaptureLoopingSPECIAL", "animation mode @{(animationMode=='ONCE' ? 'LOOP':'ONCE')};prompt 'animation MODE ' + animationMode"}, { "writeFileTextVARIABLE", "if (_applet && !_signedApplet) { console;show file } else { write file \"?FILE?\"}" }, { "writeState", "if (_applet && !_signedApplet) { console;show state } else { write state \"?FILEROOT?.spt\"}" }, { "writeHistory", "if (_applet && !_signedApplet) { console;show history } else { write history \"?FILEROOT?.his\"}" }, { "SIGNEDwriteJmol", "write PNGJ \"?FILEROOT?.png\"" }, { "SIGNEDwriteIsosurface", "write isosurface \"?FILEROOT?.jvxl\"" }, { "SIGNEDNOGLwriteGif", "write image \"?FILEROOT?.gif\"" }, { "SIGNEDNOGLwriteJpg", "write image \"?FILEROOT?.jpg\"" }, { "SIGNEDNOGLwritePng", "write image \"?FILEROOT?.png\"" }, { "SIGNEDNOGLwritePngJmol", "write PNGJ \"?FILEROOT?.png\"" }, { "SIGNEDNOGLwritePovray", "write POVRAY \"?FILEROOT?.pov\"" }, { "SIGNEDNOGLwriteVrml", "write VRML \"?FILEROOT?.wrl\"" }, { "SIGNEDNOGLwriteX3d", "write X3D \"?FILEROOT?.x3d\"" }, { "SIGNEDNOGLwriteSTL", "write STL \"?FILEROOT?.stl\"" }, { "SIGNEDNOGLwriteIdtf", "write IDTF \"?FILEROOT?.idtf\"" }, { "SIGNEDNOGLwriteMaya", "write MAYA \"?FILEROOT?.ma\"" }, { "SYMMETRYshowSymmetry", "console on;show symmetry" }, { "UNITCELLshow", "console on;show unitcell" }, { "extractMOL", "console on;getproperty extractModel \"visible\" " }, { "minimize", "minimize" }, { "modelkit", "set modelkitmode" }, // { "calculateVolume", "console on;print \"Volume = \" + {*}.volume() + \" Ang^3\"" }, { "surfDots", "dots on" }, { "surfVDW", "isosurface delete resolution 0 solvent 0 translucent" }, { "surfMolecular", "isosurface delete resolution 0 molecular translucent" }, { "surfSolvent14", "isosurface delete resolution 0 solvent 1.4 translucent" }, { "surfSolventAccessible14", "isosurface delete resolution 0 sasurface 1.4 translucent" }, { "surfMEP", "isosurface delete resolution 0 vdw color range all map MEP translucent" }, { "surf2MEP", "isosurface delete resolution 0 vdw color range -0.1 0.1 map MEP translucent" }, { "surfOpaque", "mo opaque;isosurface opaque" }, { "surfTranslucent", "mo translucent;isosurface translucent" }, { "surfOff", "mo delete;isosurface delete;var ~~sel = {selected};select *;dots off;select ~~sel" }, { "FILEMOLload", "save orientation;load \"\";restore orientation;center" }, { "FILEUNITone", "save orientation;load \"\" {1 1 1} ;restore orientation;center" }, { "FILEUNITnine", "save orientation;load \"\" {444 666 1} ;restore orientation;center" }, { "FILEUNITnineRestricted", "save orientation;load \"\" {444 666 1} ;restore orientation; unitcell on; display cell=555;center visible;zoom 200" }, { "FILEUNITninePoly", "save orientation;load \"\" {444 666 1} ;restore orientation; unitcell on; display cell=555; polyhedra 4,6 (displayed);center (visible);zoom 200" }, { "1p", "on" }, { "3p", "3" }, { "5p", "5" }, { "10p", "10" }, { "10a", "0.1" }, { "20a", "0.20" }, { "25a", "0.25" }, { "50a", "0.50" }, { "100a", "1.0" }, }; @Override public String getMenuAsText(String title) { return getStuctureAsText(title, menuContents, structureContents); } }