com.actelion.research.chem.io.CompoundTableConstants Maven / Gradle / Ivy

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/*
* Copyright (c) 1997 - 2016
* Actelion Pharmaceuticals Ltd.
* Gewerbestrasse 16
* CH-4123 Allschwil, Switzerland
*
* All rights reserved.
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* modification, are permitted provided that the following conditions are met:
*
* 1. Redistributions of source code must retain the above copyright notice, this
*    list of conditions and the following disclaimer.
* 2. Redistributions in binary form must reproduce the above copyright notice,
*    this list of conditions and the following disclaimer in the documentation
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*    names of its contributors may be used to endorse or promote products
*    derived from this software without specific prior written permission.
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* THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
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* WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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* (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
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* SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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package com.actelion.research.chem.io;

import java.awt.*;

public interface CompoundTableConstants {
    String cColumnUnassignedItemText = "";
    String cColumnUnassignedCode = "";
    String cColumnNameRowList = "List '";

	// visible special columns
    String cColumnTypeIDCode = "idcode";
    String cColumnTypeRXNCode = "rxncode";

    String[] cParentSpecialColumnTypes = {
                                    cColumnTypeIDCode,
                                    cColumnTypeRXNCode };

        // non-parent special columns cannot be displayed
    String cColumnType2DCoordinates = "idcoordinates2D";
    String cColumnType3DCoordinates = "idcoordinates3D";
    String cColumnTypeAtomColorInfo = "atomColorInfo";
    String cColumnTypeFlagColors = "flagColors";
    String cColumnTypeReactionMapping = "atomMapping";
    String cColumnTypeReactionObjects = "reactionObjects";
    String cColumnTypeNegRecImage = "negRecImg";
    String cColumnTypeTransformation = "transformation";
        // in addition to these all DescriptorHandler.SHORT_NAMEs are valid column types

    // Flag values are ORed values from (1:green, 2:yellow, 4:orange, 8:red, ...)
    Color[] cFlagColor = { Color.GREEN, Color.YELLOW, Color.ORANGE, Color.RED, Color.CYAN, Color.BLUE, Color.MAGENTA, Color.BLACK, new Color(192,192,192) };

    String cReactionPartReaction = "reaction";  // this may only be used, if a molecule type descriptor is calculated from all merged reaction molecules
    String cReactionPartReactants = "reactants";
    String cReactionPartProducts = "products";
    String cReactionPartDelimiter = " of ";

    int cTextExclusionTypeContains = 1;
    int cTextExclusionTypeStartsWith = 2;
    int cTextExclusionTypeEndsWith = 3;
    int cTextExclusionTypeEquals = 4;
    int cTextExclusionTypeRegEx = 5;

    int cMaxTextCategoryCount = 65536;
    int cMaxDateOrDoubleCategoryCount = 16384;

    boolean cAllowLogModeForNegativeOrZeroValues = true;

    // summary mode for displaying values.
    int cSummaryModeNormal = 0;
    int cSummaryModeMean = 1;
    int cSummaryModeMedian = 2;
    int cSummaryModeMinimum = 3;
    int cSummaryModeMaximum = 4;
    int cSummaryModeSum = 5;
    String[] cSummaryModeText = { "All Values", "Mean Value", "Median Value", "Lowest Value", "Highest Value", "Sum" };
    String[] cSummaryModeCode = { "displayNormal","displayMean","displayMedian","displayMin","displayMax","displaySum" };

    int cDataTypeAutomatic = 0;
    int cDataTypeFloat = 1;
    int cDataTypeInteger = 2;
    int cDataTypeDate = 3;
    int cDataTypeString = 4;
    String cForceCategoriesCode = "_categories";
    String[] cDataTypeCode = {"auto", "num", "int", "date", "text"};
    String[] cDataTypeText = {"Automatic", "Floating Point", "Integer", "Date", "Text"};

    // highlight mode for part-of-structure highlighting depending on current record similarity
    int cStructureHiliteModeFilter = 0;
    int cStructureHiliteModeCurrentRow = 1;
    int cStructureHiliteModeNone = 2;
    String[] cStructureHiliteModeText = { "Most Recent Filter", "Similarity To Reference Row", "No Highlighting" };
    String[] cStructureHiliteModeCode = { "hiliteFilter", "hiliteCurrent", "hiliteNone" };

    // highlight mode for part-of-reaction highlighting depending on current record similarity
    int cReactionHiliteModeReactionCenter = 0;
    int cReactionHiliteModeMapping = 1;
    int cReactionHiliteModeNone = 2;
    String[] cReactionHiliteModeText = { "Reaction Center", "Mapped Atoms", "No Highlighting" };
    String[] cReactionHiliteModeCode = { "hiliteReactionCenter", "hiliteMapping", "hiliteNone" };

    String NEWLINE_REGEX = "\\r?\\n|\\r";	// regex for platform independent new line char(s)
	String NEWLINE_STRING = "";	// used in .dwar, .txt and .cvs files to indicate next line within a cell
	String TAB_STRING = "";	// used in .dwar, .txt and .cvs files to indicate a tabulator within a cell
    String cEntrySeparator = "; ";
    byte[] cEntrySeparatorBytes = { ';', ' '};
    String cLineSeparator = "\n";
    byte cLineSeparatorByte = '\n'; // this must be equal to cLineSeparator
    String cRangeSeparation = " <= x < ";
    String cRangeNotAvailable = "";
    String cDefaultDetailSeparator = "|#|";
    String cDetailIndexSeparator = ":";
    String cTextMultipleCategories = "";

    String cColumnPropertySpecialType = "specialType";
    String cColumnPropertyParentColumn = "parent";
    String cColumnPropertyRelatedIdentifierColumn = "idColumn";
    String cColumnPropertyRelatedCatalystColumn = "catalystColumn";    // one could think of coupling solvent, condition, etc as well
    String[] cColumnRelationTypes = {cColumnPropertyRelatedIdentifierColumn, cColumnPropertyRelatedCatalystColumn};

    String cColumnPropertyDisplayGroup = "displayGroup";  // Columns within same display group can be easily shown and hidden together; cell entries in same groups alo relate to each other in entry order
    String cColumnPropertyUseThumbNail = "useThumbNail";
    String cColumnPropertyImagePath = "imagePath";
    String cColumnPropertyIsFragment = "isFragment";    // specifies for structure & reaction columns, whether the fragment bit is set, when editing a new object
    String cColumnPropertyReactionPart = "reactionPart";
    String cColumnPropertyIsClusterNo = "isClusterNo";
    String cColumnPropertyDataMin = "dataMin";
    String cColumnPropertyDataMax = "dataMax";
    String cColumnPropertyCyclicDataMax = "cyclicDataMax";
    String cColumnPropertyDetailCount = "detailCount";
    String cColumnPropertyDetailName = "detailName";
    String cColumnPropertyDetailType = "detailType";
    String cColumnPropertyOrbitType = "orbitType";
    String cColumnPropertyDetailSource = "detailSource";
    String cColumnPropertyDetailSeparator = "detailSeparator";
    String cColumnPropertyDescriptorVersion = "version";
    String cColumnPropertyIsDisplayable = "isDisplayable";
    String cColumnPropertyBinBase = "binBase";
    String cColumnPropertyBinSize = "binSize";
    String cColumnPropertyBinIsLog = "binIsLog";
    String cColumnPropertyBinIsDate = "binIsDate";
    String cColumnPropertyLookupCount = "lookupCount";
    String cColumnPropertyLookupName = "lookupName";
    String cColumnPropertyLookupURL = "lookupURL";
    String cColumnPropertyLookupFilter = "lookupFilter";
    String cColumnPropertyLookupFilterRemoveMinus = "lookupFilterRemoveMinus";
    String cColumnPropertyLookupEncode = "lookupEncode";
    String cColumnPropertyLookupDetailURL = "lookupDetailURL";
    String cColumnPropertyCategorySpecificLookup = "catSpecificLookup";
    String cColumnPropertyLaunchCount = "launchCount";
    String cColumnPropertyLaunchName = "launchName";
    String cColumnPropertyLaunchCommand = "launchCommand";
    String cColumnPropertyLaunchOption = "launchOption";
    String cColumnPropertyLaunchDecoration = "launchDecoration";
	String cColumnPropertyLaunchAllowMultiple = "launchAllowMultiple";
    String cColumnPropertyOpenExternalName = "openExternalName";
    String cColumnPropertyOpenExternalPath = "openExternalPath";
    String cColumnPropertyReferencedColumn = "refColumn";
    String cColumnPropertyReferenceStrengthColumn = "refStrengthColumn";
    String cColumnPropertyReferenceType = "refType";
    String cColumnPropertyReferenceTypeRedundant = "redundant";	// a connection is always referenced on both records
    String cColumnPropertyReferenceTypeTopDown = "topdown";	// a connection is only referenced from top record
    String cColumnPropertyFormula = "formula";
    String cColumnPropertyCompoundProperty = "compoundProperty";
    String cColumnPropertySuperposeMolecule = "superposeMol";	// idcode+coords to be displayed in every cell
    String cColumnPropertyShowSuperposeMolecule = "showSuperposeMol";	// whether to show the superpose molecule (default is true)
    String cColumnPropertyProteinCavity = "proteinCavity";	// idcode+coords of protein cavity to be displayed in every cell
    String cColumnPropertyNaturalLigand = "naturalLigand";	// idcode+coords of natural ligand, if proteinCavity is given (not shown, used for surface creation)
    String cColumnPropertyShowNaturalLigand = "showNaturalLigand";	// whether to show the natural ligand in addition to row's structure; default is true
    String cColumnPropertySuperpose = "superpose";  // cSuperposeValueReferenceRow or null
    String cColumnPropertySuperposeAlign = "align";  // cSuperposeAlignValueShape or null
    String cColumnProperty3DFragmentSplit = "split3D"; // if "true": unconnected fragments of 3D-structure are shown as differently colored V3DMolecules
    String cColumnPropertyCommentUploadStatus = "commentUploadStatus";
    String cColumnPropertyCommentDepartment = "commentDepartment";
    String cColumnPropertyCalculated = "calculated"; //for columns that can be calculated by a task
    String cColumnPropertyChemistryDisplayMode = "chemistryDisplayMode"; // display mode for molecules, e.g. to better recognize query features
    String cColumnPropertyChemistryTextSize = "chemistryTextSize"; // display text size for molecule atom labels; default is 1.0
    String cColumnPropertySARFirstRGroup = "firstRGroup"; // first R-group number used with core-based SAR on Scaffolds (sub-SAR)

    String cSuperposeValueReferenceRow = "refRow";  // "reference" or null
    String cSuperposeAlignValueShape = "shape";  // "reference" or null

    String cNativeFileHeaderStart = "";
    String cNativeFileHeaderEnd = "";
    String cNativeFileVersion = "version";
    String cNativeFileRowCount = "rowcount";
    String cNativeFileCreated = "created";

    String cColumnPropertyStart = "";
    String cColumnPropertyEnd = "";
    String cColumnName = "columnName";
    String cColumnProperty = "columnProperty";

    String cHitlistDataStart = "";
    String cHitlistDataEnd = "";
    String cHitlistName = "hitlistName";
    String cHitlistData = "hitlistData";

    String cDetailDataStart = "";
    String cDetailDataEnd = "";
    String cDetailID = "detailID";

    String cTemplateTagName = "datawarrior properties";
    String cPropertiesStart = "<"+cTemplateTagName+">";
    String cPropertiesEnd ="";

    String cViewConfigTagName = "view configuration";

    String cDataDependentPropertiesStart = "";
    String cFileExplanationEnd = "";

    String cMacroListStart = "";
    String cMacroListEnd = "";

    String cAutoStartMacro = "autoStartMacro";
	}