Constant Field Values

Contents

• cramer2.rules.*
• eye.rules.*
• mic.rules.*
• sicret.rules.*
• toxTree.apps.*
• toxTree.core.*
• toxtree.data.*
• toxTree.exceptions.*
• toxTree.io.*
• toxtree.plugins.*
• toxTree.query.*
• toxTree.tree.*
• toxtree.tree.*
• toxtree.ui.*
• verhaar.query.*

cramer2.rules.*

cramer2.rules.RuleBenzeneAnalogues

Modifier and Type	Constant Field	Value
public static final String	smarts	"[$([aH1;r6]),$([aX2;r6]),$([a;r6]~A)!$(a~A~*)]1~[$([aH1]),$([aX2]),$(a~A)!$(a~A~*)]~[$([aH1]),$([aX2]),$(a~A)!$(a~A~*)]~[$([aH1]),$([aX2]),$(a~A)!$(a~A~*)]~[$([aH1]),$([aX2]),$(a~A)!$(a~A~*)]~[$([aH1]),$([aX2]),$(a~A)!$(a~A~*)]1"

cramer2.rules.RuleDivalentSulphur

Modifier and Type	Constant Field	Value
protected static final String	originalsmarts	"[$([S;H0;D2])!$([S;H0;D2]([$([CX4]),$(C(=O)C)])[$([CX4]),$(C(=O)C)])]"
protected static final String	smarts	"[$([S;H0;D2])!$([S;H0;D2]([CX4])[CX4])!$([S;H0;D2]([CX4])C(=O)C)!$([S;H0;D2](C(=O)C)C(=O)C)]"

eye.rules.*

eye.rules.Rule15

Modifier and Type	Constant Field	Value
public static final transient String	MSG_15	"Derivatives of 2-halogen benzoic acids and corresponding alkali salts"

eye.rules.Rule16

Modifier and Type	Constant Field	Value
public static final String	MSG16	"Halogen benzenes with substituents containing carboxylic acid groups"

eye.rules.Rule17

Modifier and Type	Constant Field	Value
public static final String	MSG17	"Aliphatic esters of chloro formic acid"

eye.rules.Rule31

Modifier and Type	Constant Field	Value
public static final String	MSG31	"Aliphatic alpha hydroesters"

eye.rules.Rule32

Modifier and Type	Constant Field	Value
public static final String	MSG32	"Aliphatic carboxylic acids"

eye.rules.Rule33

Modifier and Type	Constant Field	Value
public static final String	MSG33	"Aromatic ammonium salts"

eye.rules.Rule34

Modifier and Type	Constant Field	Value
public static final String	MSG34	"Substituted benzoic acid halogenides"

eye.rules.Rule35

Modifier and Type	Constant Field	Value
public static final String	MSG35	"Aliphatic iso(thio)cyanates"

eye.rules.Rule36

Modifier and Type	Constant Field	Value
public static final String	MSG36	"Chlorosilanes"

eye.rules.Rule37

Modifier and Type	Constant Field	Value
public static final String	MSG37	"Mixed oxycarboxysilanes"

eye.rules.Rule38

Modifier and Type	Constant Field	Value
public static final String	MSG38	"Aliphatic amines"

eye.rules.Rule39

Modifier and Type	Constant Field	Value
public static final String	MSG39	"Alkali salts of aliphatic alcohols"

mic.rules.*

mic.rules.SA34

Modifier and Type	Constant Field	Value
public static final String	SA34	"SA34"
public static final String	SA34_title	"H-acceptor-path3-H-acceptor"
public static final String	smarts	"[O,o,OH,N,n,$(P=O),$(C=S),$(S=O),$(C=O)]~[A,a]~[A,a]~[O,o,OH,N,n,$(P=O),$(C=S),$(S=O),$(C=O)]"

sicret.rules.*

sicret.rules.RuleAcidAnhydrides

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleAcrylicAcids

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleC10_C20AliphaticAlcohols

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleCarbamoylHalide

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleDi_Tri_Nitrobenzenes

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleHalonitrobenzene

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

sicret.rules.RuleOandPQuinones

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic group"

toxTree.apps.*

toxTree.apps.toxForest.ToxForestActions

Modifier and Type	Constant Field	Value
public static final String	_aEditMethod	"Edit decision tree"
public static final String	_aSkipNotImplemented	"Skip not implemented ruiles"
public static final String	_CompoundAction	"Chemical Compounds"
public static final String	_EditAction	"Edit"
public static final String	_FileAction	"File"
public static final String	_HazardAction	"Toxic Hazard"

toxTree.core.*

toxTree.core.IMoleculesIterator

Modifier and Type	Constant Field	Value
public static final String	MSG_EMPTYFILE	"No molecules found! Perhaps the file is empty!"
public static final String	MSG_ERRORONOPEN	"Error when reading file\t"
public static final String	MSG_ERRORONSAVE	"Error when writing file\t"
public static final String	MSG_OPENSUCCESS	"Reading from file successfull\t"
public static final String	MSG_SAVESUCCESS	"Writing to file successfull\t"
public static final String	MSG_UNSUPPORTEDFORMAT	"Error Unsupported format\t"

toxTree.core.Introspection

Modifier and Type	Constant Field	Value
public static final String	TOXTREE_HOME	"TOXTREE"

toxTree.core.XMLSerializable

Modifier and Type	Constant Field	Value
public static final String	xmltag_CATEGORIES	"categories"
public static final String	xmltag_CATEGORY	"category"
public static final String	xmltag_CATEGORYTHRESHOLD	"threshold"
public static final String	xmltag_CLASS	"class"
public static final String	xmltag_EXPLANATION	"explanation"
public static final String	xmltag_ID	"id"
public static final String	xmltag_METHOD	"method"
public static final String	xmltag_METHODPARAMETER	"parameter"
public static final String	xmltag_METHODS	"methods"
public static final String	xmltag_NAME	"name"
public static final String	xmltag_RULE	"rule"
public static final String	xmltag_RULEEXAMPLE	"example"
public static final String	xmltag_RULES	"rules"
public static final String	xmltag_TREEROOT	"root"

toxtree.data.*

toxtree.data.ActionList

Modifier and Type	Constant Field	Value
public static final String	_CHILDREN	"CHILDREN"
public static final String	_MNEMONICID	"MNEMONIC"
public static final String	_TYPEID	"TYPE"

toxtree.data.ToxTreeActions

Modifier and Type	Constant Field	Value
public static final String	_aEditMethod	"Edit decision tree"
public static final String	_aSkipNotImplemented	"Skip not implemented ruiles"
public static final String	_CompoundAction	"Chemical Compounds"
public static final String	_EditAction	"Edit"
public static final String	_FileAction	"File"
public static final String	_HazardAction	"Toxic Hazard"

toxTree.exceptions.*

toxTree.exceptions.DecisionResultUIDException

Modifier and Type	Constant Field	Value
public static final String	_mismatchMessage	"Serial Version UID mismatch! "

toxTree.exceptions.DesisionMethodUIDException

Modifier and Type	Constant Field	Value
public static final String	_mismatchMessage	"Serial Version UID mismatch! "

toxTree.exceptions.DRuleNotImplemented

Modifier and Type	Constant Field	Value
protected static final String	_MESSAGE	"Rule not implemented!\t"

toxTree.io.*

toxTree.io.Tools

Modifier and Type	Constant Field	Value
public static final String	_icon	"icon.png"
public static final String	_img_path	"toxTree/ui/tree/images/"
public static final String	_logo	"butterfly.png"

toxTree.io.batch.BatchProcessing

Modifier and Type	Constant Field	Value
public static final transient int	STATUS_ABORTED	4
public static final transient int	STATUS_FINISHED	2
public static final transient int	STATUS_NOTINITIALIZED	5
public static final transient int	STATUS_NOTSTARTED	0
public static final transient int	STATUS_PAUSED	3
public static final transient int	STATUS_RUNNING	1

toxtree.plugins.*

toxtree.plugins.moa.categories.CategoryAcetylcholinesteraseInhibitors

Modifier and Type	Constant Field	Value
protected static final String	title	"Acetylcholinesterase Inhibitors"

toxtree.plugins.moa.categories.CategoryCentralNervousSystemSeizureAgents

Modifier and Type	Constant Field	Value
protected static final String	title	"Category Central Nervous System Seizure Agents"

toxtree.plugins.moa.categories.CategoryElectrophileProelectrophileReactivity

Modifier and Type	Constant Field	Value
protected static final String	title	"Electrophile / Proelectrophile Reactivity"

toxtree.plugins.moa.categories.CategoryOxidativePhosphorylationUncouplers

Modifier and Type	Constant Field	Value
protected static final String	title	"Oxidative phosphorylation uncoupling"

toxtree.plugins.moa.categories.CategoryUnknown

Modifier and Type	Constant Field	Value
protected static final String	title	"Unknown"

toxtree.plugins.smartcyp.SMARTCypTreeResult

Modifier and Type	Constant Field	Value
public static final String	FORMAT	"SMARTCyp.Rank%s%d.%s"

toxTree.query.*

toxTree.query.FunctionalGroups

Modifier and Type	Constant Field	Value
public static final String	ACETAL	"acetal"
public static final String	ACETYLENIC	"acetylenic"
public static final String	ALCOHOL	"alcohol"
public static final String	ALDEHYDE	"aldehyde"
public static final String	ALLOCATED	"ALLOCATED"
public static final String	ANHYDRIDE	"ANHYDRIDE"
public static final String	AROMATIC_AMINE	"aromatic amine"
public static final String	AROMATIC_N_OXIDE	"Aromatic ring N oxide"
public static final String	C	"C"
public static final String	CARBONATE	"CARBONATE"
public static final String	CARBONYL	"carbonyl"
public static final String	CARBONYL_ABUNSATURATED	"CARBONYL_ABUNSATURATED"
public static final String	CARBOXYLIC_ACID	"carboxylic acid"
public static final String	CARBOXYLIC_ACID_SALT	"carboxylic acid salt"
public static final String	CH	"CH"
public static final String	CH2	"CH2"
public static final String	CH3	"CH3"
public static final String	CYANO	"cyano"
public static final String	CYCLIC_DIESTER	"cyclic diester"
public static final String	DIAZO	"diazo"
public static final String	DONTMARK	"DONTMARK"
public static final String	ESTER	"ester"
public static final String	ETHER	"ether"
public static final String	HYDROCARBON	"hydrocarbon"
public static final String	HYDROCHLORIDE_OF_AMINE	"hydrochloride of amine"
public static final String	HYDROXY	"hydroxy"
public static final String	HYDROXY1	"1\'hydroxy"
public static final String	HYDROXYESTERSUBSTITED	"hydroxy ester substituted"
public static final String	ISOPRENE	"isoprene unit"
public static final String	KETONE	"ketone"
public static final String	KETONE_SIDECHAIN	"ketone_sidechain"
public static final String	LACTONE	"lactone"
public static final String	MERCAPTAN	"mercaptan"
public static final String	METHOXY	"methoxy"
public static final String	METHYLETHER	"methylether"
public static final String	MSG_HASGROUP	"\thas group \t"
public static final String	MSG_MOLECULEIS	"Molecule is\t"
public static final String	NITRO	"nitro"
public static final String	NNITROSO	"N-nitroso"
public static final String	PHOSPHATE	"phosphate"
public static final String	POLYOXYETHYLENE	"polyoxyethylene"
public static final String	PRIMARY_AMINE	"Primary amine"
public static final String	QUATERNARY_NITROGEN	"quaternary nitrogen"
public static final String	QUATERNARY_NITROGEN_EXCEPTION	"quaternary nitrogen exception"
public static final String	RING_NUMBERING	"RingNumbering"
public static final String	SECONDARY_AMINE	"Secondary amine"
public static final String	SECONDARY_AMINE_ALIPHATIC	"Aliphatic Secondary amine"
public static final String	SULPHAMATE	"sulphamate"
public static final String	SULPHATE	"sulphate"
public static final String	SULPHATE_OF_AMINE	"sulphate of amine"
public static final String	SULPHIDE	"sulphide"
public static final String	SULPHONATE	"sulphonate"
public static final String	TERTIARY_AMINE	"tertiary amine"
public static final String	THIOESTER	"thioester"
public static final String	TRIAZENO	"triazeno"

toxTree.query.MolAnalyser

Modifier and Type	Constant Field	Value
public static final String	HETEROAROMATIC	"Heteroaromatic"
public static final String	HETEROCYCLIC	"Heterocyclic"
public static final String	HETEROCYCLIC3	"3-membered heterocyclic"

toxTree.query.MolFlags

Modifier and Type	Constant Field	Value
public static final String	MOLFLAGS	"CRAMERFLAGS"
public static final String	PARENT	"PARENT"

toxTree.tree.*

toxTree.tree.ProgressStatus

Modifier and Type	Constant Field	Value
public static final transient String	_eError	"ERROR: \t"
public static final transient String	_eMethodNotAssigned	"Decision method not assigned!"
public static final transient String	_eResultIsEstimating	"Decision method is being applied now ...!"
public static final transient String	_eResultNotEstimated	"Decision method has not been applied yet!"
public static final transient String	_eUnknownState	"Unknown state !\t"
public static final transient String	_pClassID	"ClassID"
public static final transient String	_pDecisionMethod	"DecisionMethod"
public static final transient String	_pRuleResult	"RuleResult"

toxTree.tree.RuleResult

Modifier and Type	Constant Field	Value
public static final String	prefix	"http://localhost"
protected static final String	wwwAlertFormat	"%s.%s"

toxTree.tree.Tree2PrefuseGraph

Modifier and Type	Constant Field	Value
public static final String	FIELD_ANSWER	"answer"
public static final String	FIELD_CATEGORY	"category"
public static final String	FIELD_EXPLANATION	"explanation"
public static final String	FIELD_ID	"id"
public static final String	FIELD_NAME	"name"
public static final String	FIELD_NODETYPE	"nodetype"
public static final String	FIELD_RULE	"rule"
public static final String	FIELD_SHORT_NAME	"short"

toxTree.tree.cramer.RuleKetoneAlcoholEtc

Modifier and Type	Constant Field	Value
public static final transient String	MSG_18H	"Acyclic aliphatic ketone,ketal or ketoalcohol with >=4 carbons on either side of the keto group\t"

toxTree.tree.cramer.RuleSomeBenzeneDerivatives

Modifier and Type	Constant Field	Value
public static final transient String	MSG_ALKOXYPARACH	"Alkoxy group para to hydrocarbon chain susbtituent\t"
public static final transient String	MSG_BENZENESUBSTITUENT	"Benzene substituent found:\t"

toxtree.tree.*

toxtree.tree.cramer3.rules.RuleQ20

Modifier and Type	Constant Field	Value
public static final String	_acetal	"acetal"
public static final String	_alcohol	"alcohol"
public static final String	_aldehyde_except_dialdehydes	"aldehyde (except for vicinal dialdehydes)"
public static final String	_aliphatic_chain	"aliphatic chain"
public static final String	_amide	"amide"
public static final String	_carboxylic_acid	"carboxylic acid"
public static final String	_ester	"ester"
public static final String	_ketal	"ketal"
public static final String	_ketone	"ketone"
public static final String	_sulfamate_salt1	"sulfamate salt +1"
public static final String	_sulfamate_salt2	"sulfamate salt +2"
public static final String	_sulfamate_salt3	"sulfamate salt +3"
public static final String	_sulfide	"sulfide"
public static final String	_sulfonate_salt1	"sulfonate salt +1"
public static final String	_sulfonate_salt2	"sulfonate salt +2"
public static final String	_sulfonate_salt3	"sulfonate salt +3"

toxTree.tree.rules.RuleElements

Modifier and Type	Constant Field	Value
public static final int	modeAllSpecifiedElements	1
public static final int	modeAnySpecifiedElements	2
public static final int	modeOnlySpecifiedElements	0

toxTree.tree.rules.smarts.Convertor

Modifier and Type	Constant Field	Value
public static final int	COORDINATES_2D	2
public static final int	COORDINATES_3D	3

toxtree.ui.*

toxtree.ui.actions.ClearResultAction

Modifier and Type	Constant Field	Value
public static final String	_aClearResults	"Clear results"

toxtree.ui.actions.EditCompoundAction

Modifier and Type	Constant Field	Value
public static final String	_aEditCompound	"Edit compound"

toxtree.ui.actions.EstimateAction

Modifier and Type	Constant Field	Value
public static final String	_aEstimate	"Estimate"

toxtree.ui.actions.EstimateAllAction

Modifier and Type	Constant Field	Value
public static final String	_aEstimateAll	"Estimate all"

toxtree.ui.actions.ExplainAction

Modifier and Type	Constant Field	Value
public static final String	_aExplain	"Explain"

toxtree.ui.tree.EditTreeActions

Modifier and Type	Constant Field	Value
public static final String	ACTION_EDITCATEGORY	"Edit category"
public static final String	ACTION_EDITRULE	"Edit rule"
public static final String	ACTION_MODIFYEXPLANATION	"Modify explanation"
public static final String	ACTION_MODIFYNOBRANCH	"ModifyNoBranch"
public static final String	ACTION_MODIFYNOCATEGORY	"ModifyNoCategory"
public static final String	ACTION_MODIFYNODE	"Edit rule"
public static final String	ACTION_MODIFYYESBRANCH	"ModifyYesBranch"
public static final String	ACTION_MODIFYYESCATEGORY	"ModifyYesCategory"
public static final String	ACTION_NEWCATEGORY	"Select from list"
public static final String	ACTION_NEWRULE	"New rule"
public static final String	ACTION_VERIFY	"Delete rule"
public static final String	ACTION_VERIFYUNUSED	"Remove unused"

toxtree.ui.tree.TreePrefuse

Modifier and Type	Constant Field	Value
public static final String	EDGES	"graph.edges"
public static final String	GRAPH	"graph"
public static final String	NODES	"graph.nodes"

toxtree.ui.tree.actions.LoadAndEditTreeAction

Modifier and Type	Constant Field	Value
public static final String	_aEditMethod	"Load from file"

toxtree.ui.tree.actions.NewTreeAction

Modifier and Type	Constant Field	Value
public static final String	_aNewMethod	"New decision tree"

toxtree.ui.tree.actions.SelectAndEditTreeAction

Modifier and Type	Constant Field	Value
public static final String	_aEditMethod	"Select from list"

toxtree.ui.tree.actions.SelectTreeAction

Modifier and Type	Constant Field	Value
public static final String	_aSelectMethod	"Select a decision tree"

toxtree.ui.tree.actions.ViewTreeAction

Modifier and Type	Constant Field	Value
public static final String	_aViewMethod	"View decision tree"

verhaar.query.*

verhaar.query.FunctionalGroups

Modifier and Type	Constant Field	Value
public static final String	ANILINE	"ANILINE"
public static final String	AZARIDINE	"AZARIDINE"
public static final String	BENZYLALCOHOL	"BENZYLALCOHOL"
public static final String	CYCLICESTER	"CYCLICESTER"
public static final String	EPOXIDE	"EPOXIDE"
public static final String	HALOGEN	"HALOGEN"
public static final String	HALOGEN_ALPHA_FROM_UNSATURATION	"HALOGEN_ALPHA_FROM_UNSATURATION"
public static final String	HALOGEN_BETA_FROM_UNSATURATION	"HALOGEN_BETA_FROM_UNSATURATION"
public static final String	IONICGROUP	"IONICGROUP"
public static final String	KETONE_A_B_UNSATURATED	"KETONE_A_B_UNSATURATED"
public static final String	n	"n"
public static final String	PEROXIDE	"PEROXIDE"
public static final String	PHENOL	"PHENOL"
public static final String	PYRIDINE	"PYRIDINE"
public static final String	RINGSUBSTITUTED	"RINGSUBSTITUTED"