Constant Field Values

Contents

• com.compomics.*

com.compomics.*

com.compomics.software.ToolFactory

Modifier and Type	Constant Field	Value
public static final String	CONFIG_FOLDER	"-config_folder"
public static final String	OUTPUT_FOLDER_OPTION	"-output_folder"
public static final String	PEPTIDE_SHAKER_FILE_OPTION	"-psdb"
public static final String	PEPTIDE_SHAKER_PX_ACCESSION_OPTION	"-pxAccession"
public static final String	PEPTIDE_SHAKER_PX_ACCESSION_PRIVATE_OPTION	"-pxAccessionPrivate"
public static final String	PEPTIDE_SHAKER_URL_DOWNLOAD_FOLDER_OPTION	"-zipUrlFolder"
public static final String	PEPTIDE_SHAKER_URL_OPTION	"-zipUrl"
public static final String	PROJECT_NAME_OPTION	"-project_name"
public static final String	SEARCHGUI_FASTA_FILE_OPTION	"-fasta"
public static final String	SEARCHGUI_PARAMETERS_FILE_OPTION	"-identification_parameters"
public static final String	SEARCHGUI_RAW_FILE_OPTION	"-raw"
public static final String	SEARCHGUI_SPECTRUM_FILE_OPTION	"-mgf"
public static final String	SPECIES_OPTION	"-species"
public static final String	SPECIES_TYPE_OPTION	"-species_type"

com.compomics.software.autoupdater.MavenJarFile

Modifier and Type	Constant Field	Value
public static final int	CENATT	36
public static final int	CENATX	38
public static final int	CENCOM	32
public static final int	CENCRC	16
public static final int	CENDSK	34
public static final int	CENEXT	30
public static final int	CENFLG	8
public static final int	CENHDR	46
public static final int	CENHOW	10
public static final int	CENLEN	24
public static final int	CENNAM	28
public static final int	CENOFF	42
public static final long	CENSIG	33639248L
public static final int	CENSIZ	20
public static final int	CENTIM	12
public static final int	CENVEM	4
public static final int	CENVER	6
public static final int	ENDCOM	20
public static final int	ENDHDR	22
public static final int	ENDOFF	16
public static final long	ENDSIG	101010256L
public static final int	ENDSIZ	12
public static final int	ENDSUB	8
public static final int	ENDTOT	10
public static final int	EXTCRC	4
public static final int	EXTHDR	16
public static final int	EXTLEN	12
public static final long	EXTSIG	134695760L
public static final int	EXTSIZ	8
public static final int	LOCCRC	14
public static final int	LOCEXT	28
public static final int	LOCFLG	6
public static final int	LOCHDR	30
public static final int	LOCHOW	8
public static final int	LOCLEN	22
public static final int	LOCNAM	26
public static final long	LOCSIG	67324752L
public static final int	LOCSIZ	18
public static final int	LOCTIM	10
public static final int	LOCVER	4

com.compomics.software.cli.CommandLineUtils

Modifier and Type	Constant Field	Value
public static final String	FORMATTER	"%-35s"
public static final String	SEPARATOR	","

com.compomics.software.settings.UtilitiesPathParameters

Modifier and Type	Constant Field	Value
public static final String	configurationFileName	"resources/conf/paths.txt"
public static final String	defaultPath	"default"
public static final String	separator	"="

com.compomics.util.BinaryArrayImpl

Modifier and Type	Constant Field	Value
public static final String	BIG_ENDIAN_LABEL	"big"
public static final int	BYTES_TO_HOLD_DOUBLE	8
public static final int	BYTES_TO_HOLD_FLOAT	4
public static final String	DOUBLE_PRECISION	"64"
public static final String	FLOAT_PRECISION	"32"
public static final String	LITTLE_ENDIAN_LABEL	"little"

com.compomics.util.Util

Modifier and Type	Constant Field	Value
public static final String	DEFAULT_COLUMN_SEPARATOR	"\t"
public static final String	ENCODING	"UTF-8"
public static final double	MASS_PER_AA	100.0

com.compomics.util.experiment.Constants

Modifier and Type	Constant Field	Value
public static final double	AMU_NO_EXP	1.660538921
public static final double	AVOGADRO_NO_EXP	6.02214129

com.compomics.util.experiment.biology.genes.ProteinGeneDetailsProvider

Modifier and Type	Constant Field	Value
public static final String	GENE_MAPPING_FILE_SUFFIX	"_gene_mappings"
public static final String	GO_MAPPING_FILE_SUFFIX	"_go_mappings"
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.genes.ensembl.GeneMapping

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.genes.go.GoDomains

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.genes.go.GoMapping

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.ions.impl.ElementaryIon

Modifier and Type	Constant Field	Value
public static final int	PROTON	0

com.compomics.util.experiment.biology.ions.impl.Glycan

Modifier and Type	Constant Field	Value
public static final int	DEUTEROACETYLATED_MASS	4
public static final int	DEUTEROMETHYLATED_MASS	2
public static final int	PERACETYLATED_MASS	3
public static final int	PERMETHYLATED_MASS	1
public static final int	UNDERIVATED_MASS	0

com.compomics.util.experiment.biology.ions.impl.PeptideFragmentIon

Modifier and Type	Constant Field	Value
public static final int	A_ION	0
public static final int	B_ION	1
public static final int	C_ION	2
public static final int	X_ION	3
public static final int	Y_ION	4
public static final int	Z_ION	5

com.compomics.util.experiment.biology.ions.impl.PrecursorIon

Modifier and Type	Constant Field	Value
public static final int	PRECURSOR	0

com.compomics.util.experiment.biology.ions.impl.TagFragmentIon

Modifier and Type	Constant Field	Value
public static final int	A_ION	0
public static final int	B_ION	1
public static final int	C_ION	2
public static final int	X_ION	3
public static final int	Y_ION	4
public static final int	Z_ION	5

com.compomics.util.experiment.biology.modifications.ModificationFactory

Modifier and Type	Constant Field	Value
public static final String	SINGLE_AA_SUFFIX	"|single_aa"

com.compomics.util.experiment.biology.proteins.Peptide

Modifier and Type	Constant Field	Value
public static final String	MODIFICATION_LOCALIZATION_SEPARATOR	"-ATAA-"
public static final String	MODIFICATION_SEPARATOR	"_"

com.compomics.util.experiment.biology.taxonomy.SpeciesFactory

Modifier and Type	Constant Field	Value
public static final String	BIOMART_ENSEMBL_FILENAME	"ensembl_biomart_databases"
public static final String	ENSEMBL_SPECIES	"ensembl_all_species"
public static final String	UNIPROT_TAXONOMY_FILENAME	"uniprot_species"
public static final String	UNKNOWN	"Unknown"

com.compomics.util.experiment.biology.taxonomy.mappings.BiomartMapping

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.taxonomy.mappings.EnsemblSpecies

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.biology.taxonomy.mappings.UniprotTaxonomy

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"\t"

com.compomics.util.experiment.identification.IdentificationMethod

Modifier and Type	Constant Field	Value
public static final int	MS2_IDENTIFICATION	1
public static final int	PEPTIDE_FINGERPRINTING	0

com.compomics.util.experiment.identification.filtering.MatchFilter

Modifier and Type	Constant Field	Value
public static final String	MANUAL_SELECTION	"manual selection"

com.compomics.util.experiment.identification.identification_parameters.IdentificationParametersFactory

Modifier and Type	Constant Field	Value
public static final String	PARAMETERS_EXTENSION	".par"
public static final String	PARAMETERS_FOLDER	"identification_parameters_4"

com.compomics.util.experiment.identification.modification.mapping.ModificationLocalizationMapper

Modifier and Type	Constant Field	Value
public static final double	MASS_PER_AA	100.0

com.compomics.util.experiment.identification.modification.mapping.ModificationNameMapper

Modifier and Type	Constant Field	Value
public static final double	MOD_MASS_TOLERANCE	0.01

com.compomics.util.experiment.identification.modification.peptide_mapping.ModificationPeptideMapping

Modifier and Type	Constant Field	Value
public static final String	SEPARATOR	"_"

com.compomics.util.experiment.identification.modification.peptide_mapping.performance.PerformanceBenchmark

Modifier and Type	Constant Field	Value
public static final int	REPLICATES	10

com.compomics.util.experiment.identification.modification.peptide_mapping.performance.PerformanceBenchmarkRunnable

Modifier and Type	Constant Field	Value
public static final int	PEPTIDE_LENGTH	30
public static final int	SEED	29122022

com.compomics.util.experiment.identification.modification.scores.PhosphoRS

Modifier and Type	Constant Field	Value
public static final int	MAX_DEPTH	8
public static final int	MIN_DEPTH	2
public static final double	WINDOW_SIZE	100.0

com.compomics.util.experiment.identification.modification.search_engine_mapping.ModificationNameMapper

Modifier and Type	Constant Field	Value
public static final double	MOD_MASS_TOLERANCE	0.01

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.FeaturesMap

Modifier and Type	Constant Field	Value
public static final int	currentVersion	0

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.AAIdentityFeatureAbsolute

Modifier and Type	Constant Field	Value
public static final int	index	9

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.AAIdentityFeatureRelative

Modifier and Type	Constant Field	Value
public static final int	index	10

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.AAPropertyFeatureAbsolute

Modifier and Type	Constant Field	Value
public static final int	index	6

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.AAPropertyFeatureRelative

Modifier and Type	Constant Field	Value
public static final int	index	7

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.AAPropertyRelationshipFeature

Modifier and Type	Constant Field	Value
public static final int	index	8

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.ComplementaryIonAminoAcidFeature

Modifier and Type	Constant Field	Value
public static final int	index	5

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.ComplementaryIonFeature

Modifier and Type	Constant Field	Value
public static final int	index	3

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.ForwardIonAminoAcidFeature

Modifier and Type	Constant Field	Value
public static final int	index	4

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.ForwardIonFeature

Modifier and Type	Constant Field	Value
public static final int	index	2

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.ModificationFeature

Modifier and Type	Constant Field	Value
public static final int	index	11

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.PeptideAminoAcidFeature

Modifier and Type	Constant Field	Value
public static final int	index	1

com.compomics.util.experiment.identification.peptide_fragmentation.models.ms2pip.features_configuration.features.PeptideFeature

Modifier and Type	Constant Field	Value
public static final int	index	0

com.compomics.util.experiment.identification.peptide_inference.PeptideInference

Modifier and Type	Constant Field	Value
public final int	CONFIDENT_OTHER_OFFSET	200
public final int	CONFIDENT_OWN_OFFSET	400
public final int	CONFIDENT_RELATED_OFFSET	100

com.compomics.util.experiment.identification.peptide_shaker.ModificationScoring

Modifier and Type	Constant Field	Value
public static final int	CONFIDENT	2
public static final int	DOUBTFUL	1
public static final int	NOT_FOUND	-1
public static final int	RANDOM	0
public static final String	SEPARATOR	"|"
public static final int	VERY_CONFIDENT	3

com.compomics.util.experiment.identification.peptide_shaker.PSParameter

Modifier and Type	Constant Field	Value
public static final int	NOT_GROUP	0
public static final int	RELATED	1
public static final int	RELATED_AND_UNRELATED	2
public static final int	UNRELATED	3

com.compomics.util.experiment.identification.spectrum_annotation.SpectrumAnnotator

Modifier and Type	Constant Field	Value
protected static final boolean	SUBTRACT_ISOTOPE	false

com.compomics.util.experiment.io.biology.protein.iterators.FastaIterator

Modifier and Type	Constant Field	Value
public static final char	FORBIDDEN_CHARACTER	'*'

com.compomics.util.experiment.io.identification.idfilereaders.DirecTagIdfileReader

Modifier and Type	Constant Field	Value
public final double	cTermCorrection	0.0
public final double	nTermCorrection	0.0

com.compomics.util.experiment.io.identification.idfilereaders.OnyaseIdfileReader

Modifier and Type	Constant Field	Value
public static final char	comment	'#'
public static final String	ENCODING	"UTF-8"
public static final String	fastaTag	"Fasta File:"
public static final String	paramsTag	"Parameters File:"
public static final char	separator	' '
public static final String	spectraTag	"Spectrum File:"
public static final String	versionTag	"Version:"

com.compomics.util.experiment.io.identification.idfilereaders.PepNovoIdfileReader

Modifier and Type	Constant Field	Value
public static final String	DEFAULT_HEADER	"#Index\tRnkScr\tPnvScr\tN-Gap\tC-Gap\t[M+H]\tCharge\tSequence"
public final double	nTermCorrection	0.0

com.compomics.util.experiment.io.identification.idfilereaders.SageIdfileReader

Modifier and Type	Constant Field	Value
public static final double	MOD_MASS_TOLERANCE	0.01

com.compomics.util.experiment.io.identification.writers.SimpleMzIdentMLExporter

Modifier and Type	Constant Field	Value
public static final String	ANALYSIS_SECTION	"ANALYSIS_SECTION"
public static final String	DATA_SECTION	"DATA_SECTION"
public static final String	HEAD_SECTION	"HEAD_SECTION"
public static final int	MAX_NEUTRAL_LOSSES	2
public static final int	N_AA	1
public static final String	PEPTIDE_EVIDENCE_SECTION	"PEPTIDE_EVIDENCE_SECTION"
public static final String	PEPTIDE_SECTION	"PEPTIDE_SECTION"

com.compomics.util.experiment.io.mass_spectrometry.cms.CmsFileUtils

Modifier and Type	Constant Field	Value
public static final String	EXTENSION	".cms"
public static final int	MAX_BUFFER_SIZE	1073741823
public static final String	TITLE_SEPARATOR	"\t"

com.compomics.util.experiment.io.mass_spectrometry.mzml.MSNumpress

Modifier and Type	Constant Field	Value
public static final String	ACC_NUMPRESS_LINEAR	"MS:1002312"
public static final String	ACC_NUMPRESS_PIC	"MS:1002313"
public static final String	ACC_NUMPRESS_SLOF	"MS:1002314"

com.compomics.util.general.MassCalc

Modifier and Type	Constant Field	Value
public static final int	MONOAA	1
public static final int	MONOELEMENTS	0
public static final int	MONONUCLEOTIDES	2
public static final int	SELFDEFINED	-1

com.compomics.util.gui.error_handlers.BugReport

Modifier and Type	Constant Field	Value
public static final String	LAST_SELECTED_FOLDER_KEY	"bug_report"

com.compomics.util.gui.parameters.identification.search.SequenceDbDetailsDialog

Modifier and Type	Constant Field	Value
public static final String	lastFolderKey	"fastaFile"
public static final int	SAMPLE_BATCH_SIZE	50

com.compomics.util.gui.protein.ModificationProfile

Modifier and Type	Constant Field	Value
public static final int	SCORE_1_ROW_INDEX	0
public static final int	SCORE_2_ROW_INDEX	1

com.compomics.util.gui.spectrum.GraphicsPanel

Modifier and Type	Constant Field	Value
public final int	ANNOTATED_STATUS	1
public final int	INTERACTIVE_STATUS	0

com.compomics.util.gui.spectrum.MassErrorBubblePlot

Modifier and Type	Constant Field	Value
public static final float	DEFAULT_NON_VISIBLE_MARKER_ALPHA	0.0f
public static final float	DEFAULT_VISIBLE_MARKER_ALPHA	1.0f

com.compomics.util.interfaces.Modification

Modifier and Type	Constant Field	Value
public static final int	AVERAGE	1
public static final String	CTERMINUS	"1"
public static final int	MONOISOTOPIC	0
public static final String	NTERMINUS	"0"

com.compomics.util.io.IoUtil

Modifier and Type	Constant Field	Value
public static final String	DEFAULT_SEPARATOR	"\t"
public static final String	ENCODING	"UTF-8"

com.compomics.util.io.compression.GzUtils

Modifier and Type	Constant Field	Value
public static final int	BUFFER_LENGTH	1024
public static final String	GZ_EXTENSION	".gz"

com.compomics.util.io.compression.TarUtils

Modifier and Type	Constant Field	Value
public static final int	BUFFER_SIZE	1024

com.compomics.util.io.compression.ZipUtils

Modifier and Type	Constant Field	Value
public static final int	BUFFER_SIZE	1024

com.compomics.util.io.compression.SectionGzWriter.WriterBySection

Modifier and Type	Constant Field	Value
public static final int	CHAR_BUFFER_SIZE	512

com.compomics.util.io.export.ExportFeature

Modifier and Type	Constant Field	Value
public static final long	serialVersionUID	-4158077697265471589L

com.compomics.util.io.export.ExportWriter

Modifier and Type	Constant Field	Value
public static final String	LAST_FOLDER_KEY	"export"

com.compomics.util.io.export.features.peptideshaker.PsAnnotationFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Annotation Settings"

com.compomics.util.io.export.features.peptideshaker.PsFragmentFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Fragment Ions Summary"

com.compomics.util.io.export.features.peptideshaker.PsIdentificationAlgorithmMatchesFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Identification Algorithm Results"

com.compomics.util.io.export.features.peptideshaker.PsInputFilterFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Input Filters"

com.compomics.util.io.export.features.peptideshaker.PsPeptideFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Peptide Identification Summary"

com.compomics.util.io.export.features.peptideshaker.PsProjectFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Project Details"

com.compomics.util.io.export.features.peptideshaker.PsProteinFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Protein Identification Summary"

com.compomics.util.io.export.features.peptideshaker.PsPsmFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Peptide Spectrum Matching Summary"

com.compomics.util.io.export.features.peptideshaker.PsPtmScoringFeature

Modifier and Type	Constant Field	Value
public static final String	type	"PTM Scoring Settings"

com.compomics.util.io.export.features.peptideshaker.PsSearchFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Database Search Parameters"

com.compomics.util.io.export.features.peptideshaker.PsSpectrumCountingFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Spectrum Counting Parameters"

com.compomics.util.io.export.features.peptideshaker.PsValidationFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Validation Summary"

com.compomics.util.io.export.features.reporter.ReporterPeptideFeature

Modifier and Type	Constant Field	Value
public static final String	type	"Peptide Reporter Quantification Summary"

com.compomics.util.io.export.features.reporter.ReporterProteinFeatures

Modifier and Type	Constant Field	Value
public static final String	type	"Protein Reporter Quantification Summary"

com.compomics.util.io.export.features.reporter.ReporterPsmFeatures

Modifier and Type	Constant Field	Value
public static final String	type	"PSM Reporter Quantification Summary"

com.compomics.util.io.file.FolderMonitor

Modifier and Type	Constant Field	Value
public static final int	FTP_TO_SPECIFIED_DESTINATION	0
public static final int	GATHER_FILES_FOR_PICKUP	1
public static final String	HOST	"HOST"
public static final String	LIMIT	"LIMIT"
public static final String	PASSWORD	"PASSWORD"
public static final String	PICKUP	"PICKUP"
public static final String	TEXTMODE	"TEXTMODE"
public static final String	USER	"USER"

com.compomics.util.io.file.filefilters.FileFilterUtils

Modifier and Type	Constant Field	Value
public static final String	dat	"dat"
public static final String	DAT	"DAT"
public static final String	dta	"dta"
public static final String	DTA	"DTA"
public static final String	fas	"fas"
public static final String	FAS	"FAS"
public static final String	fasta	"fasta"
public static final String	FASTA	"FASTA"
public static final String	gif	"gif"
public static final String	GIF	"GIF"
public static final String	jpeg	"jpeg"
public static final String	JPEG	"JPEG"
public static final String	jpg	"jpg"
public static final String	JPG	"JPG"
public static final String	mgf	"mgf"
public static final String	MGF	"MGF"
public static final String	ms2	"ms2"
public static final String	MS2	"MS2"
public static final String	mzdata	"mzdata"
public static final String	mzData	"mzData"
public static final String	mzDATA	"mzDATA"
public static final String	MZDATA	"MZDATA"
public static final String	mzml	"mzml"
public static final String	mzML	"mzML"
public static final String	MZML	"MZML"
public static final String	mzxml	"mzxml"
public static final String	mzXML	"mzXML"
public static final String	MZXML	"MZXML"
public static final String	omx	"omx"
public static final String	OMX	"OMX"
public static final String	out	"out"
public static final String	OUT	"OUT"
public static final String	pdf	"pdf"
public static final String	PDF	"PDF"
public static final String	peff	"peff"
public static final String	PEFF	"PEFF"
public static final String	pep_xml	"pep.xml"
public static final String	PEP_XML	"PEP.XML"
public static final String	pepxml	"pepxml"
public static final String	PEPXML	"PEPXML"
public static final String	pkl	"pkl"
public static final String	PKL	"PKL"
public static final String	pkx	"pkx"
public static final String	PKX	"PKX"
public static final String	png	"png"
public static final String	PNG	"PNG"
public static final String	properties	"properties"
public static final String	PROPERTIES	"PROPERTIES"
public static final String	prot_xml	"prot.xml"
public static final String	PROT_XML	"PROT.XML"
public static final String	protxml	"protxml"
public static final String	PROTXML	"PROTXML"
public static final String	spo	"spo"
public static final String	SPO	"SPO"
public static final String	svg	"svg"
public static final String	SVG	"SVG"
public static final String	tiff	"tiff"
public static final String	TIFF	"TIFF"
public static final String	txt	"txt"
public static final String	TXT	"TXT"
public static final String	xml	"xml"
public static final String	XML	"XML"

com.compomics.util.io.ftp.FTP

Modifier and Type	Constant Field	Value
public static final int	FTP_PORT	21

com.compomics.util.parameters.identification.IdentificationParameters

Modifier and Type	Constant Field	Value
public static final String	CURRENT_VERSION	"5.0.1"
public final String	version	"5.0.1"

com.compomics.util.parameters.identification.search.SearchParameters

Modifier and Type	Constant Field	Value
public static final int	preferredMaxVariableModifications	6
public static final int	preferredMinSequences	1000
public final String	version	"5.0.1"

com.compomics.util.parameters.identification.tool_specific.MsAmandaParameters

Modifier and Type	Constant Field	Value
public static final int	MAX_MS_AMANDA_FASTA_FILE_NAME_LENGTH	80

com.compomics.util.pride.PrideObjectsFactory

Modifier and Type	Constant Field	Value
public static final String	extension	".cus"

com.compomics.util.pride.PtmToPrideMap

Modifier and Type	Constant Field	Value
public static final String	fileName	"modMapUniMod.cus"

com.compomics.util.protein.DualEnzyme

Modifier and Type	Constant Field	Value
public static final int	CTERMINAL	1
public static final int	NTERMINAL	0

com.compomics.util.protein.Enzyme

Modifier and Type	Constant Field	Value
public static final int	C_TERM_ENZYMATIC	3
public static final int	CTERM	0
public static final int	ENTIRELY_NOT_ENZYMATIC	4
public static final int	FULLY_ENZYMATIC	1
public static final int	N_TERM_ENZYMATIC	2
public static final int	NTERM	1

com.compomics.util.protein.Protein

Modifier and Type	Constant Field	Value
public static final int	CTERMTRUNC	2
public static final int	NTERMTRUNC	1

com.compomics.util.waiting.WaitingHandler

Modifier and Type	Constant Field	Value
public static final String	TAB_HTML	"        "
public static final String	TAB_NON_HTML	" "