edu.mayo.informatics.resourcereader.obo
Class OBOConstants

java.lang.Object
  extended by edu.mayo.informatics.resourcereader.core.impl.Resource
      extended by edu.mayo.informatics.resourcereader.obo.OBO
          extended by edu.mayo.informatics.resourcereader.obo.OBOConstants
All Implemented Interfaces:
TopResource

public class OBOConstants
extends OBO

This file contains the OBO Constants. This file is used while parsing the obo text file. It is also used by the programs that read the OBO content into the EMF model.

Version:
subversion $Revision: $ checked in on $Date: $
Author:
Deepak Sharma

Field Summary
static int ABBREVIATION_CTX
           
static java.lang.String BLTNREL_DISJFROM_DEF
           
static java.lang.String BLTNREL_DISJFROM_DEFSRC
           
static java.lang.String BLTNREL_DISJFROM_DOMAIN
           
static java.lang.String BLTNREL_DISJFROM_ID
           
static java.lang.String BLTNREL_DISJFROM_NAME
           
static java.lang.String BLTNREL_DISJFROM_RANGE
           
static java.lang.String BLTNREL_INSTOF_DEF
           
static java.lang.String BLTNREL_INSTOF_DEFSRC
           
static java.lang.String BLTNREL_INSTOF_DOMAIN
           
static java.lang.String BLTNREL_INSTOF_ID
           
static java.lang.String BLTNREL_INSTOF_NAME
           
static java.lang.String BLTNREL_INSTOF_RANGE
           
static java.lang.String BLTNREL_INTRSECOF_DEF
           
static java.lang.String BLTNREL_INTRSECOF_DEFSRC
           
static java.lang.String BLTNREL_INTRSECOF_DOMAIN
           
static java.lang.String BLTNREL_INTRSECOF_ID
           
static java.lang.String BLTNREL_INTRSECOF_NAME
           
static java.lang.String BLTNREL_INTRSECOF_RANGE
           
static java.lang.String BLTNREL_INVOF_DEF
           
static java.lang.String BLTNREL_INVOF_DEFSRC
           
static java.lang.String BLTNREL_INVOF_DOMAIN
           
static java.lang.String BLTNREL_INVOF_ID
           
static java.lang.String BLTNREL_INVOF_NAME
           
static java.lang.String BLTNREL_INVOF_RANGE
           
static java.lang.String BLTNREL_ISA_DEF
           
static java.lang.String BLTNREL_ISA_DEFSRC
           
static java.lang.String BLTNREL_ISA_DOMAIN
           
static java.lang.String BLTNREL_ISA_ID
           
static java.lang.String BLTNREL_ISA_NAME
           
static java.lang.String BLTNREL_ISA_RANGE
           
static java.lang.String BLTNREL_UNIONOF_DEF
           
static java.lang.String BLTNREL_UNIONOF_DEFSRC
           
static java.lang.String BLTNREL_UNIONOF_DOMAIN
           
static java.lang.String BLTNREL_UNIONOF_ID
           
static java.lang.String BLTNREL_UNIONOF_NAME
           
static java.lang.String BLTNREL_UNIONOF_RANGE
           
static java.lang.String DELIM
           
static java.lang.String END_TM
           
static java.lang.String HTTP
           
static int INSTANCE_CTX
           
static java.lang.String OBO_CURRENT_FORMAT
           
static java.lang.String OBODEF_TRLMODF
           
static java.lang.String OBOTYPES_INSTANCE
           
static java.lang.String OBOTYPES_TERM
           
static java.lang.String OBOTYPES_TERMORTYPE
           
static java.lang.String OBOTYPES_TYPE
           
static java.lang.String REL_DISJOINTFROM
           
static java.lang.String REL_INSTANCEOF
           
static java.lang.String REL_INTERSECTIONOF
           
static java.lang.String REL_INVERSEOF
           
static java.lang.String REL_ISA
           
static java.lang.String REL_REPLACEDBY
           
static java.lang.String REL_UNIONOF
           
static int RELATION_CTX
           
static java.lang.String START_TM
           
static java.lang.String TAG_ABBREVIATION
           
static java.lang.String TAG_ALTID
           
static java.lang.String TAG_AUTO_GENERATED_BY
           
static java.lang.String TAG_COMMENT
           
static java.lang.String TAG_CONSIDER
           
static java.lang.String TAG_CREATED_BY
           
static java.lang.String TAG_CREATION_DATE
           
static java.lang.String TAG_DATAVERSION
           
static java.lang.String TAG_DATE
           
static java.lang.String TAG_DEF
           
static java.lang.String TAG_DEFAULT_NS
           
static java.lang.String TAG_DEFAULTRELATIONSHIPID
           
static java.lang.String TAG_DISJOINTFROM
           
static java.lang.String TAG_DOMAIN
           
static java.lang.String TAG_FORMAT_VERSION
           
static java.lang.String TAG_GENERICURL
           
static java.lang.String TAG_ID
           
static java.lang.String TAG_IDMAPPING
           
static java.lang.String TAG_IDSPACE
           
static java.lang.String TAG_IGNORE_BUILTIN
           
static java.lang.String TAG_IGNORE_DATABASE
           
static java.lang.String TAG_IGNORE_EXAMPLE
           
static java.lang.String TAG_IGNORE_EXMPLID
           
static java.lang.String TAG_IGNORE_NSIDRULE
           
static java.lang.String TAG_IGNORE_OBJECT
           
static java.lang.String TAG_IGNORE_SHORTHNDNAME
           
static java.lang.String TAG_IGNORE_URLEXMPL
           
static java.lang.String TAG_IGNORE_URLSNTX
           
static java.lang.String TAG_IMPORT
           
static java.lang.String TAG_INSTANCE
           
static java.lang.String TAG_INSTANCEOF
           
static java.lang.String TAG_INTERSECTIONOF
           
static java.lang.String TAG_INVERSEOF
           
static java.lang.String TAG_ISA
           
static java.lang.String TAG_ISANONYMOUS
           
static java.lang.String TAG_ISANTISYMMETRIC
           
static java.lang.String TAG_ISCYCLIC
           
static java.lang.String TAG_ISOBSOLETE
           
static java.lang.String TAG_ISREFLEXIVE
           
static java.lang.String TAG_ISSYMMETRIC
           
static java.lang.String TAG_ISTRANSITIVE
           
static java.lang.String TAG_NAME
           
static java.lang.String TAG_NAMESPACE
           
static java.lang.String TAG_PROPERTYVALUE
           
static java.lang.String TAG_RANGE
           
static java.lang.String TAG_RELATIONSHIP
           
static java.lang.String TAG_REMARK
           
static java.lang.String TAG_REPLACEDBY
           
static java.lang.String TAG_SAVED_BY
           
static java.lang.String TAG_SUBSET
           
static java.lang.String TAG_SUBSETDEF
           
static java.lang.String TAG_SYNONYM
           
static java.lang.String TAG_SYNONYM_BROAD
           
static java.lang.String TAG_SYNONYM_EXACT
           
static java.lang.String TAG_SYNONYM_NARROW
           
static java.lang.String TAG_SYNONYM_RELATED
           
static java.lang.String TAG_SYNONYMTYPEDEF
           
static java.lang.String TAG_TERM
           
static java.lang.String TAG_TYPEDEF
           
static java.lang.String TAG_TYPEREF
           
static java.lang.String TAG_UNIONOF
           
static java.lang.String TAG_USETERM
           
static java.lang.String TAG_VERSION
           
static java.lang.String TAG_XREF
           
static java.lang.String TAG_XREFANALOG
           
static java.lang.String TAG_XREFUNK
           
static int TERM_CTX
           
static java.lang.String UNASSIGNED_LABEL
           
 
Fields inherited from class edu.mayo.informatics.resourcereader.obo.OBO
logger
 
Constructor Summary
OBOConstants()
           
 
Method Summary
static boolean isHeaderTag(java.lang.String line)
           
static boolean isIgnoredTag(java.lang.String line)
           
 
Methods inherited from class edu.mayo.informatics.resourcereader.core.impl.Resource
getLogger, setLogger
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Field Detail

DELIM

public static java.lang.String DELIM

OBO_CURRENT_FORMAT

public static final java.lang.String OBO_CURRENT_FORMAT
See Also:
Constant Field Values

REL_ISA

public static final java.lang.String REL_ISA
See Also:
Constant Field Values

REL_INTERSECTIONOF

public static final java.lang.String REL_INTERSECTIONOF
See Also:
Constant Field Values

REL_UNIONOF

public static final java.lang.String REL_UNIONOF
See Also:
Constant Field Values

REL_DISJOINTFROM

public static final java.lang.String REL_DISJOINTFROM
See Also:
Constant Field Values

REL_INVERSEOF

public static final java.lang.String REL_INVERSEOF
See Also:
Constant Field Values

REL_INSTANCEOF

public static final java.lang.String REL_INSTANCEOF
See Also:
Constant Field Values

REL_REPLACEDBY

public static final java.lang.String REL_REPLACEDBY
See Also:
Constant Field Values

OBOTYPES_TERM

public static final java.lang.String OBOTYPES_TERM
See Also:
Constant Field Values

OBOTYPES_TYPE

public static final java.lang.String OBOTYPES_TYPE
See Also:
Constant Field Values

OBOTYPES_TERMORTYPE

public static final java.lang.String OBOTYPES_TERMORTYPE
See Also:
Constant Field Values

OBOTYPES_INSTANCE

public static final java.lang.String OBOTYPES_INSTANCE
See Also:
Constant Field Values

OBODEF_TRLMODF

public static final java.lang.String OBODEF_TRLMODF
See Also:
Constant Field Values

TAG_FORMAT_VERSION

public static final java.lang.String TAG_FORMAT_VERSION
See Also:
Constant Field Values

UNASSIGNED_LABEL

public static final java.lang.String UNASSIGNED_LABEL
See Also:
Constant Field Values

TAG_DATAVERSION

public static final java.lang.String TAG_DATAVERSION
See Also:
Constant Field Values

TAG_VERSION

public static final java.lang.String TAG_VERSION
See Also:
Constant Field Values

TAG_DATE

public static final java.lang.String TAG_DATE
See Also:
Constant Field Values

TAG_SAVED_BY

public static final java.lang.String TAG_SAVED_BY
See Also:
Constant Field Values

TAG_AUTO_GENERATED_BY

public static final java.lang.String TAG_AUTO_GENERATED_BY
See Also:
Constant Field Values

TAG_SUBSETDEF

public static final java.lang.String TAG_SUBSETDEF
See Also:
Constant Field Values

TAG_IMPORT

public static final java.lang.String TAG_IMPORT
See Also:
Constant Field Values

TAG_TYPEREF

public static final java.lang.String TAG_TYPEREF
See Also:
Constant Field Values

TAG_SYNONYMTYPEDEF

public static final java.lang.String TAG_SYNONYMTYPEDEF
See Also:
Constant Field Values

TAG_IDSPACE

public static final java.lang.String TAG_IDSPACE
See Also:
Constant Field Values

TAG_DEFAULT_NS

public static final java.lang.String TAG_DEFAULT_NS
See Also:
Constant Field Values

TAG_DEFAULTRELATIONSHIPID

public static final java.lang.String TAG_DEFAULTRELATIONSHIPID
See Also:
Constant Field Values

TAG_IDMAPPING

public static final java.lang.String TAG_IDMAPPING
See Also:
Constant Field Values

TAG_REMARK

public static final java.lang.String TAG_REMARK
See Also:
Constant Field Values

TAG_TERM

public static final java.lang.String TAG_TERM
See Also:
Constant Field Values

TAG_TYPEDEF

public static final java.lang.String TAG_TYPEDEF
See Also:
Constant Field Values

TAG_INSTANCE

public static final java.lang.String TAG_INSTANCE
See Also:
Constant Field Values

TAG_ABBREVIATION

public static final java.lang.String TAG_ABBREVIATION
See Also:
Constant Field Values

TAG_GENERICURL

public static final java.lang.String TAG_GENERICURL
See Also:
Constant Field Values

TAG_SYNONYM

public static final java.lang.String TAG_SYNONYM
See Also:
Constant Field Values

TAG_SYNONYM_EXACT

public static final java.lang.String TAG_SYNONYM_EXACT
See Also:
Constant Field Values

TAG_SYNONYM_BROAD

public static final java.lang.String TAG_SYNONYM_BROAD
See Also:
Constant Field Values

TAG_SYNONYM_NARROW

public static final java.lang.String TAG_SYNONYM_NARROW
See Also:
Constant Field Values

TAG_SYNONYM_RELATED

public static final java.lang.String TAG_SYNONYM_RELATED
See Also:
Constant Field Values

TAG_ID

public static final java.lang.String TAG_ID
See Also:
Constant Field Values

TAG_ALTID

public static final java.lang.String TAG_ALTID
See Also:
Constant Field Values

TAG_CREATED_BY

public static final java.lang.String TAG_CREATED_BY
See Also:
Constant Field Values

TAG_CREATION_DATE

public static final java.lang.String TAG_CREATION_DATE
See Also:
Constant Field Values

TAG_NAME

public static final java.lang.String TAG_NAME
See Also:
Constant Field Values

TAG_DOMAIN

public static final java.lang.String TAG_DOMAIN
See Also:
Constant Field Values

TAG_RANGE

public static final java.lang.String TAG_RANGE
See Also:
Constant Field Values

TAG_NAMESPACE

public static final java.lang.String TAG_NAMESPACE
See Also:
Constant Field Values

TAG_ISANONYMOUS

public static final java.lang.String TAG_ISANONYMOUS
See Also:
Constant Field Values

TAG_ISTRANSITIVE

public static final java.lang.String TAG_ISTRANSITIVE
See Also:
Constant Field Values

TAG_ISSYMMETRIC

public static final java.lang.String TAG_ISSYMMETRIC
See Also:
Constant Field Values

TAG_ISANTISYMMETRIC

public static final java.lang.String TAG_ISANTISYMMETRIC
See Also:
Constant Field Values

TAG_ISREFLEXIVE

public static final java.lang.String TAG_ISREFLEXIVE
See Also:
Constant Field Values

TAG_ISCYCLIC

public static final java.lang.String TAG_ISCYCLIC
See Also:
Constant Field Values

TAG_DEF

public static final java.lang.String TAG_DEF
See Also:
Constant Field Values

TAG_COMMENT

public static final java.lang.String TAG_COMMENT
See Also:
Constant Field Values

TAG_SUBSET

public static final java.lang.String TAG_SUBSET
See Also:
Constant Field Values

TAG_ISA

public static final java.lang.String TAG_ISA
See Also:
Constant Field Values

TAG_INTERSECTIONOF

public static final java.lang.String TAG_INTERSECTIONOF
See Also:
Constant Field Values

TAG_UNIONOF

public static final java.lang.String TAG_UNIONOF
See Also:
Constant Field Values

TAG_DISJOINTFROM

public static final java.lang.String TAG_DISJOINTFROM
See Also:
Constant Field Values

TAG_ISOBSOLETE

public static final java.lang.String TAG_ISOBSOLETE
See Also:
Constant Field Values

TAG_XREF

public static final java.lang.String TAG_XREF
See Also:
Constant Field Values

TAG_XREFANALOG

public static final java.lang.String TAG_XREFANALOG
See Also:
Constant Field Values

TAG_XREFUNK

public static final java.lang.String TAG_XREFUNK
See Also:
Constant Field Values

TAG_RELATIONSHIP

public static final java.lang.String TAG_RELATIONSHIP
See Also:
Constant Field Values

TAG_INVERSEOF

public static final java.lang.String TAG_INVERSEOF
See Also:
Constant Field Values

TAG_INSTANCEOF

public static final java.lang.String TAG_INSTANCEOF
See Also:
Constant Field Values

TAG_REPLACEDBY

public static final java.lang.String TAG_REPLACEDBY
See Also:
Constant Field Values

TAG_CONSIDER

public static final java.lang.String TAG_CONSIDER
See Also:
Constant Field Values

TAG_USETERM

public static final java.lang.String TAG_USETERM
See Also:
Constant Field Values

TAG_PROPERTYVALUE

public static final java.lang.String TAG_PROPERTYVALUE
See Also:
Constant Field Values

HTTP

public static final java.lang.String HTTP
See Also:
Constant Field Values

START_TM

public static final java.lang.String START_TM
See Also:
Constant Field Values

END_TM

public static final java.lang.String END_TM
See Also:
Constant Field Values

ABBREVIATION_CTX

public static final int ABBREVIATION_CTX
See Also:
Constant Field Values

TERM_CTX

public static final int TERM_CTX
See Also:
Constant Field Values

RELATION_CTX

public static final int RELATION_CTX
See Also:
Constant Field Values

INSTANCE_CTX

public static final int INSTANCE_CTX
See Also:
Constant Field Values

BLTNREL_ISA_ID

public static final java.lang.String BLTNREL_ISA_ID
See Also:
Constant Field Values

BLTNREL_ISA_NAME

public static final java.lang.String BLTNREL_ISA_NAME
See Also:
Constant Field Values

BLTNREL_ISA_DOMAIN

public static final java.lang.String BLTNREL_ISA_DOMAIN
See Also:
Constant Field Values

BLTNREL_ISA_RANGE

public static final java.lang.String BLTNREL_ISA_RANGE
See Also:
Constant Field Values

BLTNREL_ISA_DEF

public static final java.lang.String BLTNREL_ISA_DEF
See Also:
Constant Field Values

BLTNREL_ISA_DEFSRC

public static final java.lang.String BLTNREL_ISA_DEFSRC
See Also:
Constant Field Values

BLTNREL_DISJFROM_ID

public static final java.lang.String BLTNREL_DISJFROM_ID
See Also:
Constant Field Values

BLTNREL_DISJFROM_NAME

public static final java.lang.String BLTNREL_DISJFROM_NAME
See Also:
Constant Field Values

BLTNREL_DISJFROM_DOMAIN

public static final java.lang.String BLTNREL_DISJFROM_DOMAIN
See Also:
Constant Field Values

BLTNREL_DISJFROM_RANGE

public static final java.lang.String BLTNREL_DISJFROM_RANGE
See Also:
Constant Field Values

BLTNREL_DISJFROM_DEF

public static final java.lang.String BLTNREL_DISJFROM_DEF
See Also:
Constant Field Values

BLTNREL_DISJFROM_DEFSRC

public static final java.lang.String BLTNREL_DISJFROM_DEFSRC
See Also:
Constant Field Values

BLTNREL_UNIONOF_ID

public static final java.lang.String BLTNREL_UNIONOF_ID
See Also:
Constant Field Values

BLTNREL_UNIONOF_NAME

public static final java.lang.String BLTNREL_UNIONOF_NAME
See Also:
Constant Field Values

BLTNREL_UNIONOF_DOMAIN

public static final java.lang.String BLTNREL_UNIONOF_DOMAIN
See Also:
Constant Field Values

BLTNREL_UNIONOF_RANGE

public static final java.lang.String BLTNREL_UNIONOF_RANGE
See Also:
Constant Field Values

BLTNREL_UNIONOF_DEF

public static final java.lang.String BLTNREL_UNIONOF_DEF
See Also:
Constant Field Values

BLTNREL_UNIONOF_DEFSRC

public static final java.lang.String BLTNREL_UNIONOF_DEFSRC
See Also:
Constant Field Values

BLTNREL_INTRSECOF_ID

public static final java.lang.String BLTNREL_INTRSECOF_ID
See Also:
Constant Field Values

BLTNREL_INTRSECOF_NAME

public static final java.lang.String BLTNREL_INTRSECOF_NAME
See Also:
Constant Field Values

BLTNREL_INTRSECOF_DOMAIN

public static final java.lang.String BLTNREL_INTRSECOF_DOMAIN
See Also:
Constant Field Values

BLTNREL_INTRSECOF_RANGE

public static final java.lang.String BLTNREL_INTRSECOF_RANGE
See Also:
Constant Field Values

BLTNREL_INTRSECOF_DEF

public static final java.lang.String BLTNREL_INTRSECOF_DEF
See Also:
Constant Field Values

BLTNREL_INTRSECOF_DEFSRC

public static final java.lang.String BLTNREL_INTRSECOF_DEFSRC
See Also:
Constant Field Values

BLTNREL_INSTOF_ID

public static final java.lang.String BLTNREL_INSTOF_ID
See Also:
Constant Field Values

BLTNREL_INSTOF_NAME

public static final java.lang.String BLTNREL_INSTOF_NAME
See Also:
Constant Field Values

BLTNREL_INSTOF_DOMAIN

public static final java.lang.String BLTNREL_INSTOF_DOMAIN
See Also:
Constant Field Values

BLTNREL_INSTOF_RANGE

public static final java.lang.String BLTNREL_INSTOF_RANGE
See Also:
Constant Field Values

BLTNREL_INSTOF_DEF

public static final java.lang.String BLTNREL_INSTOF_DEF
See Also:
Constant Field Values

BLTNREL_INSTOF_DEFSRC

public static final java.lang.String BLTNREL_INSTOF_DEFSRC
See Also:
Constant Field Values

BLTNREL_INVOF_ID

public static final java.lang.String BLTNREL_INVOF_ID
See Also:
Constant Field Values

BLTNREL_INVOF_NAME

public static final java.lang.String BLTNREL_INVOF_NAME
See Also:
Constant Field Values

BLTNREL_INVOF_DOMAIN

public static final java.lang.String BLTNREL_INVOF_DOMAIN
See Also:
Constant Field Values

BLTNREL_INVOF_RANGE

public static final java.lang.String BLTNREL_INVOF_RANGE
See Also:
Constant Field Values

BLTNREL_INVOF_DEF

public static final java.lang.String BLTNREL_INVOF_DEF
See Also:
Constant Field Values

BLTNREL_INVOF_DEFSRC

public static final java.lang.String BLTNREL_INVOF_DEFSRC
See Also:
Constant Field Values

TAG_IGNORE_DATABASE

public static final java.lang.String TAG_IGNORE_DATABASE
See Also:
Constant Field Values

TAG_IGNORE_OBJECT

public static final java.lang.String TAG_IGNORE_OBJECT
See Also:
Constant Field Values

TAG_IGNORE_EXAMPLE

public static final java.lang.String TAG_IGNORE_EXAMPLE
See Also:
Constant Field Values

TAG_IGNORE_BUILTIN

public static final java.lang.String TAG_IGNORE_BUILTIN
See Also:
Constant Field Values

TAG_IGNORE_URLSNTX

public static final java.lang.String TAG_IGNORE_URLSNTX
See Also:
Constant Field Values

TAG_IGNORE_SHORTHNDNAME

public static final java.lang.String TAG_IGNORE_SHORTHNDNAME
See Also:
Constant Field Values

TAG_IGNORE_URLEXMPL

public static final java.lang.String TAG_IGNORE_URLEXMPL
See Also:
Constant Field Values

TAG_IGNORE_EXMPLID

public static final java.lang.String TAG_IGNORE_EXMPLID
See Also:
Constant Field Values

TAG_IGNORE_NSIDRULE

public static final java.lang.String TAG_IGNORE_NSIDRULE
See Also:
Constant Field Values
Constructor Detail

OBOConstants

public OBOConstants()
Method Detail

isHeaderTag

public static boolean isHeaderTag(java.lang.String line)

isIgnoredTag

public static boolean isIgnoredTag(java.lang.String line)

Copyright: (c) 2004-2006 Mayo Foundation for Medical Education and Research (MFMER). All rights reserved. MAYO, MAYO CLINIC, and the triple-shield Mayo logo are trademarks and service marks of MFMER.