[information-artifact-ontology] r708 committed - ontology/version iris. File renaming to be nice in protege

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Jul 10, 2014, 2:15:53 PM7/10/14

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Revision: 708
Author: alanrut...@gmail.com
Date: Thu Jul 10 18:15:28 2014 UTC
Log: ontology/version iris. File renaming to be nice in protege
http://code.google.com/p/information-artifact-ontology/source/detail?r=708

Added:
/branches/2014-06-13/ontology/iao-external-by-hand.owl
/branches/2014-06-13/ontology/iao-obsolete.owl
/branches/2014-06-13/ontology/iao.owl
Deleted:
/branches/2014-06-13/ontology/IAO.owl
/branches/2014-06-13/ontology/externalByHand.owl
/branches/2014-06-13/ontology/obsolete.owl
Modified:
/branches/2014-06-13/ontology/iao-main.owl

=======================================
--- /dev/null
+++ /branches/2014-06-13/ontology/iao-external-by-hand.owl Thu Jul 10
18:15:28 2014 UTC
@@ -0,0 +1,407 @@
+<?xml version="1.0"?>
+<rdf:RDF xmlns="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl#"
+ xml:base="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl"
+ xmlns:dc="http://purl.org/dc/elements/1.1/"
+
xmlns:protege-dc="http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl#"
+ xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
+ xmlns:xsp="http://www.owl-ontologies.com/2005/08/07/xsp.owl#"
+ xmlns:dcterms="http://purl.org/dc/terms/"
+ xmlns:obo="http://purl.obolibrary.org/obo/"
+ xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
+ xmlns:swrl="http://www.w3.org/2003/11/swrl#"
+ xmlns:swrlb="http://www.w3.org/2003/11/swrlb#"
+ xmlns:owl="http://www.w3.org/2002/07/owl#"
+ xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
+ xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <owl:Ontology
rdf:about="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl">
+ <owl:versionInfo
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">$Revision: 80
$</owl:versionInfo>
+ </owl:Ontology>
+
+
+
+ 
+
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
+ <rdfs:label xml:lang="en">editor preferred term</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000112">
+ <rdfs:label xml:lang="en">example of usage</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000113">
+ <rdfs:label xml:lang="en">in branch</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000114">
+ <rdfs:label xml:lang="en">has curation status</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
+ <rdfs:label xml:lang="en">definition</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000116">
+ <rdfs:label xml:lang="en">editor note</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000117">
+ <rdfs:label xml:lang="en">term editor</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000118">
+ <rdfs:label xml:lang="en">alternative term</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000119">
+ <rdfs:label xml:lang="en">definition source</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
+ <rdfs:label xml:lang="en">imported from</rdfs:label>
+ </owl:AnnotationProperty>
+
+
+
+ 
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000052">
+ <rdfs:label xml:lang="en">inheres in at all times</rdfs:label>
+ <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Inherence is a
subrelation of s-depends_on which holds between a dependent continuant and
an independent continuant that is not a spatial region. Since dependent
continuants cannot migrate from one independent continuant bearer to
another, it follows that if b s-depends_on independent continuant c at some
time, then b s-depends_on c at all times at which a exists. Inherence is in
this sense redundantly time-indexed.For example, consider the particular
instance of openness inhering in my mouth at t as I prepare to take a bite
out of a donut, followed by a closedness at t+1 when I bite the donut and
start chewing. The openness instance is then shortlived, and to say that it
s-depends_on my mouth at all times at which this openness exists, means: at
all times during this short life. Every time you make a fist, you make a
new (instance of the universal) fist. (Every time your hand has the
fist-shaped quality, there is created a new instance of the universal
fist-shaped quality.)</obo:IAO_0000116>
+ <obo:BFO_0000180>inheresInAt</obo:BFO_0000180>
+ <obo:BFO_0000179>inheres-in_at</obo:BFO_0000179>
+ <obo:IAO_0000602>(iff (inheresInAt a b t) (and
(DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b))
(specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002]
</obo:IAO_0000602>
+ <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region</obo:IAO_0000116>
+ <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance-level, relation. The BFO reading of the
binary relation 'inheres in at all times@en' is: forall(t)
exists_at(x,t) -> exists_at(y,t) and 'inheres
in@en(x,y,t)'.</obo:IAO_0000116>
+ <obo:IAO_0000116>BFO2 Reference: specifically dependent
continuant</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">b inheres_in c at t =Def. b is a
dependent continuant & c is an independent continuant that is not a
spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference:
[051-002])</obo:IAO_0000115>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ <rdfs:range>
+ <owl:Class>
+ <owl:intersectionOf rdf:parseType="Collection">
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
+ <owl:Class>
+ <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
+ </owl:Class>
+ </owl:intersectionOf>
+ </owl:Class>
+ </rdfs:range>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000053">
+ <rdfs:label xml:lang="en">bearer of at some time</rdfs:label>
+ <obo:IAO_0000602>(iff (bearerOfAt a b t) (and
(specificallyDependsOnAt b a t) (IndependentContinuant a) (not
(SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]
</obo:IAO_0000602>
+ <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region</obo:IAO_0000116>
+ <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'bearer of at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'bearer
of@en'(x,y,t)</obo:IAO_0000116>
+ <obo:IAO_0000116>BFO2 Reference: specifically dependent
continuant</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">b bearer_of c at t =Def. c
s-depends_on b at t & b is an independent continuant that is not a
spatial region. (axiom label in BFO2 Reference: [053-004])</obo:IAO_0000115>
+ <obo:BFO_0000180>bearerOfAt</obo:BFO_0000180>
+ <obo:BFO_0000179>bearer-of_st</obo:BFO_0000179>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ <rdfs:domain>
+ <owl:Class>
+ <owl:intersectionOf rdf:parseType="Collection">
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
+ <owl:Class>
+ <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
+ </owl:Class>
+ </owl:intersectionOf>
+ </owl:Class>
+ </rdfs:domain>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000054">
+ <rdfs:label xml:lang="en">realized in</rdfs:label>
+ <obo:IAO_0000602>(forall (x y z t) (if (and (RealizableEntity x)
(Process y) (realizesAt y x t) (bearerOfAt z x t)) (hasParticipantAt y z
t))) // axiom label in BFO2 CLIF: [106-002] </obo:IAO_0000602>
+ <obo:IAO_0000600>[copied from inverse property
'realizes'] to say that b realizes c at t is to assert that there
is some material entity d & b is a process which has participant d at t
& c is a disposition or role of which d is bearer_of at t& the type
instantiated by b is correlated with the type instantiated by c. (axiom
label in BFO2 Reference: [059-003])</obo:IAO_0000600>
+ <obo:IAO_0000601 xml:lang="en">if a realizable entity b is
realized in a process p, then p stands in the has_participant relation to
the bearer of b. (axiom label in BFO2 Reference:
[106-002])</obo:IAO_0000601>
+ <obo:BFO_0000179>realized-in</obo:BFO_0000179>
+ <obo:BFO_0000180>realizedIn</obo:BFO_0000180>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000055">
+ <rdfs:label xml:lang="en">realizes</rdfs:label>
+ <obo:IAO_0000602>(forall (x y t) (if (realizesAt x y t) (and
(Process x) (or (Disposition y) (Role y)) (exists (z) (and (MaterialEntity
z) (hasParticipantAt x z t) (bearerOfAt z y t)))))) // axiom label in BFO2
CLIF: [059-003] </obo:IAO_0000602>
+ <obo:BFO_0000179>realizes</obo:BFO_0000179>
+ <obo:BFO_0000180>realizes</obo:BFO_0000180>
+ <obo:IAO_0000600 xml:lang="en">to say that b realizes c at t is to
assert that there is some material entity d & b is a process which has
participant d at t & c is a disposition or role of which d is bearer_of
at t& the type instantiated by b is correlated with the type
instantiated by c. (axiom label in BFO2 Reference:
[059-003])</obo:IAO_0000600>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
+ <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000054"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000056">
+ <rdfs:label xml:lang="en">participates in at some time</rdfs:label>
+ <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO2 Reference: process</obo:IAO_0000116>
+ <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] Alan Ruttenberg: This is a binary version
of a ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'has participant at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'has
participant@en'(x,y,t)</obo:IAO_0000116>
+ <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO2 Reference: independent continuant that
is not a spatial region, specifically dependent continuant, generically
dependent continuant</obo:IAO_0000116>
+ <obo:BFO_0000179>participates-in_st</obo:BFO_0000179>
+ <obo:IAO_0000600>[copied from inverse property 'has
participant at some time'] has_participant is an instance-level
relation between a process, a continuant, and a temporal region at which
the continuant participates in some way in the process. (axiom label in
BFO2 Reference: [086-003])</obo:IAO_0000600>
+ <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO 2 Reference: Spatial regions do not
participate in processes.</obo:IAO_0000116>
+ <obo:BFO_0000180>participatesInAt</obo:BFO_0000180>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ <rdfs:domain>
+ <owl:Class>
+ <owl:intersectionOf rdf:parseType="Collection">
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000002"/>
+ <owl:Class>
+ <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
+ </owl:Class>
+ </owl:intersectionOf>
+ </owl:Class>
+ </rdfs:domain>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000057">
+ <rdfs:label xml:lang="en">has participant at some time</rdfs:label>
+ <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(Continuant y))) // axiom label in BFO2 CLIF: [088-001] </obo:IAO_0000602>
+ <obo:BFO_0000179>has-participant_st</obo:BFO_0000179>
+ <obo:BFO_0000180>hasParticipantAt</obo:BFO_0000180>
+ <obo:IAO_0000116>BFO2 Reference: process</obo:IAO_0000116>
+ <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(Occurrent x))) // axiom label in BFO2 CLIF: [087-001] </obo:IAO_0000602>
+ <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(existsAt y t))) // axiom label in BFO2 CLIF: [089-001] </obo:IAO_0000602>
+ <obo:IAO_0000602>(forall (x y t) (if (and (hasParticipantAt x y t)
(GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant
z) (not (SpatialRegion z)) (genericallyDependsOn y z t)
(specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
</obo:IAO_0000602>
+ <obo:IAO_0000602>(forall (x y t) (if (and (hasParticipantAt x y t)
(SpecificallyDependentContinuant y)) (exists (z) (and
(IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt
x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF:
[090-003] </obo:IAO_0000602>
+ <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'has participant at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'has
participant@en'(x,y,t)</obo:IAO_0000116>
+ <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Spatial regions do
not participate in processes.</obo:IAO_0000116>
+ <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region, specifically dependent continuant, generically
dependent continuant</obo:IAO_0000116>
+ <obo:IAO_0000600 xml:lang="en">has_participant is an
instance-level relation between a process, a continuant, and a temporal
region at which the continuant participates in some way in the process.
(axiom label in BFO2 Reference: [086-003])</obo:IAO_0000600>
+ <obo:IAO_0000601 xml:lang="en">if b has_participant c at t & c
is a generically dependent continuant, then there is some independent
continuant that is not a spatial region d, and which is such that c
g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2
Reference: [091-003])</obo:IAO_0000601>
+ <obo:IAO_0000601 xml:lang="en">if b has_participant c at t & c
is a specifically dependent continuant, then there is some independent
continuant that is not a spatial region d, c s-depends_on d at t & b
s-depends_on d at t. (axiom label in BFO2 Reference:
[090-003])</obo:IAO_0000601>
+ <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then b
is an occurrent. (axiom label in BFO2 Reference:
[087-001])</obo:IAO_0000601>
+ <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then c
exists at t. (axiom label in BFO2 Reference: [089-001])</obo:IAO_0000601>
+ <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then c
is a continuant. (axiom label in BFO2 Reference:
[088-001])</obo:IAO_0000601>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
+ <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000056"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ <rdfs:range>
+ <owl:Class>
+ <owl:intersectionOf rdf:parseType="Collection">
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000002"/>
+ <owl:Class>
+ <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
+ </owl:Class>
+ </owl:intersectionOf>
+ </owl:Class>
+ </rdfs:range>
+ <owl:propertyChainAxiom rdf:parseType="Collection">
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000055"/>
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000052"/>
+ </owl:propertyChainAxiom>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000058">
+ <rdfs:label xml:lang="en">concretized by at some time</rdfs:label>
+ <obo:BFO_0000179>concretized-by_st</obo:BFO_0000179>
+ <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] you may concretize a poem as a pattern of memory traces
in your head</obo:IAO_0000112>
+ <obo:IAO_0000600>[copied from inverse property 'concretizes
at some time'] b concretizes c at t means: b is a specifically
dependent continuant & c is a generically dependent continuant &
for some independent continuant that is not a spatial region d, b
s-depends_on d at t & c g-depends on d at t & if c migrates from
bearer d to another bearer e than a copy of b will be created in e. (axiom
label in BFO2 Reference: [075-002])</obo:IAO_0000600>
+ <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] You may concretize a piece of software by installing it
in your computer</obo:IAO_0000112>
+ <obo:IAO_0000116>[copied from inverse property 'concretizes
at some time'] Alan Ruttenberg: This is a binary version of a ternary
time-indexed, instance level, relation. The BFO reading of the binary
relation 'concretizes at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) &
'concretizes@en'(x,y,t)</obo:IAO_0000116>
+ <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] You may concretize a recipe that you find in a cookbook
by turning it into a plan which exists as a realizable dependent continuant
in your head.</obo:IAO_0000112>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000059">
+ <rdfs:label xml:lang="en">concretizes at some time</rdfs:label>
+ <obo:BFO_0000180>concretizesAt</obo:BFO_0000180>
+ <obo:IAO_0000602>(forall (x y t) (if (genericallyDependsOnAt x y
t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y
t))))) // axiom label in BFO2 CLIF: [076-001] </obo:IAO_0000602>
+ <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'concretizes at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) &
'concretizes@en'(x,y,t)</obo:IAO_0000116>
+ <obo:IAO_0000602>(forall (x y t) (if (concretizesAt x y t) (and
(SpecificallyDependentContinuant x) (GenericallyDependentContinuant y)
(exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t)
(genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
</obo:IAO_0000602>
+ <obo:BFO_0000179>concretizes_st</obo:BFO_0000179>
+ <obo:IAO_0000112 xml:lang="en">You may concretize a piece of
software by installing it in your computer</obo:IAO_0000112>
+ <obo:IAO_0000112 xml:lang="en">You may concretize a recipe that
you find in a cookbook by turning it into a plan which exists as a
realizable dependent continuant in your head.</obo:IAO_0000112>
+ <obo:IAO_0000600 xml:lang="en">b concretizes c at t means: b is a
specifically dependent continuant & c is a generically dependent
continuant & for some independent continuant that is not a spatial
region d, b s-depends_on d at t & c g-depends on d at t & if c
migrates from bearer d to another bearer e than a copy of b will be created
in e. (axiom label in BFO2 Reference: [075-002])</obo:IAO_0000600>
+ <obo:IAO_0000601 xml:lang="en">if b g-depends on c at some time t,
then there is some d, such that d concretizes b at t and d s-depends_on c
at t. (axiom label in BFO2 Reference: [076-001])</obo:IAO_0000601>
+ <obo:IAO_0000112 xml:lang="en">you may concretize a poem as a
pattern of memory traces in your head</obo:IAO_0000112>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
+ <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000058"/>
+ <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
+ </owl:ObjectProperty>
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
+ <rdfs:label xml:lang="en">has_specified_input</rdfs:label>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">8/17/09: specified
inputs of one process are not necessarily specified inputs of a larger
process that it is part of. This is in contrast to how 'has
participant' works.</obo:IAO_0000116>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern
Peters</obo:IAO_0000117>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry
Hunter</obo:IAO_0000117>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Coutot</obo:IAO_0000117>
+ <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process that is not created
during the process. The presence of the continuant during the process is
explicitly specified in the plan specification which the process realizes
the concretization of.</obo:IAO_0000115>
+ <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000111
xml:lang="en">has_specified_input</obo:IAO_0000111>
+ <obo:IAO_0000112 xml:lang="en">see is_input_of
example_of_usage</obo:IAO_0000112>
+ <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000057"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
+ <rdfs:label xml:lang="en">has_specified_output</rdfs:label>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern
Peters</obo:IAO_0000117>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry
Hunter</obo:IAO_0000117>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
+ <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process. The presence of the
continuant at the end of the process is explicitly specified in the
objective specification which the process realizes the concretization
of.</obo:IAO_0000115>
+ <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000111
xml:lang="en">has_specified_output</obo:IAO_0000111>
+ <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000057"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
+ <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
+ <rdfs:label xml:lang="en">is_specified_output_of</rdfs:label>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON:Bjoern
Peters</obo:IAO_0000117>
+ <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process. The presence of the
continuant at the end of the process is explicitly specified in the
objective specification which the process realizes the concretization
of.</obo:IAO_0000115>
+ <obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000111
xml:lang="en">is_specified_output_of</obo:IAO_0000111>
+ <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000056"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000015"/>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000017"/>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000020"/>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0000011"/>
+</rdf:RDF>
+
+
+
+
+
=======================================
--- /dev/null
+++ /branches/2014-06-13/ontology/iao-obsolete.owl Thu Jul 10 18:15:28 2014
UTC
@@ -0,0 +1,513 @@
+<?xml version="1.0"?>
+<rdf:RDF xmlns="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl#"
+ xml:base="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl"
+ xmlns:obo="http://purl.obolibrary.org/obo/"
+ xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
+ xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
+ xmlns:owl="http://www.w3.org/2002/07/owl#"
+ xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
+ xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
+ <owl:Ontology
rdf:about="http://purl.obolibrary.org/obo/iao/iao-obsolete.owl">
+ <protege:defaultLanguage
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">en</protege:defaultLanguage>
+ <owl:versionIRI
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-obsolete.owl"/>
+ <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete classes
from the information artifact ontology. see
http://code.google.com/p/information-artifact-ontology/</rdfs:comment>
+ <owl:versionInfo xml:lang="en">$Revision$</owl:versionInfo>
+ <rdfs:seeAlso
rdf:resource="http://code.google.com/p/information-artifact-ontology/"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/ontology-metadata.owl"/>
+ </owl:Ontology>
+
+
+
+ 
+
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000111"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000113"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000114"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000115"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000116"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000118"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000119"/>
+
+
+
+ 
+
+ <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000231"/>
+
+
+ 
+
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000135">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_specifically
denotes</rdfs:label>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">8/6/2009 Alan
Ruttenberg: The suggestions is to deprecate specific and generically
denotes in favor of a single denote relationship that corresponds to the
generic sense</obo:IAO_0000116>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Smith, Ceusters,
Ruttenberg, 2000 years of philosophy</obo:IAO_0000119>
+ <obo:IAO_0000112
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The process of
creation is, for example, writing down on paper the name of a friend by
deliberately creating a certain pattern using ink.
+
+Here the ink + paper is the independent continuant and the carrier is the
pattern in the ink.
+
+c = pattern in the ink
+b = paper + ink
+r = friend</obo:IAO_0000112>
+ <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">c specifically
denotes r =def
+r is a portion of reality
+& c is a particular quality
+& c depends specifically on some independent continuant b
+& b acquired c as the result of the achievement of an objective to
enable pointing to r repeatedly.
+
+Marked means there is a changed or additional quality of the bearer - the
quality is the information carrier.
+
+Case 1
+Memory trace as mark created when reading some description of some friend.
The trace can denote.
+
+Case 2
+Pattern of ink arrayed on paper as mark when writing down a friend's
name
+
+Case 3
+Pattern of magnetic domains on scattered pieces of a hard disk platter as
mark when saving a file.</obo:IAO_0000115>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">see
http://code.google.com/p/information-artifact-ontology/issues/detail?id=25&q=denote</obo:IAO_0000116>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
+ <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000220">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_materially
denotes</rdfs:label>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">see
http://code.google.com/p/information-artifact-ontology/issues/detail?id=25&q=denote</obo:IAO_0000116>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000222">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_describes</rdfs:label>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000223">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_represents</rdfs:label>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
+ </owl:ObjectProperty>
+
+
+
+ 
+
+ <owl:ObjectProperty
rdf:about="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
+
+
+
+ 
+
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000008">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_artifact</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000012">
+ <rdfs:label xml:lang="en">obsolete2_digital entity</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000261</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
+
+Superclass was 'digitial quality'</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">A digital entity is an information
entity which is a collection of bits that can be interpreted by a computer.
Two digital entities are the same if they are bitwise
identical.</obo:IAO_0000115>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000111 xml:lang="en">obsolete_digital
entity</obo:IAO_0000111>
+ <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000018">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_material_entity</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000226"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000019">
+ <rdfs:label xml:lang="en">obsolete2_binary digital
entity</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000244</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
+Superclass was 'digital entity'</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">A binary digital entity is a
digital entity that is encoded in a way that is not easily human readable
and that contains other than text characters.</obo:IAO_0000115>
+ <obo:IAO_0000112 xml:lang="en">MS Word document, ZIP file, DICOM
file, JPEG file</obo:IAO_0000112>
+ <obo:IAO_0000111 xml:lang="en">binary digital
entity</obo:IAO_0000111>
+ <obo:IAO_0000116 xml:lang="en">digital_entity</obo:IAO_0000116>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000024">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_unit of
measure</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Smith, Ceusters,
Ruttenberg, 2000 years of philosophy</obo:IAO_0000119>
+ <obo:IAO_0000112
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The length of a
ruler.</obo:IAO_0000112>
+ <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">a unit of measure is
the quality of some material entity compared to which another quality is
some multiple of.</obo:IAO_0000115>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000035">
+ <rdfs:label xml:lang="en">obsolete_study
interpretation</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16:
definition was "A conclusion is a narrative object which can be
published in a paper summerizing and interpreting a protocol
application."</obo:IAO_0000116>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: work has
been done on this term during during the OBI workshop winter 2009 and the
current definition was considered acceptable for use in OBI. If there is a
need to modify this definition please notify OBI.</obo:IAO_0000116>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000005</obo:IAO_0000119>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
+ <obo:IAO_0000118
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">conclusion</obo:IAO_0000118>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000115 xml:lang="en">A study interpretation is a textual
entity about the implications of a study result. Examples include
discussion of whether a hypothesis is false, whether the study failed to
address the hypothesis, and whether the study results have led to new
hypotheses</obo:IAO_0000115>
+ <obo:IAO_0000117 xml:lang="en">Lawrence Hunter</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">PERSON: Jennifer
Fostel</obo:IAO_0000117>
+ <obo:IAO_0000116 xml:lang="en">The obsoleting of narrative object
required a modest change in the definition of this term. Circularity with
"interpretation... interprets" has been removed, using
"about the implications" instead.</obo:IAO_0000116>
+ <obo:IAO_0000111 xml:lang="en">obsolete_study
interpretation</obo:IAO_0000111>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000047">
+ <rdfs:label xml:lang="en">obsolete2_text based digital
entity</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000132</obo:IAO_0000119>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">group:OBI</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
+superclass was 'digital document'</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">A text based digital entity is a
digital entity that is encoded so that it only contains text
characters.</obo:IAO_0000115>
+ <obo:IAO_0000112 xml:lang="en">XML file, C++ source code
file</obo:IAO_0000112>
+ <obo:IAO_0000116 xml:lang="en">digital_entity</obo:IAO_0000116>
+ <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
+ <obo:IAO_0000111 xml:lang="en">text based digital
entity</obo:IAO_0000111>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000059">
+ <rdfs:label xml:lang="en">obsolete2_report figure</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000027</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000115 xml:lang="en">A report figure is a report display
element that has some aspect of illustration, but may be a composite of
figures, images, and other elements</obo:IAO_0000115>
+ <obo:IAO_0000116 xml:lang="en">I prepended the 'report '
to make it clear that we mean parts of reports here. We may want a more
generic version of 'figure', in which case this would become a
defined class - figure and part_of some report</obo:IAO_0000116>
+ <obo:IAO_0000116 xml:lang="en">Replaced by defined version of
figure</obo:IAO_0000116>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">person:Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">person:Allyson
Lister</obo:IAO_0000117>
+ <obo:IAO_0000111 xml:lang="en">report figure</obo:IAO_0000111>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000124"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000091">
+ <rdfs:label xml:lang="en">obsolete_report element</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: needs
some more work (clarify relations).</obo:IAO_0000116>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: was
report display element with definition: A report display element is a
narrative object that is part of a report. Report display elements are set
off from the textual parts of a report and are typically given a label(e.g.
Figure 2) which is used to refer to the element from the text. Typically
the 2d layout is part of the identity of such elements.</obo:IAO_0000116>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: work has
been done on this term during during the OBI workshop winter 2009 and the
current definition was considered acceptable for use in OBI. If there is a
need to modify this definition please notify OBI.</obo:IAO_0000116>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-08-10 Alan
Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by
'textual entity' and 'figure'. Alan restored as there
are OBI dependencies and this merits further discussion</obo:IAO_0000116>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000001</obo:IAO_0000119>
+ <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Replaced by textual
entity and figure</obo:IAO_0000116>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000115 xml:lang="en">A report element is a narrative
object in which information is presented and consumed by a human being, and
is part of a report. Examples of report elements are figure (dot plot),
table, text portion (may include a movie or audio clip on a web
page).</obo:IAO_0000115>
+ <obo:IAO_0000119 xml:lang="en">GROUP:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">PERSON: Allyson
Lister</obo:IAO_0000117>
+ <obo:IAO_0000116 xml:lang="en">There will be some issue here about
whether these are defined classes. As intended these are meant to denote
the parts of the report that are not textual but are typically boxed and
set within the text, labelled with some identifier, and referred to in the
text</obo:IAO_0000116>
+ <obo:IAO_0000111 xml:lang="en">report element</obo:IAO_0000111>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000093">
+ <rdfs:label xml:lang="en">obsolete2_binary executable</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000222</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
+superclass was 'digital entity'</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">Binary executable is a digital
entity consisting of the binary representation of machine instructions of a
specific processor or they may be binary pseudocode for a virtual machine.
A non-source executable file is also called an object program. It is
assumed that the binary executable file contains properly-formatted
computer instructions. (derived from Wikipedia, Nov 1,
2007)</obo:IAO_0000115>
+ <obo:IAO_0000111 xml:lang="en">binary executable</obo:IAO_0000111>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">person:Jennifer
Fostel</obo:IAO_0000117>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000097">
+ <rdfs:label xml:lang="en">obsolete_report table</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-08-10 Alan
Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by
'textual entity table'. Alan restored as there are OBI
dependencies and this merits further discussion</obo:IAO_0000116>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000265</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000115 xml:lang="en">A report table is a report display
element consisting of a matrix of cells layed out in a grid, some set of
which are filled with some information content</obo:IAO_0000115>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">person:Alan
Ruttenberg</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">person:Allyson
Lister</obo:IAO_0000117>
+ <obo:IAO_0000111 xml:lang="en">report table</obo:IAO_0000111>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000002"/>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000105">
+ <rdfs:label xml:lang="en">obsolete2_digital document</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000195</obo:IAO_0000119>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
+superclass was 'digial entity'</obo:IAO_0000116>
+ <obo:IAO_0000115 xml:lang="en">A digital document is a digital
entity consisting of an electronic file which can be rendered into
human-readable form by one or more computational applications. The digital
document does not refer to the information content of the document but to
an instance of the file.</obo:IAO_0000115>
+ <obo:IAO_0000111 xml:lang="en">digital document</obo:IAO_0000111>
+ <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
+ <obo:IAO_0000117 xml:lang="en">person:Jennifer
Fostel</obo:IAO_0000117>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000128">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_identifier</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">_identifier is a
container under information content entity for collecting types of terms to
indicate a specific instance or clas of what was used or participated in an
investigation. Identifiers are borne by a product or its packaging, and can
be encoded in a variety of other information objects, such as bar codes,
numerals, or patterns of dots.
+
+Note: everybody agreed that identifier is probably a too general term. We
however felt that it would be appropriate to group "identifiying"
terms under some kind of umbrella. We therefore propose to use _identifier
for that purpose. As per OBI conventions, the _ prefixing identifier
indicates that this is a helper class and shouldn't be considered as
final.</obo:IAO_0000116>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000121"/>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000226"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000141">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_digital
quality</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Need to rework
digital entity. Digital quality was suggested by Barry.</obo:IAO_0000116>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116>3/22/2009 Alan Ruttenberg, obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4</obo:IAO_0000116>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000182">
+ <rdfs:label xml:lang="en">obsolete_survival curve</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000115 xml:lang="en">A survival curve is a report graph
which is a graphical representation of data where the percentage of
survival is plotted as a function of time.</obo:IAO_0000115>
+ <obo:IAO_0000117 xml:lang="en">PERSON:Chris
Stoeckert</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">PERSON:James
Malone</obo:IAO_0000117>
+ <obo:IAO_0000117 xml:lang="en">PERSON:Melanie
Courtot</obo:IAO_0000117>
+ <obo:IAO_0000119 xml:lang="en">WEB:
http://www.graphpad.com/www/book/survive.htm</obo:IAO_0000119>
+ <obo:IAO_0000111 xml:lang="en">obsolete_survival
curve</obo:IAO_0000111>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000576">
+ <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_establishing
a CRID registry</rdfs:label>
+ <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+ <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">a planned process
with the objective to establish a system that allows to refer to specific
entities of a certain kind and store information about them, by
establishing a CRID registry and plan specifications for the process of 1)
assigning a CRID and 2) looking up a CRID.</obo:IAO_0000115>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116>MC, 20101124: deprecated following discussion at
IAO call 20101124. Term was deemed not necessary - no use case for
now.</obo:IAO_0000116>
+ <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
+ </owl:Class>
+
+
+
+ 
+
+ <owl:Class
rdf:about="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
+
+
+
+ 
+
+
+
+
+ 
+
+ <owl:Thing rdf:about="http://purl.obolibrary.org/obo/IAO_0000103"/>
+
+
+
+ 
+
+ <owl:Thing rdf:about="http://purl.obolibrary.org/obo/IAO_0000226"/>
+
+
+
+ 
+
+ <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/IAO_0000230">
+ <rdf:type
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000225"/>
+ <rdfs:label xml:lang="en">other</rdfs:label>
+ <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
+ <obo:IAO_0000116 xml:lang="en">This is to be used if none of the
existing instances cover the reason for obsolescence. An editor note should
indicate this new reason.</obo:IAO_0000116>
+ <obo:IAO_0000116 xml:lang="en">We expect to be able to mine these
new reasons and add instances as required.</obo:IAO_0000116>
+ </owl:NamedIndividual>
+</rdf:RDF>
+
+
+
+
+
=======================================
--- /dev/null
+++ /branches/2014-06-13/ontology/iao.owl Thu Jul 10 18:15:28 2014 UTC
@@ -0,0 +1,50 @@
+<?xml version="1.0"?>
+<rdf:RDF xmlns="http://purl.obolibrary.org/obo/"
+ xml:base="http://purl.obolibrary.org/obo/"
+ xmlns:obo="http://purl.obolibrary.org/obo/"
+ xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
+ xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
+ xmlns:owl2xml="http://www.w3.org/2006/12/owl2-xml#"
+ xmlns:owl="http://www.w3.org/2002/07/owl#"
+ xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
+ xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
+ xmlns:owl2="http://www.w3.org/2006/12/owl2#">
+ <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/iao.owl">
+ <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An information
artifact is, loosely, a dependent continuant or its bearer that is created
as the result of one or more intentional processes. Examples: uniprot, the
english language, the contents of this document or a printout of it, the
temperature measurements from a weather balloon. For more information, see
the project home page at
http://code.google.com/p/information-artifact-ontology/</rdfs:comment>
+ <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IDs allocated to
related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS:
IAO_0021000-IAO_0021999</rdfs:comment>
+ <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IDs allocated to
subdomains of IAO. pno.owl: IAO_0020000-IAO_0020999, d-acts.owl:
IAO_0021000-IAO_0021999</rdfs:comment>
+ <protege:defaultLanguage
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">en</protege:defaultLanguage>
+ <owl:versionInfo xml:lang="en">$Revision$</owl:versionInfo>
+ <owl:versionIRI
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao.owl"/>
+ <rdfs:seeAlso
rdf:resource="http://code.google.com/p/information-artifact-ontology/"/>
+ <owl:imports
rdf:resource="http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/bfo/2014-05-03/classes-only.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-external-by-hand.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-main.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-obo-imports.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-obsolete.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/ontology-metadata.owl"/>
+ </owl:Ontology>
+
+
+
+ 
+
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/iao/pno.owl">
+ <IAO_0000603
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO_0020000-IAO_0020999</IAO_0000603>
+ </rdf:Description>
+ <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/iao/d-acts.owl">
+ <IAO_0000603
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO_0021000-IAO_0021999</IAO_0000603>
+ </rdf:Description>
+</rdf:RDF>
+
+
+
+
+
=======================================
--- /branches/2014-06-13/ontology/IAO.owl Thu Jul 10 18:06:02 2014 UTC
+++ /dev/null
@@ -1,50 +0,0 @@
-<?xml version="1.0"?>
-<rdf:RDF xmlns="http://purl.obolibrary.org/obo/"
- xml:base="http://purl.obolibrary.org/obo/"
- xmlns:obo="http://purl.obolibrary.org/obo/"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
- xmlns:owl2xml="http://www.w3.org/2006/12/owl2-xml#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#"
- xmlns:owl2="http://www.w3.org/2006/12/owl2#">
- <owl:Ontology rdf:about="http://purl.obolibrary.org/obo/iao.owl">
- <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">An information
artifact is, loosely, a dependent continuant or its bearer that is created
as the result of one or more intentional processes. Examples: uniprot, the
english language, the contents of this document or a printout of it, the
temperature measurements from a weather balloon. For more information, see
the project home page at
http://code.google.com/p/information-artifact-ontology/</rdfs:comment>
- <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IDs allocated to
related efforts: PNO: IAO_0020000-IAO_0020999, D_ACTS:
IAO_0021000-IAO_0021999</rdfs:comment>
- <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IDs allocated to
subdomains of IAO. pno.owl: IAO_0020000-IAO_0020999, d-acts.owl:
IAO_0021000-IAO_0021999</rdfs:comment>
- <protege:defaultLanguage
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">en</protege:defaultLanguage>
- <owl:versionInfo xml:lang="en">$Revision$</owl:versionInfo>
- <owl:versionIRI
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao.owl"/>
- <rdfs:seeAlso
rdf:resource="http://code.google.com/p/information-artifact-ontology/"/>
- <owl:imports
rdf:resource="http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/bfo/2014-05-03/classes-only.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/iao-main.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/import-OBO.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/ontology-metadata.owl"/>
- </owl:Ontology>
-
-
-
- 
-
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/iao/pno.owl">
- <IAO_0000603
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO_0020000-IAO_0020999</IAO_0000603>
- </rdf:Description>
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/iao/d-acts.owl">
- <IAO_0000603
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">IAO_0021000-IAO_0021999</IAO_0000603>
- </rdf:Description>
-</rdf:RDF>
-
-
-
-
-
=======================================
--- /branches/2014-06-13/ontology/externalByHand.owl Mon Jun 30 21:31:34
2014 UTC
+++ /dev/null
@@ -1,407 +0,0 @@
-<?xml version="1.0"?>
-<rdf:RDF xmlns="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl#"
- xml:base="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl"
- xmlns:dc="http://purl.org/dc/elements/1.1/"
-
xmlns:protege-dc="http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl#"
- xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
- xmlns:xsp="http://www.owl-ontologies.com/2005/08/07/xsp.owl#"
- xmlns:dcterms="http://purl.org/dc/terms/"
- xmlns:obo="http://purl.obolibrary.org/obo/"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:swrl="http://www.w3.org/2003/11/swrl#"
- xmlns:swrlb="http://www.w3.org/2003/11/swrlb#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
- <owl:Ontology
rdf:about="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl">
- <owl:versionInfo
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">$Revision: 80
$</owl:versionInfo>
- </owl:Ontology>
-
-
-
- 
-
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000111">
- <rdfs:label xml:lang="en">editor preferred term</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000112">
- <rdfs:label xml:lang="en">example of usage</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000113">
- <rdfs:label xml:lang="en">in branch</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000114">
- <rdfs:label xml:lang="en">has curation status</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000115">
- <rdfs:label xml:lang="en">definition</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000116">
- <rdfs:label xml:lang="en">editor note</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000117">
- <rdfs:label xml:lang="en">term editor</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000118">
- <rdfs:label xml:lang="en">alternative term</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000119">
- <rdfs:label xml:lang="en">definition source</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000412">
- <rdfs:label xml:lang="en">imported from</rdfs:label>
- </owl:AnnotationProperty>
-
-
-
- 
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000052">
- <rdfs:label xml:lang="en">inheres in at all times</rdfs:label>
- <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Inherence is a
subrelation of s-depends_on which holds between a dependent continuant and
an independent continuant that is not a spatial region. Since dependent
continuants cannot migrate from one independent continuant bearer to
another, it follows that if b s-depends_on independent continuant c at some
time, then b s-depends_on c at all times at which a exists. Inherence is in
this sense redundantly time-indexed.For example, consider the particular
instance of openness inhering in my mouth at t as I prepare to take a bite
out of a donut, followed by a closedness at t+1 when I bite the donut and
start chewing. The openness instance is then shortlived, and to say that it
s-depends_on my mouth at all times at which this openness exists, means: at
all times during this short life. Every time you make a fist, you make a
new (instance of the universal) fist. (Every time your hand has the
fist-shaped quality, there is created a new instance of the universal
fist-shaped quality.)</obo:IAO_0000116>
- <obo:BFO_0000180>inheresInAt</obo:BFO_0000180>
- <obo:BFO_0000179>inheres-in_at</obo:BFO_0000179>
- <obo:IAO_0000602>(iff (inheresInAt a b t) (and
(DependentContinuant a) (IndependentContinuant b) (not (SpatialRegion b))
(specificallyDependsOnAt a b t))) // axiom label in BFO2 CLIF: [051-002]
</obo:IAO_0000602>
- <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region</obo:IAO_0000116>
- <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance-level, relation. The BFO reading of the
binary relation 'inheres in at all times@en' is: forall(t)
exists_at(x,t) -> exists_at(y,t) and 'inheres
in@en(x,y,t)'.</obo:IAO_0000116>
- <obo:IAO_0000116>BFO2 Reference: specifically dependent
continuant</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">b inheres_in c at t =Def. b is a
dependent continuant & c is an independent continuant that is not a
spatial region & b s-depends_on c at t. (axiom label in BFO2 Reference:
[051-002])</obo:IAO_0000115>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- <rdfs:range>
- <owl:Class>
- <owl:intersectionOf rdf:parseType="Collection">
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
- <owl:Class>
- <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
- </owl:Class>
- </owl:intersectionOf>
- </owl:Class>
- </rdfs:range>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000053">
- <rdfs:label xml:lang="en">bearer of at some time</rdfs:label>
- <obo:IAO_0000602>(iff (bearerOfAt a b t) (and
(specificallyDependsOnAt b a t) (IndependentContinuant a) (not
(SpatialRegion a)) (existsAt b t))) // axiom label in BFO2 CLIF: [053-004]
</obo:IAO_0000602>
- <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region</obo:IAO_0000116>
- <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'bearer of at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'bearer
of@en'(x,y,t)</obo:IAO_0000116>
- <obo:IAO_0000116>BFO2 Reference: specifically dependent
continuant</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">b bearer_of c at t =Def. c
s-depends_on b at t & b is an independent continuant that is not a
spatial region. (axiom label in BFO2 Reference: [053-004])</obo:IAO_0000115>
- <obo:BFO_0000180>bearerOfAt</obo:BFO_0000180>
- <obo:BFO_0000179>bearer-of_st</obo:BFO_0000179>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- <rdfs:domain>
- <owl:Class>
- <owl:intersectionOf rdf:parseType="Collection">
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
- <owl:Class>
- <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
- </owl:Class>
- </owl:intersectionOf>
- </owl:Class>
- </rdfs:domain>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000054">
- <rdfs:label xml:lang="en">realized in</rdfs:label>
- <obo:IAO_0000602>(forall (x y z t) (if (and (RealizableEntity x)
(Process y) (realizesAt y x t) (bearerOfAt z x t)) (hasParticipantAt y z
t))) // axiom label in BFO2 CLIF: [106-002] </obo:IAO_0000602>
- <obo:IAO_0000600>[copied from inverse property
'realizes'] to say that b realizes c at t is to assert that there
is some material entity d & b is a process which has participant d at t
& c is a disposition or role of which d is bearer_of at t& the type
instantiated by b is correlated with the type instantiated by c. (axiom
label in BFO2 Reference: [059-003])</obo:IAO_0000600>
- <obo:IAO_0000601 xml:lang="en">if a realizable entity b is
realized in a process p, then p stands in the has_participant relation to
the bearer of b. (axiom label in BFO2 Reference:
[106-002])</obo:IAO_0000601>
- <obo:BFO_0000179>realized-in</obo:BFO_0000179>
- <obo:BFO_0000180>realizedIn</obo:BFO_0000180>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000055">
- <rdfs:label xml:lang="en">realizes</rdfs:label>
- <obo:IAO_0000602>(forall (x y t) (if (realizesAt x y t) (and
(Process x) (or (Disposition y) (Role y)) (exists (z) (and (MaterialEntity
z) (hasParticipantAt x z t) (bearerOfAt z y t)))))) // axiom label in BFO2
CLIF: [059-003] </obo:IAO_0000602>
- <obo:BFO_0000179>realizes</obo:BFO_0000179>
- <obo:BFO_0000180>realizes</obo:BFO_0000180>
- <obo:IAO_0000600 xml:lang="en">to say that b realizes c at t is to
assert that there is some material entity d & b is a process which has
participant d at t & c is a disposition or role of which d is bearer_of
at t& the type instantiated by b is correlated with the type
instantiated by c. (axiom label in BFO2 Reference:
[059-003])</obo:IAO_0000600>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000017"/>
- <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000054"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000056">
- <rdfs:label xml:lang="en">participates in at some time</rdfs:label>
- <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO2 Reference: process</obo:IAO_0000116>
- <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] Alan Ruttenberg: This is a binary version
of a ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'has participant at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'has
participant@en'(x,y,t)</obo:IAO_0000116>
- <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO2 Reference: independent continuant that
is not a spatial region, specifically dependent continuant, generically
dependent continuant</obo:IAO_0000116>
- <obo:BFO_0000179>participates-in_st</obo:BFO_0000179>
- <obo:IAO_0000600>[copied from inverse property 'has
participant at some time'] has_participant is an instance-level
relation between a process, a continuant, and a temporal region at which
the continuant participates in some way in the process. (axiom label in
BFO2 Reference: [086-003])</obo:IAO_0000600>
- <obo:IAO_0000116>[copied from inverse property 'has
participant at some time'] BFO 2 Reference: Spatial regions do not
participate in processes.</obo:IAO_0000116>
- <obo:BFO_0000180>participatesInAt</obo:BFO_0000180>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- <rdfs:domain>
- <owl:Class>
- <owl:intersectionOf rdf:parseType="Collection">
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000002"/>
- <owl:Class>
- <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
- </owl:Class>
- </owl:intersectionOf>
- </owl:Class>
- </rdfs:domain>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000057">
- <rdfs:label xml:lang="en">has participant at some time</rdfs:label>
- <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(Continuant y))) // axiom label in BFO2 CLIF: [088-001] </obo:IAO_0000602>
- <obo:BFO_0000179>has-participant_st</obo:BFO_0000179>
- <obo:BFO_0000180>hasParticipantAt</obo:BFO_0000180>
- <obo:IAO_0000116>BFO2 Reference: process</obo:IAO_0000116>
- <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(Occurrent x))) // axiom label in BFO2 CLIF: [087-001] </obo:IAO_0000602>
- <obo:IAO_0000602>(forall (x y t) (if (hasParticipantAt x y t)
(existsAt y t))) // axiom label in BFO2 CLIF: [089-001] </obo:IAO_0000602>
- <obo:IAO_0000602>(forall (x y t) (if (and (hasParticipantAt x y t)
(GenericallyDependentContinuant y)) (exists (z) (and (IndependentContinuant
z) (not (SpatialRegion z)) (genericallyDependsOn y z t)
(specificallyDependsOnAt x z t))))) // axiom label in BFO2 CLIF: [091-003]
</obo:IAO_0000602>
- <obo:IAO_0000602>(forall (x y t) (if (and (hasParticipantAt x y t)
(SpecificallyDependentContinuant y)) (exists (z) (and
(IndependentContinuant z) (not (SpatialRegion z)) (specificallyDependsOnAt
x z t) (specificallyDependsOnAt y z t))))) // axiom label in BFO2 CLIF:
[090-003] </obo:IAO_0000602>
- <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'has participant at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) & 'has
participant@en'(x,y,t)</obo:IAO_0000116>
- <obo:IAO_0000116 xml:lang="en">BFO 2 Reference: Spatial regions do
not participate in processes.</obo:IAO_0000116>
- <obo:IAO_0000116>BFO2 Reference: independent continuant that is
not a spatial region, specifically dependent continuant, generically
dependent continuant</obo:IAO_0000116>
- <obo:IAO_0000600 xml:lang="en">has_participant is an
instance-level relation between a process, a continuant, and a temporal
region at which the continuant participates in some way in the process.
(axiom label in BFO2 Reference: [086-003])</obo:IAO_0000600>
- <obo:IAO_0000601 xml:lang="en">if b has_participant c at t & c
is a generically dependent continuant, then there is some independent
continuant that is not a spatial region d, and which is such that c
g-depends on d at t & b s-depends_on d at t. (axiom label in BFO2
Reference: [091-003])</obo:IAO_0000601>
- <obo:IAO_0000601 xml:lang="en">if b has_participant c at t & c
is a specifically dependent continuant, then there is some independent
continuant that is not a spatial region d, c s-depends_on d at t & b
s-depends_on d at t. (axiom label in BFO2 Reference:
[090-003])</obo:IAO_0000601>
- <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then b
is an occurrent. (axiom label in BFO2 Reference:
[087-001])</obo:IAO_0000601>
- <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then c
exists at t. (axiom label in BFO2 Reference: [089-001])</obo:IAO_0000601>
- <obo:IAO_0000601 xml:lang="en">if b has_participant c at t then c
is a continuant. (axiom label in BFO2 Reference:
[088-001])</obo:IAO_0000601>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000015"/>
- <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000056"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- <rdfs:range>
- <owl:Class>
- <owl:intersectionOf rdf:parseType="Collection">
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000002"/>
- <owl:Class>
- <owl:complementOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000006"/>
- </owl:Class>
- </owl:intersectionOf>
- </owl:Class>
- </rdfs:range>
- <owl:propertyChainAxiom rdf:parseType="Collection">
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000055"/>
- <rdf:Description
rdf:about="http://purl.obolibrary.org/obo/BFO_0000052"/>
- </owl:propertyChainAxiom>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000058">
- <rdfs:label xml:lang="en">concretized by at some time</rdfs:label>
- <obo:BFO_0000179>concretized-by_st</obo:BFO_0000179>
- <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] you may concretize a poem as a pattern of memory traces
in your head</obo:IAO_0000112>
- <obo:IAO_0000600>[copied from inverse property 'concretizes
at some time'] b concretizes c at t means: b is a specifically
dependent continuant & c is a generically dependent continuant &
for some independent continuant that is not a spatial region d, b
s-depends_on d at t & c g-depends on d at t & if c migrates from
bearer d to another bearer e than a copy of b will be created in e. (axiom
label in BFO2 Reference: [075-002])</obo:IAO_0000600>
- <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] You may concretize a piece of software by installing it
in your computer</obo:IAO_0000112>
- <obo:IAO_0000116>[copied from inverse property 'concretizes
at some time'] Alan Ruttenberg: This is a binary version of a ternary
time-indexed, instance level, relation. The BFO reading of the binary
relation 'concretizes at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) &
'concretizes@en'(x,y,t)</obo:IAO_0000116>
- <obo:IAO_0000112>[copied from inverse property 'concretizes
at some time'] You may concretize a recipe that you find in a cookbook
by turning it into a plan which exists as a realizable dependent continuant
in your head.</obo:IAO_0000112>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/BFO_0000059">
- <rdfs:label xml:lang="en">concretizes at some time</rdfs:label>
- <obo:BFO_0000180>concretizesAt</obo:BFO_0000180>
- <obo:IAO_0000602>(forall (x y t) (if (genericallyDependsOnAt x y
t) (exists (z) (and (concretizesAt z x t) (specificallyDependsOnAt z y
t))))) // axiom label in BFO2 CLIF: [076-001] </obo:IAO_0000602>
- <obo:IAO_0000116>Alan Ruttenberg: This is a binary version of a
ternary time-indexed, instance level, relation. The BFO reading of the
binary relation 'concretizes at some time@en' is: exists t,
exists_at(x,t) & exists_at(y,t) &
'concretizes@en'(x,y,t)</obo:IAO_0000116>
- <obo:IAO_0000602>(forall (x y t) (if (concretizesAt x y t) (and
(SpecificallyDependentContinuant x) (GenericallyDependentContinuant y)
(exists (z) (and (IndependentContinuant z) (specificallyDependsOnAt x z t)
(genericallyDependsOnAt y z t)))))) // axiom label in BFO2 CLIF: [075-002]
</obo:IAO_0000602>
- <obo:BFO_0000179>concretizes_st</obo:BFO_0000179>
- <obo:IAO_0000112 xml:lang="en">You may concretize a piece of
software by installing it in your computer</obo:IAO_0000112>
- <obo:IAO_0000112 xml:lang="en">You may concretize a recipe that
you find in a cookbook by turning it into a plan which exists as a
realizable dependent continuant in your head.</obo:IAO_0000112>
- <obo:IAO_0000600 xml:lang="en">b concretizes c at t means: b is a
specifically dependent continuant & c is a generically dependent
continuant & for some independent continuant that is not a spatial
region d, b s-depends_on d at t & c g-depends on d at t & if c
migrates from bearer d to another bearer e than a copy of b will be created
in e. (axiom label in BFO2 Reference: [075-002])</obo:IAO_0000600>
- <obo:IAO_0000601 xml:lang="en">if b g-depends on c at some time t,
then there is some d, such that d concretizes b at t and d s-depends_on c
at t. (axiom label in BFO2 Reference: [076-001])</obo:IAO_0000601>
- <obo:IAO_0000112 xml:lang="en">you may concretize a poem as a
pattern of memory traces in your head</obo:IAO_0000112>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000020"/>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000031"/>
- <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000058"/>
- <rdfs:isDefinedBy
rdf:resource="http://purl.obolibrary.org/obo/bfo.owl"/>
- </owl:ObjectProperty>
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000293">
- <rdfs:label xml:lang="en">has_specified_input</rdfs:label>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">8/17/09: specified
inputs of one process are not necessarily specified inputs of a larger
process that it is part of. This is in contrast to how 'has
participant' works.</obo:IAO_0000116>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern
Peters</obo:IAO_0000117>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry
Hunter</obo:IAO_0000117>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Coutot</obo:IAO_0000117>
- <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process that is not created
during the process. The presence of the continuant during the process is
explicitly specified in the plan specification which the process realizes
the concretization of.</obo:IAO_0000115>
- <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000111
xml:lang="en">has_specified_input</obo:IAO_0000111>
- <obo:IAO_0000112 xml:lang="en">see is_input_of
example_of_usage</obo:IAO_0000112>
- <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000057"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000299">
- <rdfs:label xml:lang="en">has_specified_output</rdfs:label>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Bjoern
Peters</obo:IAO_0000117>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Larry
Hunter</obo:IAO_0000117>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
- <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process. The presence of the
continuant at the end of the process is explicitly specified in the
objective specification which the process realizes the concretization
of.</obo:IAO_0000115>
- <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000111
xml:lang="en">has_specified_output</obo:IAO_0000111>
- <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000057"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
- <rdfs:domain
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
- <owl:inverseOf
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000312"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/OBI_0000312">
- <rdfs:label xml:lang="en">is_specified_output_of</rdfs:label>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON:Bjoern
Peters</obo:IAO_0000117>
- <obo:IAO_0000115 xml:lang="en">A relation between a planned
process and a continuant participating in that process. The presence of the
continuant at the end of the process is explicitly specified in the
objective specification which the process realizes the concretization
of.</obo:IAO_0000115>
- <obo:IAO_0000117 xml:lang="en">Alan Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000111
xml:lang="en">is_specified_output_of</obo:IAO_0000111>
- <rdfs:subPropertyOf
rdf:resource="http://purl.obolibrary.org/obo/BFO_0000056"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
- <rdfs:range
rdf:resource="http://purl.obolibrary.org/obo/OBI_0000011"/>
- </owl:ObjectProperty>
-
-
-
- 
-
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000004"/>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000015"/>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000017"/>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/BFO_0000020"/>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/OBI_0000011"/>
-</rdf:RDF>
-
-
-
-
-
=======================================
--- /branches/2014-06-13/ontology/obsolete.owl Thu Jul 10 15:49:17 2014 UTC
+++ /dev/null
@@ -1,512 +0,0 @@
-<?xml version="1.0"?>
-<rdf:RDF xmlns="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl#"
- xml:base="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl"
- xmlns:obo="http://purl.obolibrary.org/obo/"
- xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
- xmlns:protege="http://protege.stanford.edu/plugins/owl/protege#"
- xmlns:owl="http://www.w3.org/2002/07/owl#"
- xmlns:xsd="http://www.w3.org/2001/XMLSchema#"
- xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
- <owl:Ontology
rdf:about="http://purl.obolibrary.org/obo/iao/dev/obsolete.owl">
- <protege:defaultLanguage
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">en</protege:defaultLanguage>
- <rdfs:comment
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete classes
from the information artifact ontology. see
http://code.google.com/p/information-artifact-ontology/</rdfs:comment>
- <owl:versionInfo xml:lang="en">$Revision$</owl:versionInfo>
- <rdfs:seeAlso
rdf:resource="http://code.google.com/p/information-artifact-ontology/"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/ontology-metadata.owl"/>
- </owl:Ontology>
-
-
-
- 
-
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000111"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000112"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000113"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000114"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000115"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000116"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000117"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000118"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000119"/>
-
-
-
- 
-
- <owl:AnnotationProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000231"/>
-
-
- 
-
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000135">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_specifically
denotes</rdfs:label>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">8/6/2009 Alan
Ruttenberg: The suggestions is to deprecate specific and generically
denotes in favor of a single denote relationship that corresponds to the
generic sense</obo:IAO_0000116>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Smith, Ceusters,
Ruttenberg, 2000 years of philosophy</obo:IAO_0000119>
- <obo:IAO_0000112
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The process of
creation is, for example, writing down on paper the name of a friend by
deliberately creating a certain pattern using ink.
-
-Here the ink + paper is the independent continuant and the carrier is the
pattern in the ink.
-
-c = pattern in the ink
-b = paper + ink
-r = friend</obo:IAO_0000112>
- <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">c specifically
denotes r =def
-r is a portion of reality
-& c is a particular quality
-& c depends specifically on some independent continuant b
-& b acquired c as the result of the achievement of an objective to
enable pointing to r repeatedly.
-
-Marked means there is a changed or additional quality of the bearer - the
quality is the information carrier.
-
-Case 1
-Memory trace as mark created when reading some description of some friend.
The trace can denote.
-
-Case 2
-Pattern of ink arrayed on paper as mark when writing down a friend's
name
-
-Case 3
-Pattern of magnetic domains on scattered pieces of a hard disk platter as
mark when saving a file.</obo:IAO_0000115>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">see
http://code.google.com/p/information-artifact-ontology/issues/detail?id=25&q=denote</obo:IAO_0000116>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
- <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000220">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_materially
denotes</rdfs:label>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">see
http://code.google.com/p/information-artifact-ontology/issues/detail?id=25&q=denote</obo:IAO_0000116>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000222">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_describes</rdfs:label>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://purl.obolibrary.org/obo/IAO_0000223">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_represents</rdfs:label>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <rdfs:subPropertyOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
- </owl:ObjectProperty>
-
-
-
- 
-
- <owl:ObjectProperty
rdf:about="http://www.geneontology.org/formats/oboInOwl#ObsoleteProperty"/>
-
-
-
- 
-
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000008">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_artifact</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000012">
- <rdfs:label xml:lang="en">obsolete2_digital entity</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000261</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
-
-Superclass was 'digitial quality'</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">A digital entity is an information
entity which is a collection of bits that can be interpreted by a computer.
Two digital entities are the same if they are bitwise
identical.</obo:IAO_0000115>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000111 xml:lang="en">obsolete_digital
entity</obo:IAO_0000111>
- <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000018">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_material_entity</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000226"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000019">
- <rdfs:label xml:lang="en">obsolete2_binary digital
entity</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000244</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
-Superclass was 'digital entity'</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">A binary digital entity is a
digital entity that is encoded in a way that is not easily human readable
and that contains other than text characters.</obo:IAO_0000115>
- <obo:IAO_0000112 xml:lang="en">MS Word document, ZIP file, DICOM
file, JPEG file</obo:IAO_0000112>
- <obo:IAO_0000111 xml:lang="en">binary digital
entity</obo:IAO_0000111>
- <obo:IAO_0000116 xml:lang="en">digital_entity</obo:IAO_0000116>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000024">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_unit of
measure</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Smith, Ceusters,
Ruttenberg, 2000 years of philosophy</obo:IAO_0000119>
- <obo:IAO_0000112
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">The length of a
ruler.</obo:IAO_0000112>
- <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">a unit of measure is
the quality of some material entity compared to which another quality is
some multiple of.</obo:IAO_0000115>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000035">
- <rdfs:label xml:lang="en">obsolete_study
interpretation</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16:
definition was "A conclusion is a narrative object which can be
published in a paper summerizing and interpreting a protocol
application."</obo:IAO_0000116>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: work has
been done on this term during during the OBI workshop winter 2009 and the
current definition was considered acceptable for use in OBI. If there is a
need to modify this definition please notify OBI.</obo:IAO_0000116>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000005</obo:IAO_0000119>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
- <obo:IAO_0000118
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">conclusion</obo:IAO_0000118>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000115 xml:lang="en">A study interpretation is a textual
entity about the implications of a study result. Examples include
discussion of whether a hypothesis is false, whether the study failed to
address the hypothesis, and whether the study results have led to new
hypotheses</obo:IAO_0000115>
- <obo:IAO_0000117 xml:lang="en">Lawrence Hunter</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">PERSON: Jennifer
Fostel</obo:IAO_0000117>
- <obo:IAO_0000116 xml:lang="en">The obsoleting of narrative object
required a modest change in the definition of this term. Circularity with
"interpretation... interprets" has been removed, using
"about the implications" instead.</obo:IAO_0000116>
- <obo:IAO_0000111 xml:lang="en">obsolete_study
interpretation</obo:IAO_0000111>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000125"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000047">
- <rdfs:label xml:lang="en">obsolete2_text based digital
entity</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000132</obo:IAO_0000119>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">group:OBI</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
-superclass was 'digital document'</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">A text based digital entity is a
digital entity that is encoded so that it only contains text
characters.</obo:IAO_0000115>
- <obo:IAO_0000112 xml:lang="en">XML file, C++ source code
file</obo:IAO_0000112>
- <obo:IAO_0000116 xml:lang="en">digital_entity</obo:IAO_0000116>
- <obo:IAO_0000117 xml:lang="en">person:Chris
Stoeckert</obo:IAO_0000117>
- <obo:IAO_0000111 xml:lang="en">text based digital
entity</obo:IAO_0000111>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000059">
- <rdfs:label xml:lang="en">obsolete2_report figure</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000027</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000115 xml:lang="en">A report figure is a report display
element that has some aspect of illustration, but may be a composite of
figures, images, and other elements</obo:IAO_0000115>
- <obo:IAO_0000116 xml:lang="en">I prepended the 'report '
to make it clear that we mean parts of reports here. We may want a more
generic version of 'figure', in which case this would become a
defined class - figure and part_of some report</obo:IAO_0000116>
- <obo:IAO_0000116 xml:lang="en">Replaced by defined version of
figure</obo:IAO_0000116>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">person:Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">person:Allyson
Lister</obo:IAO_0000117>
- <obo:IAO_0000111 xml:lang="en">report figure</obo:IAO_0000111>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000124"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000091">
- <rdfs:label xml:lang="en">obsolete_report element</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: needs
some more work (clarify relations).</obo:IAO_0000116>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: was
report display element with definition: A report display element is a
narrative object that is part of a report. Report display elements are set
off from the textual parts of a report and are typically given a label(e.g.
Figure 2) which is used to refer to the element from the text. Typically
the 2d layout is part of the identity of such elements.</obo:IAO_0000116>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-03-16: work has
been done on this term during during the OBI workshop winter 2009 and the
current definition was considered acceptable for use in OBI. If there is a
need to modify this definition please notify OBI.</obo:IAO_0000116>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-08-10 Alan
Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by
'textual entity' and 'figure'. Alan restored as there
are OBI dependencies and this merits further discussion</obo:IAO_0000116>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000001</obo:IAO_0000119>
- <obo:IAO_0000117
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">PERSON: Melanie
Courtot</obo:IAO_0000117>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Replaced by textual
entity and figure</obo:IAO_0000116>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000115 xml:lang="en">A report element is a narrative
object in which information is presented and consumed by a human being, and
is part of a report. Examples of report elements are figure (dot plot),
table, text portion (may include a movie or audio clip on a web
page).</obo:IAO_0000115>
- <obo:IAO_0000119 xml:lang="en">GROUP:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">PERSON: Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">PERSON: Allyson
Lister</obo:IAO_0000117>
- <obo:IAO_0000116 xml:lang="en">There will be some issue here about
whether these are defined classes. As intended these are meant to denote
the parts of the report that are not textual but are typically boxed and
set within the text, labelled with some identifier, and referred to in the
text</obo:IAO_0000116>
- <obo:IAO_0000111 xml:lang="en">report element</obo:IAO_0000111>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000120"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000093">
- <rdfs:label xml:lang="en">obsolete2_binary executable</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000222</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
-superclass was 'digital entity'</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">Binary executable is a digital
entity consisting of the binary representation of machine instructions of a
specific processor or they may be binary pseudocode for a virtual machine.
A non-source executable file is also called an object program. It is
assumed that the binary executable file contains properly-formatted
computer instructions. (derived from Wikipedia, Nov 1,
2007)</obo:IAO_0000115>
- <obo:IAO_0000111 xml:lang="en">binary executable</obo:IAO_0000111>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">person:Jennifer
Fostel</obo:IAO_0000117>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000097">
- <rdfs:label xml:lang="en">obsolete_report table</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">2009-08-10 Alan
Ruttenberg: Larry Hunter suggests that this be obsoleted and replaced by
'textual entity table'. Alan restored as there are OBI
dependencies and this merits further discussion</obo:IAO_0000116>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000265</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000115 xml:lang="en">A report table is a report display
element consisting of a matrix of cells layed out in a grid, some set of
which are filled with some information content</obo:IAO_0000115>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">person:Alan
Ruttenberg</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">person:Allyson
Lister</obo:IAO_0000117>
- <obo:IAO_0000111 xml:lang="en">report table</obo:IAO_0000111>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000002"/>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000105">
- <rdfs:label xml:lang="en">obsolete2_digital document</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000119
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">OBI_0000195</obo:IAO_0000119>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">3/22/2009 Alan Ruttenberg,
obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4
-superclass was 'digial entity'</obo:IAO_0000116>
- <obo:IAO_0000115 xml:lang="en">A digital document is a digital
entity consisting of an electronic file which can be rendered into
human-readable form by one or more computational applications. The digital
document does not refer to the information content of the document but to
an instance of the file.</obo:IAO_0000115>
- <obo:IAO_0000111 xml:lang="en">digital document</obo:IAO_0000111>
- <obo:IAO_0000119 xml:lang="en">group:OBI</obo:IAO_0000119>
- <obo:IAO_0000117 xml:lang="en">person:Jennifer
Fostel</obo:IAO_0000117>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000128">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_identifier</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">_identifier is a
container under information content entity for collecting types of terms to
indicate a specific instance or clas of what was used or participated in an
investigation. Identifiers are borne by a product or its packaging, and can
be encoded in a variety of other information objects, such as bar codes,
numerals, or patterns of dots.
-
-Note: everybody agreed that identifier is probably a too general term. We
however felt that it would be appropriate to group "identifiying"
terms under some kind of umbrella. We therefore propose to use _identifier
for that purpose. As per OBI conventions, the _ prefixing identifier
indicates that this is a helper class and shouldn't be considered as
final.</obo:IAO_0000116>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000121"/>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000226"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000141">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_digital
quality</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000116
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">Need to rework
digital entity. Digital quality was suggested by Barry.</obo:IAO_0000116>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116>3/22/2009 Alan Ruttenberg, obsoleted per
http://groups.google.com/group/information-ontology/browse_thread/thread/789ad4b7708d5cf4</obo:IAO_0000116>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000182">
- <rdfs:label xml:lang="en">obsolete_survival curve</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000115 xml:lang="en">A survival curve is a report graph
which is a graphical representation of data where the percentage of
survival is plotted as a function of time.</obo:IAO_0000115>
- <obo:IAO_0000117 xml:lang="en">PERSON:Chris
Stoeckert</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">PERSON:James
Malone</obo:IAO_0000117>
- <obo:IAO_0000117 xml:lang="en">PERSON:Melanie
Courtot</obo:IAO_0000117>
- <obo:IAO_0000119 xml:lang="en">WEB:
http://www.graphpad.com/www/book/survive.htm</obo:IAO_0000119>
- <obo:IAO_0000111 xml:lang="en">obsolete_survival
curve</obo:IAO_0000111>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- <obo:IAO_0000114
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000122"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class rdf:about="http://purl.obolibrary.org/obo/IAO_0000576">
- <rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">obsolete_establishing
a CRID registry</rdfs:label>
- <rdfs:subClassOf
rdf:resource="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
- <obo:IAO_0000115
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">a planned process
with the objective to establish a system that allows to refer to specific
entities of a certain kind and store information about them, by
establishing a CRID registry and plan specifications for the process of 1)
assigning a CRID and 2) looking up a CRID.</obo:IAO_0000115>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116>MC, 20101124: deprecated following discussion at
IAO call 20101124. Term was deemed not necessary - no use case for
now.</obo:IAO_0000116>
- <obo:IAO_0000231
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000103"/>
- </owl:Class>
-
-
-
- 
-
- <owl:Class
rdf:about="http://www.geneontology.org/formats/oboInOwl#ObsoleteClass"/>
-
-
-
- 
-
-
-
-
- 
-
- <owl:Thing rdf:about="http://purl.obolibrary.org/obo/IAO_0000103"/>
-
-
-
- 
-
- <owl:Thing rdf:about="http://purl.obolibrary.org/obo/IAO_0000226"/>
-
-
-
- 
-
- <owl:NamedIndividual
rdf:about="http://purl.obolibrary.org/obo/IAO_0000230">
- <rdf:type
rdf:resource="http://purl.obolibrary.org/obo/IAO_0000225"/>
- <rdfs:label xml:lang="en">other</rdfs:label>
- <owl:deprecated
rdf:datatype="http://www.w3.org/2001/XMLSchema#boolean">true</owl:deprecated>
- <obo:IAO_0000116 xml:lang="en">This is to be used if none of the
existing instances cover the reason for obsolescence. An editor note should
indicate this new reason.</obo:IAO_0000116>
- <obo:IAO_0000116 xml:lang="en">We expect to be able to mine these
new reasons and add instances as required.</obo:IAO_0000116>
- </owl:NamedIndividual>
-</rdf:RDF>
-
-
-
-
-
=======================================
--- /branches/2014-06-13/ontology/iao-main.owl Thu Jul 10 18:06:02 2014 UTC
+++ /branches/2014-06-13/ontology/iao-main.owl Thu Jul 10 18:15:28 2014 UTC
@@ -24,9 +24,9 @@
<rdfs:seeAlso
rdf:resource="http://code.google.com/p/information-artifact-ontology/"/>
<owl:imports
rdf:resource="http://protege.stanford.edu/plugins/owl/dc/protege-dc.owl"/>
<owl:imports
rdf:resource="http://purl.obolibrary.org/obo/bfo/2014-05-03/classes-only.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/externalByHand.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/import-OBO.owl"/>
- <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/dev/ontology-metadata.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-external-by-hand.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/iao-obo-imports.owl"/>
+ <owl:imports
rdf:resource="http://purl.obolibrary.org/obo/iao/bfo2-transitional/ontology-metadata.owl"/>
</owl:Ontology>

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