Massive profile update. The ultimate test for Sahar's script. The aut…

…o-update failed due to issues with pushing to the Bioschemas-DDE repo.

ChemicalSubstance/jsonld/ChemicalSubstance_v0.5-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:ChemicalSubstance",
             "@type": "rdfs:Class",
-            "rdfs:comment": "This profile describes a ChemicalSubstance which is 'a portion of matter of constant composition, composed of molecular entities of the same type or of different types' (source: ChEBI:59999). Note, the parent class for this profile has been updated to a pending class in schema.org. Version 0.5-DRAFT. Changes since 0.4-RELEASE<ul><li>added sameAs property as recommended.</li></ul>",
+            "rdfs:comment": "This profile describes a ChemicalSubstance which is 'a portion of matter of constant composition, composed of molecular entities of the same type or of different types' (source: ChEBI:59999). Note, the parent class for this profile has been updated to a pending class in schema.org. Version 0.5-DRAFT. <h3>Summary of Changes</h3> Changes since 0.4-RELEASE<ul><li>added sameAs property as recommended.</li></ul>",
             "rdfs:label": "ChemicalSubstance",
             "rdfs:subClassOf": {
                 "@id": "schema:ChemicalSubstance"

ComputationalTool/jsonld/ComputationalTool_v1.1-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:ComputationalTool",
             "@type": "rdfs:Class",
-            "rdfs:comment": "The Life Science Tools specification provides a way to describe bioscience tools and software on the World Wide Web. It defines a set of metadata and vocabularies, built on top of existing technologies and standards, that can be used to represent such tools in Web pages and applications. The goal of the specification is to make it easier to discover. Version 1.1-DRAFT.<h3>Summary of Changes</h3> <p>Changes since the 1.0-RELEASE</p> <ul> <li>added sameAs property as recommended.</li></ul>",
+            "rdfs:comment": "The Life Science Tools specification provides a way to describe bioscience tools and software on the World Wide Web. It defines a set of metadata and vocabularies, built on top of existing technologies and standards, that can be used to represent such tools in Web pages and applications. The goal of the specification is to make it easier to discover. Version 1.1-DRAFT. <h3>Summary of Changes</h3> <p>Changes since the 1.0-RELEASE</p> <ul> <li>added sameAs property as recommended.</li></ul>",
             "rdfs:label": "ComputationalTool",
             "rdfs:subClassOf": {
                 "@id": "schema:SoftwareApplication"

ComputationalWorkflow/jsonld/ComputationalWorkflow_v1.1-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemas:ComputationalWorkflow",
             "@type": "rdfs:Class",
-            "rdfs:comment": "A computational workflow consists of an orchestrated and repeatable pattern of activity enabled by the systematic organization of resources into processes that transform materials, provide services, or process information (source Wikipedia.org). It is executed by a computational process and is thus distinct from laboratory or business workflows. Changes since 1.0-RELEASE<ul><li>added sameAs property as recommended</li><li>Change input/outputs from minimal/required to recommended (issue 563)</li><li>Add applicationSubCategory and featurelist as recommended (issue 564)</li></ul>Version 1.1-DRAFT",
+            "rdfs:comment": "A computational workflow consists of an orchestrated and repeatable pattern of activity enabled by the systematic organization of resources into processes that transform materials, provide services, or process information (source Wikipedia.org). It is executed by a computational process and is thus distinct from laboratory or business workflows. Version 1.1-DRAFT. <h3>Summary of Changes</h3> Changes since 1.0-RELEASE<ul><li>added sameAs property as recommended</li><li>Change input/outputs from minimal/required to recommended (issue 563)</li><li>Add applicationSubCategory and featurelist as recommended (issue 564)</li></ul>Version 1.1-DRAFT",
             "rdfs:label": "ComputationalWorkflow",
             "rdfs:subClassOf": {
                 "@id": "bioschemastypes:ComputationalWorkflow"

DataCatalog/jsonld/DataCatalog_v0.4-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:DataCatalog",
             "@type": "rdfs:Class",
-            "rdfs:comment": "A guide for how to describe data catalogs/repositories in the life-sciences using Schema.org-like annotation. Version 0.4-DRAFT. Changes since 0.3-RELEASE-2019_07_01:<ul><li>added sameAs property as recommended.</li></ul>",
+            "rdfs:comment": "A guide for how to describe data catalogs/repositories in the life-sciences using Schema.org-like annotation. Version 0.4-DRAFT. <h3>Summary of Changes</h3> Changes since 0.3-RELEASE-2019_07_01:<ul><li>added sameAs property as recommended.</li></ul>",
             "rdfs:label": "DataCatalog",
             "rdfs:subClassOf": {
                 "@id": "schema:DataCatalog"

Dataset/jsonld/Dataset_v0.6-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:Dataset",
             "@type": "rdfs:Class",
-            "rdfs:comment": " A guide for how to describe datasets in the life-sciences using Schema.org-like annotation.<h3>Summary of Changes</h3><ul><li>add sameAs property as recommended.</li><li> Included DefinedTerm as expected type for measurementTechnique</li></ul> Version: 0.6-DRAFT",
+            "rdfs:comment": " A guide for how to describe datasets in the life-sciences using Schema.org-like annotation. Version 0.6-DRAFT. <h3>Summary of Changes</h3> <h3>Summary of Changes</h3><ul><li>add sameAs property as recommended.</li><li> Included DefinedTerm as expected type for measurementTechnique</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Dataset/0.6-DRAFT"
             ],

Disease/jsonld/Disease_v0.2-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemasdrafts:Disease",
             "@type": "rdfs:Class",
-            "rdfs:comment": "This is the first draft of the Disease profile, using MedicalCondition type from schema.org as template for inheriting some properties. Changes since 0.1-DRAFT<ul><li>added sameAs as recommended<li></ul>Version 0.2-DRAFT",
+            "rdfs:comment": "This is the first draft of the Disease profile, using MedicalCondition type from schema.org as template for inheriting some properties. Version 0.2-DRAFT. <h3>Summary of Changes</h3> Changes since 0.1-DRAFT<ul><li>added sameAs as recommended<li></ul>",
             "rdfs:label": "Disease",
             "rdfs:subClassOf": {
                 "@id": "schema:MedicalCondition"

Event/jsonld/Event_v0.3-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:Event",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Specification for describing an event in the Life Sciences Specification for describing a Life Science event. This includes conferences, workshops, meetings, courses, receptions, networking and prizegivings.         Changes since 0.2-DRAFT-2019_06_14<ul><li>added sameAs property as recommended</li></ul>. Version: 0.3-DRAFT",
+            "rdfs:comment": "Specification for describing an event in the Life Sciences Specification for describing a Life Science event. This includes conferences, workshops, meetings, courses, receptions, networking and prizegivings. Version 0.3-DRAFT. <h3>Summary of Changes</h3> Changes since 0.2-DRAFT-2019_06_14<ul><li>added sameAs property as recommended</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Event/0.3-DRAFT"
             ],

FormalParameter/jsonld/FormalParameter_v1.1-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemas:FormalParameter",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas specification for describing a formal parameter in the Life Sciences. Changes since 1.0-RELEASE<ul><li>added sameAs property as recommended</li></ul>Version: 1.1-DRAFT ",
+            "rdfs:comment": "Bioschemas specification for describing a formal parameter in the Life Sciences. Version 1.1-DRAFT. <h3>Summary of Changes</h3> Changes since 1.0-RELEASE<ul><li>added sameAs property as recommended</li></ul>",
             "rdfs:label": "FormalParameter",
             "rdfs:subClassOf": {
                 "@id": "bioschemastypes:FormalParameter"

Gene/jsonld/Gene_v1.1-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemasdrafts:Gene",
             "@type": "rdfs:Class",
-            "rdfs:comment": "This Gene profile specification presents the markup for describing a Gene. \n Summary of Changes: \n Updated type properties to Schema.org pending release. \n Addition of hasSequenceAnnotation property at Recommended level. \n Remove use of mainEntityOfPage; DataRecord has been deprecated",
+            "rdfs:comment": "This Gene profile specification presents the markup for describing a Gene. Version 1.1-DRAFT. <h3>Summary of Changes</h3>  <ul><li>Updated type properties to Schema.org pending release.</li><li>Addition of hasSequenceAnnotation property at Recommended level.</li><li>Remove use of mainEntityOfPage; DataRecord has been deprecated</li>",
             "rdfs:label": "Gene",
             "rdfs:subClassOf": {
                 "@id": "schema:Gene"

Journal/jsonld/Journal_v0.3-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:Journal",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas profile, based on Biotea model, describing a Journal in Life Sciences. A Journal is a collection of publication issues, publication volumes or scholarly articles, or possibly, although no commonly, any mix from those mentioned. <h4>Summary of Changes</h4>    Changes since previous draft 0.2 Journal profile:    <ul>      <li>added sameAs property as recommended</li></ul>Version: 0.3-DRAFT",
+            "rdfs:comment": "Bioschemas profile, based on Biotea model, describing a Journal in Life Sciences. A Journal is a collection of publication issues, publication volumes or scholarly articles, or possibly, although no commonly, any mix from those mentioned. Version 0.3-DRAFT<h3>Summary of Changes</h3> Changes since previous draft 0.2 Journal profile: <ul><li>added sameAs property as recommended</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Journal/0.3-DRAFT"
             ],

LabProtocol/jsonld/LabProtocol_v0.7-DRAFT.json

@@ -12,7 +12,7 @@
         {
             "@id": "bioschemas:LabProtocol",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas profile describing a LabProtocol in Life Sciences. An experimental LabProtocol is a sequence of tasks and operations executed to perform experimental research in biological and biomedical areas. This LabProtocol profile specification presents the markup for describing a LabProtocol type according to Bioschemas. An experimental LabProtocol is a sequence of tasks and operations executed to perform experimental research in biological and biomedical areas.<h4>Summary of Changes</h4>    Changes since previous draft 0.5 of the LabProtocols profile:    <ul>       <li>added sameAs property as recommended</li>    </ul> Version: 0.7-DRAFT",
+            "rdfs:comment": "Bioschemas profile describing a LabProtocol in Life Sciences. An experimental LabProtocol is a sequence of tasks and operations executed to perform experimental research in biological and biomedical areas. This LabProtocol profile specification presents the markup for describing a LabProtocol type according to Bioschemas. An experimental LabProtocol is a sequence of tasks and operations executed to perform experimental research in biological and biomedical areas. Version 0.7-DRAFT. <h3>Summary of Changes</h3> Changes since previous draft 0.5 of the LabProtocols profile: <ul><li>added sameAs property as recommended</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/LabProtocol/0.7-DRAFT"
             ],

MolecularEntity/jsonld/MolecularEntity_v0.6-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemas:MolecularEntity",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas profile describing a MolecularEntity. Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity. (Source: ChEBI:23367) based on version 0.5. Note, the parent class for this profile has been updated to a pending class in schema.org. Changes since 0.5-DRAFT<ul></li>anyOf 'name','inCHI','SMILES' required</li><li>sameAs removed from recommended</li><li>identifier moved from required to optional</li></ul> Version 0.6-DRAFT",
+            "rdfs:comment": "Bioschemas profile describing a MolecularEntity. Any constitutionally or isotopically distinct atom, molecule, ion, ion pair, radical, radical ion, complex, conformer etc., identifiable as a separately distinguishable entity. (Source: ChEBI:23367) based on version 0.5. Note, the parent class for this profile has been updated to a pending class in schema.org. Version 0.6-DRAFT. <h3>Summary of Changes</h3>   Changes since 0.5-DRAFT<ul></li>anyOf 'name','inCHI','SMILES' required</li><li>sameAs removed from recommended</li><li>identifier moved from required to optional</li></ul>",
             "rdfs:label": "MolecularEntity",
             "rdfs:subClassOf": {
                 "@id": "schema:MolecularEntity"

Organization/jsonld/Organization_v0.3-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:Organization",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas specification for describing a Organization in the life-science. Provides a way to describe bioscience organizations on the World Wide Web. It defines metadata terms that can be used in the code of web pages and applications, and builds on top of existing technologies and standards. The goal of the specification is to make it easier to discover, exchange and integrate life science organization profiles across the Internet. Changes since 0.2-DRAFT<ul><li>added sameAs property as recommended</li></ul>. Version: 0.3-DRAFT",
+            "rdfs:comment": "Bioschemas specification for describing a Organization in the life-science. Provides a way to describe bioscience organizations on the World Wide Web. It defines metadata terms that can be used in the code of web pages and applications, and builds on top of existing technologies and standards. The goal of the specification is to make it easier to discover, exchange and integrate life science organization profiles across the Internet. Version: 0.3-DRAFT. <h3>Summary of Changes</h3>  Changes since 0.2-DRAFT<ul><li>added sameAs property as recommended</li></ul>.",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Organization/0.3-DRAFT"
             ],

Person/jsonld/Person_v0.3-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:Person",
             "@type": "rdfs:Class",
-            "rdfs:comment": "A specification for describing people in life sciences The Life Science Person specification provides a way to describe bioscience events on the World Wide Web. It defines a set of metadata and vocabularies, built on top of existing technologies and standards, that can be used to represent the profile information of people in Web pages and applications. The goal of the specification is to make it easier to discover, life science profile information. Changes since 0.2-DRAFT-2019_07_19<ul><li>added sameAs property as recommended</li></ul>. Version: 0.3-DRAFT",
+            "rdfs:comment": "A specification for describing people in life sciences The Life Science Person specification provides a way to describe bioscience events on the World Wide Web. It defines a set of metadata and vocabularies, built on top of existing technologies and standards, that can be used to represent the profile information of people in Web pages and applications. The goal of the specification is to make it easier to discover, life science profile information. Version: 0.3-DRAFT. <h3>Summary of Changes</h3>Changes since 0.2-DRAFT-2019_07_19:<ul><li>added sameAs property as recommended</li></ul>. ",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Person/0.3-DRAFT"
             ],

Phenotype/jsonld/Phenotype_v0.2-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemas:Phenotype",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas profile describing a Phenotype in Life Sciences This Phenotype type specification presents the markup for describing a Phenotype.<h3>Changes from Previous Version</h3><ul><li>isAssociatedWith BioChemEntity switch to recommended and renamed as bioChemAssociation with an improved description</li><li>taxonomicRange switch to recommended</li><li>image switch to optional and many</li><li>additionalType dropped</li><li>additionalProperty description changed</li><li>new property: associatedDisease</li><li>new properties for GO associations: hasMolecularFunction, isInvolvedInBiologicalProcess and isLocatedInSubcellularLocation</li></ul> Version: 0.2-DRAFT",
+            "rdfs:comment": "Bioschemas profile describing a Phenotype in Life Sciences This Phenotype type specification presents the markup for describing a Phenotype. Version 0.2-DRAFT. <h3>Summary of Changes</h3>Changes from Previous Version:<ul><li>isAssociatedWith BioChemEntity switch to recommended and renamed as bioChemAssociation with an improved description</li><li>taxonomicRange switch to recommended</li><li>image switch to optional and many</li><li>additionalType dropped</li><li>additionalProperty description changed</li><li>new property: associatedDisease</li><li>new properties for GO associations: hasMolecularFunction, isInvolvedInBiologicalProcess and isLocatedInSubcellularLocation</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/Phenotype/0.2-DRAFT"
             ],

Protein/jsonld/Protein_v0.12-DRAFT.json

@@ -11,7 +11,7 @@
         {
             "@id": "bioschemasdrafts:Protein",
             "@type": "rdfs:Class",
-            "rdfs:comment": "This Protein profile specification presents the most common properties used for a Protein plus examples on how to use them. Version 0.12 \n Changes since previous release of the Protein Profile:\n Updated type properties to Schema.org pending release.\n Addition of hasSequenceAnnotation property at Recommended level.",
+            "rdfs:comment": "This Protein profile specification presents the most common properties used for a Protein plus examples on how to use them. Version 0.12-DRAFT. <h3>Summary of Changes</h3> Changes since previous release of the Protein Profile:<ul><li> Updated type properties to Schema.org pending release.</li><li>Addition of hasSequenceAnnotation property at Recommended level</li></ul>",
             "rdfs:label": "Protein",
             "rdfs:subClassOf": {
                 "@id": "schema:Protein"

ProteinStructure/jsonld/ProteinStructure_v0.6-DRAFT.json

@@ -12,7 +12,7 @@
         {
             "@id": "bioschemasdrafts:ProteinStructure",
             "@type": "rdfs:Class",
-            "rdfs:comment": "This profile specification presents the BioChemEntity usage when describing a Protein structure. Changes since 0.5-DRAFT-2018_08_15<ul><li>added sameAs property as recommended</li></ul>. Version: 0.6-DRAFT",
+            "rdfs:comment": "This profile specification presents the BioChemEntity usage when describing a Protein structure. Version 0.6-DRAFT. <h3>Summary of Changes</h3>Changes since 0.5-DRAFT-2018_08_15<ul><li>added sameAs property as recommended</li></ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/ProteinStructure/0.6-DRAFT"
             ],

PublicationIssue/jsonld/PublicationIssue_v0.3-DRAFT.json

@@ -10,7 +10,7 @@
         {
             "@id": "bioschemas:PublicationIssue",
             "@type": "rdfs:Class",
-            "rdfs:comment": "Bioschemas profile, based on Biotea model, describing a PublicationIssue in Life Sciences. A PublicationIssue is a collection of publication scholarly articles published as a collection in a publication volume or a journal.<h4>Summary of Changes</h4>    Changes since previous draft 0.2-DRAFT-2020_12_03 of the PublicationIssue profile:    <ul>  <li>added sameAs property as recommended</li>  </ul> Version: 0.3-DRAFT",
+            "rdfs:comment": "Bioschemas profile, based on Biotea model, describing a PublicationIssue in Life Sciences. A PublicationIssue is a collection of publication scholarly articles published as a collection in a publication volume or a journal. Version 0.3-DRAFT.<h3>Summary of Changes</h3>    Changes since previous draft 0.2-DRAFT-2020_12_03 of the PublicationIssue profile:    <ul>  <li>added sameAs property as recommended</li>  </ul>",
             "schema:schemaVersion": [
                 "https://bioschemas.org/profiles/PublicationIssue/0.3-DRAFT"
             ],