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Exact synonym updates - Build 1 #601

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Exact synonym updates - Build 1 #601

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3cd18b1
Exact synonym updates
joeflack4 Jul 1, 2024
6a538bd
Exact synonym updates - build
joeflack4 Jul 3, 2024
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18 changes: 9 additions & 9 deletions docs/metrics/doid.md
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@joeflack4 joeflack4 Jul 3, 2024 •
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Review

@matentzn @twhetzel I haven't reviewed this yet, but I believe all our outputs are here, and we can review this now if you like even though the build is failing, because it is failing on the prepare_release step at the very end.

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LGTM!

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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/doid.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/doid.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/doid.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 27 |
| Axioms | 116206 |
| Logical axioms | 16161 |
| Classes | 13124 |
| Axioms | 135174 |
| Logical axioms | 16200 |
| Classes | 13147 |
| Object properties | 0 |
| Data properties | 0 |
| Individuals | 0 |
Expand All @@ -32,11 +32,11 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 86894 |
| AnnotationAssertion | 105800 |
| SubAnnotationPropertyOf | 1 |
| DisjointClasses | 26 |
| Declaration | 13150 |
| SubClassOf | 16135 |
| Declaration | 13173 |
| SubClassOf | 16174 |


#### Entity namespaces: axiom counts by namespace
Expand All @@ -45,7 +45,7 @@
| ------ | ----- |
| oboInOwl | 12 |
| owl | 2 |
| DOID | 11577 |
| DOID | 11600 |
| HP | 118 |
| xsd | 1 |
| CL | 63 |
Expand All @@ -70,7 +70,7 @@

| Metric | Value |
| ------ | ----- |
| Class | 45606 |
| Class | 45707 |


More information about the source can be found [in the documentation](../sources.md). The raw data (ontology metrics) can be found [on GitHub](https://github.com/monarch-initiative/mondo-ingest/tree/main/src/ontology/metadata).
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2 changes: 1 addition & 1 deletion docs/metrics/gard.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/gard.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/gard.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/gard.owl

### Entities and axioms

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6 changes: 3 additions & 3 deletions docs/metrics/icd10cm.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/icd10cm.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/icd10cm.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/icd10cm.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 7 |
| Axioms | 302783 |
| Axioms | 398757 |
| Logical axioms | 95846 |
| Classes | 95848 |
| Object properties | 0 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 111084 |
| AnnotationAssertion | 207058 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 95852 |
| SubClassOf | 95846 |
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6 changes: 3 additions & 3 deletions docs/metrics/icd10who.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/icd10who.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/icd10who.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/icd10who.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 8 |
| Axioms | 50466 |
| Axioms | 63008 |
| Logical axioms | 12542 |
| Classes | 12543 |
| Object properties | 0 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 25377 |
| AnnotationAssertion | 37919 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 12546 |
| SubClassOf | 12542 |
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6 changes: 3 additions & 3 deletions docs/metrics/icd11foundation.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/icd11foundation.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/icd11foundation.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/icd11foundation.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 12 |
| Axioms | 329926 |
| Axioms | 430290 |
| Logical axioms | 65410 |
| Classes | 70045 |
| Object properties | 0 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 194459 |
| AnnotationAssertion | 294823 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 70056 |
| SubClassOf | 65410 |
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6 changes: 3 additions & 3 deletions docs/metrics/ncit.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/ncit.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/ncit.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/ncit.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 12 |
| Axioms | 623834 |
| Axioms | 623940 |
| Logical axioms | 33655 |
| Classes | 15971 |
| Object properties | 0 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 574177 |
| AnnotationAssertion | 574283 |
| EquivalentClasses | 6260 |
| DatatypeDefinition | 19 |
| AnnotationPropertyRangeOf | 1 |
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22 changes: 11 additions & 11 deletions docs/metrics/omim.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/omim.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/omim.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/omim.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 18 |
| Axioms | 346174 |
| Logical axioms | 22747 |
| Classes | 19514 |
| Axioms | 346898 |
| Logical axioms | 22738 |
| Classes | 19512 |
| Object properties | 7 |
| Data properties | 0 |
| Individuals | 0 |
Expand All @@ -32,23 +32,23 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 303891 |
| AnnotationAssertion | 304626 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 19535 |
| SubClassOf | 22747 |
| Declaration | 19533 |
| SubClassOf | 22738 |


#### Entity namespaces: axiom counts by namespace

| Metric | Value |
| ------ | ----- |
| prefix_unknown | 18068 |
| prefix_unknown | 18069 |
| oboInOwl | 4 |
| owl | 2 |
| xsd | 1 |
| skos | 1 |
| rdfs | 2 |
| CHR | 1449 |
| CHR | 1446 |
| MONDO | 1 |
| rdf | 1 |
| IAO | 2 |
Expand All @@ -61,8 +61,8 @@

| Metric | Value |
| ------ | ----- |
| Class | 64998 |
| ObjectSomeValuesFrom | 17818 |
| Class | 64978 |
| ObjectSomeValuesFrom | 17808 |


More information about the source can be found [in the documentation](../sources.md). The raw data (ontology metrics) can be found [on GitHub](https://github.com/monarch-initiative/mondo-ingest/tree/main/src/ontology/metadata).
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6 changes: 3 additions & 3 deletions docs/metrics/ordo.md
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**IRI:** http://purl.obolibrary.org/obo/mondo/sources/ordo.owl

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-06-22/ordo.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-07-02/ordo.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 16 |
| Axioms | 206309 |
| Axioms | 221716 |
| Logical axioms | 42481 |
| Classes | 14917 |
| Object properties | 4 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 148893 |
| AnnotationAssertion | 164300 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 14934 |
| SubClassOf | 42481 |
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2 changes: 1 addition & 1 deletion docs/reports/mapped_deprecated.md
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# Mapped deprecated terms
| Ontology | Tot deprecated in Mondo |
|:----------------------------------------------------------|--------------------------:|
| [DOID](./mapped_deprecated_doid.md) | 5 |
| [DOID](./mapped_deprecated_doid.md) | 6 |
| [OMIM](./mapped_deprecated_omim.md) | 46 |
| [ORDO](./mapped_deprecated_ordo.md) | 226 |
| [NCIT](./mapped_deprecated_ncit.md) | 22 |
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1 change: 1 addition & 0 deletions docs/reports/mapped_deprecated_doid.md
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|:--------------|:---------------------|:-------------------------|
| ID | A oboInOwl:hasDbXref | >A oboInOwl:source |
| MONDO:0001639 | DOID:13121 | MONDO:equivalentObsolete |
| MONDO:0006886 | DOID:3968 | MONDO:equivalentObsolete |
| MONDO:0008024 | DOID:0111201 | MONDO:equivalentObsolete |
| MONDO:0008025 | DOID:0111208 | MONDO:equivalentObsolete |
| MONDO:0013127 | DOID:0050549 | MONDO:equivalentObsolete |
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6 changes: 3 additions & 3 deletions docs/reports/migrate.md
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| Ontology | Tot |
|:------------------------------------------------|:-------|
| [GARD](./migrate_gard.md) | 9,370 |
| [DOID](./migrate_doid.md) | 34 |
| [DOID](./migrate_doid.md) | 33 |
| [NCIT](./migrate_ncit.md) | 2,209 |
| [OMIM](./migrate_omim.md) | 2 |
| [ICD11FOUNDATION](./migrate_icd11foundation.md) | 12,409 |
| [ICD10WHO](./migrate_icd10who.md) | 119 |
| [ICD10CM](./migrate_icd10cm.md) | 1,889 |
| [OMIM](./migrate_omim.md) | 0 |
| [ICD10CM](./migrate_icd10cm.md) | 1,892 |
| [ORDO](./migrate_ordo.md) | 0 |

### Codebook
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