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DO NOT MERGE: ODK upgrade && odkrunner - build #731

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DO NOT MERGE: ODK upgrade && odkrunner - build #731

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

**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-11-27/doid.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/doid.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 28 |
| Axioms | 134099 |
| Axioms | 134097 |
| Logical axioms | 16396 |
| Classes | 13274 |
| Object properties | 0 |
Expand All @@ -32,7 +32,7 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 104400 |
| AnnotationAssertion | 104398 |
| SubAnnotationPropertyOf | 2 |
| DisjointClasses | 26 |
| Declaration | 13301 |
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2 changes: 1 addition & 1 deletion 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/2024-11-27/icd10cm.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/icd10cm.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion 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/2024-11-27/icd10who.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/icd10who.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion 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/2024-11-27/icd11foundation.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/icd11foundation.owl

### Entities and axioms

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2 changes: 1 addition & 1 deletion 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/2024-11-27/ncit.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/ncit.owl

### Entities and axioms

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24 changes: 12 additions & 12 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/2024-11-27/omim.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/omim.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 21 |
| Axioms | 358797 |
| Logical axioms | 28211 |
| Classes | 23596 |
| Annotation properties | 23 |
| Axioms | 373212 |
| Logical axioms | 28241 |
| Classes | 23606 |
| Object properties | 7 |
| Data properties | 0 |
| Individuals | 0 |
Expand All @@ -32,18 +32,18 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 306964 |
| AnnotationAssertion | 321337 |
| SubAnnotationPropertyOf | 2 |
| Declaration | 23620 |
| SubClassOf | 28211 |
| Declaration | 23632 |
| SubClassOf | 28241 |


#### Entity namespaces: axiom counts by namespace

| Metric | Value |
| ------ | ----- |
| prefix_unknown | 22158 |
| oboInOwl | 4 |
| prefix_unknown | 22168 |
| oboInOwl | 6 |
| owl | 2 |
| xsd | 1 |
| skos | 1 |
Expand All @@ -62,8 +62,8 @@

| Metric | Value |
| ------ | ----- |
| Class | 80013 |
| ObjectSomeValuesFrom | 23248 |
| Class | 80083 |
| ObjectSomeValuesFrom | 23259 |


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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20 changes: 10 additions & 10 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/2024-11-27/ordo.owl
**Version IRI:** http://purl.obolibrary.org/obo/mondo/sources/2024-12-19/ordo.owl

### Entities and axioms

| Metric | Value |
| ------ | ----- |
| Annotation properties | 16 |
| Axioms | 227556 |
| Logical axioms | 42867 |
| Classes | 15089 |
| Axioms | 228273 |
| Logical axioms | 43059 |
| Classes | 15157 |
| Object properties | 4 |
| Data properties | 0 |
| Individuals | 0 |
Expand All @@ -32,18 +32,18 @@

| Metric | Value |
| ------ | ----- |
| AnnotationAssertion | 169582 |
| AnnotationAssertion | 170039 |
| SubAnnotationPropertyOf | 1 |
| Declaration | 15106 |
| SubClassOf | 42867 |
| Declaration | 15174 |
| SubClassOf | 43059 |


#### Entity namespaces: axiom counts by namespace

| Metric | Value |
| ------ | ----- |
| dc11 | 1 |
| prefix_unknown | 15089 |
| prefix_unknown | 15157 |
| oboInOwl | 6 |
| owl | 2 |
| rdf | 1 |
Expand All @@ -60,8 +60,8 @@

| Metric | Value |
| ------ | ----- |
| Class | 100823 |
| ObjectSomeValuesFrom | 6771 |
| Class | 101275 |
| ObjectSomeValuesFrom | 6799 |


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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4 changes: 2 additions & 2 deletions docs/reports/mapped_deprecated.md
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| Ontology | Tot deprecated in Mondo |
|:----------------------------------------------------------|--------------------------:|
| [NCIT](./mapped_deprecated_ncit.md) | 5 |
| [OMIM](./mapped_deprecated_omim.md) | 47 |
| [OMIM](./mapped_deprecated_omim.md) | 48 |
| [DOID](./mapped_deprecated_doid.md) | 2 |
| [ORDO](./mapped_deprecated_ordo.md) | 169 |
| [ORDO](./mapped_deprecated_ordo.md) | 190 |
| [ICD11FOUNDATION](./mapped_deprecated_icd11foundation.md) | 0 |
| [ICD10CM](./mapped_deprecated_icd10cm.md) | 0 |
| [ICD10WHO](./mapped_deprecated_icd10who.md) | 0 |
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1 change: 1 addition & 0 deletions docs/reports/mapped_deprecated_omim.md
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| MONDO:0008126 | OMIM:164891 | MONDO:equivalentObsolete |
| MONDO:0008204 | OMIM:168850 | MONDO:equivalentObsolete |
| MONDO:0008415 | OMIM:181515 | MONDO:equivalentObsolete |
| MONDO:0008868 | OMIM:210550 | MONDO:equivalentObsolete |
| MONDO:0009455 | OMIM:242870 | MONDO:equivalentObsolete |
| MONDO:0009535 | OMIM:247440 | MONDO:equivalentObsolete |
| MONDO:0009654 | OMIM:252700 | MONDO:equivalentObsolete |
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21 changes: 21 additions & 0 deletions docs/reports/mapped_deprecated_ordo.md
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Expand Up @@ -7,18 +7,26 @@
| ID | A oboInOwl:hasDbXref | >A oboInOwl:source |
| MONDO:0001153 | Orphanet:459690 | MONDO:equivalentObsolete |
| MONDO:0001807 | Orphanet:79211 | MONDO:equivalentObsolete |
| MONDO:0001971 | Orphanet:99906 | MONDO:equivalentObsolete |
| MONDO:0005668 | Orphanet:99908 | MONDO:equivalentObsolete |
| MONDO:0007744 | Orphanet:79506 | MONDO:equivalentObsolete |
| MONDO:0007761 | Orphanet:413 | MONDO:equivalentObsolete |
| MONDO:0007779 | Orphanet:306588 | MONDO:equivalentObsolete |
| MONDO:0008401 | Orphanet:454821 | MONDO:equivalentObsolete |
| MONDO:0009317 | Orphanet:1245 | MONDO:equivalentObsolete |
| MONDO:0009971 | Orphanet:70587 | MONDO:equivalentObsolete |
| MONDO:0010045 | Orphanet:2823 | MONDO:equivalentObsolete |
| MONDO:0010994 | Orphanet:2641 | MONDO:equivalentObsolete |
| MONDO:0011054 | Orphanet:1027 | MONDO:equivalentObsolete |
| MONDO:0011910 | Orphanet:265 | MONDO:equivalentObsolete |
| MONDO:0012839 | Orphanet:183713 | MONDO:equivalentObsolete |
| MONDO:0015120 | Orphanet:101949 | MONDO:equivalentObsolete |
| MONDO:0015163 | Orphanet:102373 | MONDO:equivalentObsolete |
| MONDO:0015172 | Orphanet:103912 | MONDO:equivalentObsolete |
| MONDO:0015173 | Orphanet:103916 | MONDO:equivalentObsolete |
| MONDO:0015217 | Orphanet:108985 | MONDO:equivalentObsolete |
| MONDO:0015218 | Orphanet:108987 | MONDO:equivalentObsolete |
| MONDO:0015238 | Orphanet:1135 | MONDO:equivalentObsolete |
| MONDO:0015255 | Orphanet:1256 | MONDO:equivalentObsolete |
| MONDO:0015297 | Orphanet:137653 | MONDO:equivalentObsolete |
| MONDO:0015343 | Orphanet:139420 | MONDO:equivalentObsolete |
Expand All @@ -29,13 +37,17 @@
| MONDO:0015593 | Orphanet:163914 | MONDO:equivalentObsolete |
| MONDO:0015594 | Orphanet:163918 | MONDO:equivalentObsolete |
| MONDO:0015602 | Orphanet:163988 | MONDO:equivalentObsolete |
| MONDO:0015637 | Orphanet:166295 | MONDO:equivalentObsolete |
| MONDO:0015638 | Orphanet:166299 | MONDO:equivalentObsolete |
| MONDO:0015639 | Orphanet:166302 | MONDO:equivalentObsolete |
| MONDO:0015902 | Orphanet:181425 | MONDO:equivalentObsolete |
| MONDO:0015919 | Orphanet:182073 | MONDO:equivalentObsolete |
| MONDO:0015920 | Orphanet:182076 | MONDO:equivalentObsolete |
| MONDO:0015937 | Orphanet:182214 | MONDO:equivalentObsolete |
| MONDO:0015964 | Orphanet:183598 | MONDO:equivalentObsolete |
| MONDO:0015965 | Orphanet:183601 | MONDO:equivalentObsolete |
| MONDO:0015985 | Orphanet:1844 | MONDO:equivalentObsolete |
| MONDO:0016022 | Orphanet:1935 | MONDO:equivalentObsolete |
| MONDO:0016082 | Orphanet:2042 | MONDO:equivalentObsolete |
| MONDO:0016111 | Orphanet:206659 | MONDO:equivalentObsolete |
| MONDO:0016124 | Orphanet:206985 | MONDO:equivalentObsolete |
Expand All @@ -47,6 +59,7 @@
| MONDO:0016997 | Orphanet:263676 | MONDO:equivalentObsolete |
| MONDO:0017036 | Orphanet:264955 | MONDO:equivalentObsolete |
| MONDO:0017083 | Orphanet:268832 | MONDO:equivalentObsolete |
| MONDO:0017199 | Orphanet:2787 | MONDO:equivalentObsolete |
| MONDO:0017240 | Orphanet:280651 | MONDO:equivalentObsolete |
| MONDO:0017336 | Orphanet:289527 | MONDO:equivalentObsolete |
| MONDO:0017378 | Orphanet:2925 | MONDO:equivalentObsolete |
Expand All @@ -73,13 +86,17 @@
| MONDO:0018110 | Orphanet:35064 | MONDO:equivalentObsolete |
| MONDO:0018113 | Orphanet:35098 | MONDO:equivalentObsolete |
| MONDO:0018138 | Orphanet:352740 | MONDO:equivalentObsolete |
| MONDO:0018212 | Orphanet:36382 | MONDO:equivalentObsolete |
| MONDO:0018239 | Orphanet:364817 | MONDO:equivalentObsolete |
| MONDO:0018285 | Orphanet:371054 | MONDO:equivalentObsolete |
| MONDO:0018286 | Orphanet:371064 | MONDO:equivalentObsolete |
| MONDO:0018574 | Orphanet:436151 | MONDO:equivalentObsolete |
| MONDO:0018627 | Orphanet:443287 | MONDO:equivalentObsolete |
| MONDO:0018665 | Orphanet:448348 | MONDO:equivalentObsolete |
| MONDO:0018718 | Orphanet:458827 | MONDO:equivalentObsolete |
| MONDO:0018722 | Orphanet:458841 | MONDO:equivalentObsolete |
| MONDO:0018932 | Orphanet:57777 | MONDO:equivalentObsolete |
| MONDO:0018981 | Orphanet:64545 | MONDO:equivalentObsolete |
| MONDO:0019116 | Orphanet:717 | MONDO:equivalentObsolete |
| MONDO:0019348 | Orphanet:82004 | MONDO:equivalentObsolete |
| MONDO:0019389 | Orphanet:83648 | MONDO:equivalentObsolete |
Expand Down Expand Up @@ -165,12 +182,16 @@
| MONDO:0020282 | Orphanet:98714 | MONDO:equivalentObsolete |
| MONDO:0020489 | Orphanet:99763 | MONDO:equivalentObsolete |
| MONDO:0020524 | Orphanet:99878 | MONDO:equivalentObsolete |
| MONDO:0020535 | Orphanet:99907 | MONDO:equivalentObsolete |
| MONDO:0020537 | Orphanet:99909 | MONDO:equivalentObsolete |
| MONDO:0020742 | Orphanet:1317 | MONDO:equivalentObsolete |
| MONDO:0020871 | Orphanet:623 | MONDO:equivalentObsolete |
| MONDO:0021062 | Orphanet:306539 | MONDO:equivalentObsolete |
| MONDO:0022414 | Orphanet:1526 | MONDO:equivalentObsolete |
| MONDO:0022921 | Orphanet:2861 | MONDO:equivalentObsolete |
| MONDO:0023072 | Orphanet:1939 | MONDO:equivalentObsolete |
| MONDO:0033672 | Orphanet:50817 | MONDO:equivalentObsolete |
| MONDO:0043007 | Orphanet:330197 | MONDO:equivalentObsolete |
| MONDO:0044683 | Orphanet:498700 | MONDO:equivalentObsolete |
| MONDO:0044740 | Orphanet:500481 | MONDO:equivalentObsolete |
| MONDO:0100343 | Orphanet:93604 | MONDO:equivalentObsolete |
4 changes: 2 additions & 2 deletions docs/reports/migrate.md
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| Ontology | Tot |
|:------------------------------------------------|:------|
| [DOID](./migrate_doid.md) | 73 |
| [ORDO](./migrate_ordo.md) | 62 |
| [OMIM](./migrate_omim.md) | 44 |
| [ICD11FOUNDATION](./migrate_icd11foundation.md) | 4,593 |
| [OMIM](./migrate_omim.md) | 39 |
| [NCIT](./migrate_ncit.md) | 2,211 |
| [ORDO](./migrate_ordo.md) | 13 |
| [ICD10WHO](./migrate_icd10who.md) | 119 |
| [ICD10CM](./migrate_icd10cm.md) | 1,894 |

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