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added EBI mapping

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Sandro La Bruzzo 2022-11-08 15:58:21 +01:00
parent f05888e637
commit b007a67a3c
2 changed files with 21 additions and 14 deletions
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12
docs/data-provision/aggregation/datacite.md
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@ -69,23 +69,11 @@ The table below describes the mapping from the XML baseline records to the OpenA
### Relation Mapping
<<<<<<< HEAD
| OpenAIRE Relation Semantic and inverse | Datacite record JSON path | Source/Tartget type | #Notes |
|-------------------------------------------|-------------------------------|-------------------------------|---------|
| `isProducedBy` |`attributes\fundingReferences` | `Result/Project`| we must identifi if match this pattern `(info:eu-repo/grantagreement/ec/h2020/)(\d{6})(.*)`|
| `IsProvidedBy` | | `Result/DataSource` | Datasource is always Datacite|
| `IsHostedBy` | `\attributes\relationships\client\id` | `Result/DataSource` |we defined a curated map clientId/Datasource if we found a match we create an _hostedBy Relation_ |
| | `\attribute\relatedIdentifiers` | result/result | we create relationships whenever the pid of the target is resolved on the Research Graph |
=======
| OpenAIRE Relation Semantic and inverse | Datacite record JSON path | Source/Tartget type | #Notes |
|----------------------------------------|---------------------------------------|----------------------|---------------------------------------------------------------------------------------------------|
| `isProducedBy` | `attributes\fundingReferences` | `Result/Project` | we must identifi if match this pattern `(info:eu-repo/grantagreement/ec/h2020/)(\d{6})(.*)` |
| `IsProvidedBy` | | `Result/DataSource` | Datasource is always Datacite |
| `IsHostedBy` | `\attributes\relationships\client\id` | `Result/DataSource` | we defined a curated map clientId/Datasource if we found a match we create an _hostedBy Relation_ |
### Relation Resolution
>>>>>>> 92baad5acb3ecfb774510b48fee6aeeba92738df

21
docs/data-provision/aggregation/ebi.md
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@ -402,7 +402,26 @@ curl -s "https://www.ebi.ac.uk/europepmc/webservices/rest/MED/33024307/datalinks
## Mapping
The table below describes the mapping from the EBI links records to the OpenAIRE Graph dump format.
We filter all the target links with pid type **ena**, **pdb** or **uniprot**
For each target we construct a Bioentity with the following mapping
| *OpenAIRE Result field path* | PubMed record field xpath | Notes |
| *OpenAIRE Result field path* | EBI record field xpath | Notes |
|--------------------------------|--------------------------------|---------------------------------------------------------------------------------------------------------------------------------------------------------------|
| `id` | `target/identifier/ID` and `target/identifier/IDScheme` | id in the form `SCHEMA_________::md5(pid)`|
| `pid` | `target/identifier/ID` and `target/identifier/IDScheme` | `classid = classname = schema`|
| `publicationdate` | `target/PublicationDate` | clean and normalize the format of the date to be `YYYY-mm-dd` |
| `maintitle` | `target/Title` | |
| **Instance Mapping** | | |
| `instance.type` | | `Bioentity` |
|`type` | | `Dataset` |
| `instance.pid` |`target/identifier/ID` and `target/identifier/IDScheme` | `classid = classname = schema` |
| `instance.url` | `target/identifier/IDURL` | Copy the value as it is |
|
| `instance.publicationdate` | `//PubmedPubDate` | clean and normalize the format of the date to be YYYY-mm-dd
### Relation Mapping
| OpenAIRE Relation Semantic and inverse | Datacite record JSON path | Source/Tartget type | #Notes |
|-------------------------------------------|-------------------------------|-------------------------------|---------|
| `IsRelatedTo` | | result/result | we create relationships between the BioEntity and the pubmed publication |