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[Feature] External Identifier/References

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Co-authored-by: Tim Lorsbach <tim@lorsba.ch>
Reviewed-on: enviPath/enviPy#139
This commit is contained in:
jebus
2025-10-02 00:40:00 +13:00
parent 3f5bb76633
commit 7ad4112343
19 changed files with 9257 additions and 19 deletions
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47
epdb/models.py
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@ -277,6 +277,53 @@ class ExternalDatabase(TimeStampedModel):
return self.url_pattern.format(id=identifier_value)
return None
@staticmethod
def get_databases():
return {
'compound': [
{
'database': ExternalDatabase.objects.get(name='PubChem Compound'),
'placeholder': 'PubChem Compound ID e.g. 12345',
}, {
'database': ExternalDatabase.objects.get(name='PubChem Substance'),
'placeholder': 'PubChem Substance ID e.g. 12345',
}, {
'database': ExternalDatabase.objects.get(name='KEGG Reaction'),
'placeholder': 'KEGG ID including entity Prefix e.g. C12345',
}, {
'database': ExternalDatabase.objects.get(name='ChEBI'),
'placeholder': 'ChEBI ID without prefix e.g. 12345',
},
],
'structure': [
{
'database': ExternalDatabase.objects.get(name='PubChem Compound'),
'placeholder': 'PubChem Compound ID e.g. 12345',
}, {
'database': ExternalDatabase.objects.get(name='PubChem Substance'),
'placeholder': 'PubChem Substance ID e.g. 12345',
}, {
'database': ExternalDatabase.objects.get(name='KEGG Reaction'),
'placeholder': 'KEGG ID including entity Prefix e.g. C12345',
}, {
'database': ExternalDatabase.objects.get(name='ChEBI'),
'placeholder': 'ChEBI ID without prefix e.g. 12345',
},
],
'reaction': [
{
'database': ExternalDatabase.objects.get(name='KEGG Reaction'),
'placeholder': 'KEGG ID including entity Prefix e.g. C12345',
}, {
'database': ExternalDatabase.objects.get(name='RHEA'),
'placeholder': 'RHEA ID without Prefix e.g. 12345',
}, {
'database': ExternalDatabase.objects.get(name='UniProt'),
'placeholder': 'Query ID for UniPro e.g. rhea:12345',
}
]
}
class ExternalIdentifier(TimeStampedModel):
uuid = models.UUIDField(default=uuid4, editable=False, unique=True)