Commit c9e19853 authored by Piotr Gawron's avatar Piotr Gawron
Browse files

additional miriam types handled

parent 2c9b9a53
Pipeline #31294 passed with stage
in 12 minutes and 50 seconds
minerva (15.1.0~beta.1) unstable; urgency=medium
* Small improvement: "Human Disease Ontology", "IUPHAR ligand" and "Protein
Modification Ontology" annotation types are handled (#1359)
* Bug fix: SBML import - label aligned to top of species was inproperly drawn
(#1354)
* Bug fix: SBML text labels that were referencing layout aliases using
......
......@@ -490,6 +490,19 @@ public enum MiriamType {
"hmdb",
"HMDB00001"),
HUMAN_DISEASE_ONTOLOGY("Human Disease Ontology",
" https://www.ebi.ac.uk/ols/ontologies/doid",
new String[] { "urn:miriam:obo.do",
"http://identifiers.org/doid/",
"http://identifiers.org/DOID",
"https://identifiers.org/doid/",
"https://identifiers.org/DOID",
},
new Class<?>[] { }, "MIR:00000233",
new Class<?>[] {},
"",
"DOID:11337"),
INTACT("IntAct",
"https://www.ebi.ac.uk/intact/",
new String[] { "urn:miriam:intact",
......@@ -519,6 +532,19 @@ public enum MiriamType {
"interpro",
"IPR000100"),
IUPHAR_LIGAND("IUPHAR ligand",
"https://www.guidetopharmacology.org/GRAC/LigandListForward?database=all",
new String[] { "urn:miriam:iuphar.ligand",
"http://identifiers.org/iuphar.ligand/",
"http://identifiers.org/iuphar.ligand",
"https://identifiers.org/iuphar.ligand/",
"https://identifiers.org/iuphar.ligand",
},
new Class<?>[] { }, "MIR:00000457",
new Class<?>[] {},
"iuphar.ligand",
"1755"),
/**
* KEGG Compound: http://www.genome.jp/kegg/ligand.html.
*/
......@@ -745,6 +771,19 @@ public enum MiriamType {
"",
"MGI:2442292"),
MOD("Protein Modification Ontology",
"https://bioportal.bioontology.org/ontologies/PSIMOD",
new String[] { "urn:miriam:obo.psi-mod",
"http://identifiers.org/mod/",
"http://identifiers.org/MOD",
"https://identifiers.org/mod/",
"https://identifiers.org/MOD",
},
new Class<?>[] { }, "MIR:00000056",
new Class<?>[] {},
"",
"MOD:00001"),
NCBI_PROTEIN("NCBI Protein",
"https://www.ncbi.nlm.nih.gov/protein",
new String[] { "urn:miriam:ncbiprotein",
......
......@@ -152,5 +152,4 @@ public class MiriamTypeTest extends ModelTestFunctions {
MiriamData md = MiriamType.getMiriamByUri("https://identifiers.org/SBO:0000262");
assertEquals(new MiriamData(MiriamType.SBO_TERM, "SBO:0000262"), md);
}
}
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