add support for Plazi treatments linking via wikidata; globalbioticin…

…teractions/nomer#23
globalbioticinteractions · Sep 25, 2020 · ce2379e · ce2379e
1 parent ee8aee9
commit ce2379e
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Showing 4 changed files with 5 additions and 1 deletion.
diff --git a/eol-globi-lib/src/main/java/org/eol/globi/domain/TaxonomyProvider.java b/eol-globi-lib/src/main/java/org/eol/globi/domain/TaxonomyProvider.java
@@ -29,7 +29,7 @@ public enum TaxonomyProvider {
     BATPLANT("batbase:taxon:"),
     OPEN_BIODIV("http://openbiodiv.net/"),
     MSW("MSW:", "http://www.departments.bucknell.edu/biology/resources/msw3/browse.asp?s=y&id="),
-    GULFBASE("BioGoMx:");
+    GULFBASE("BioGoMx:"), PLAZI("PLAZI:", "http://treatment.plazi.org/id/");
 
     private final List<String> idPrefixes;
 

diff --git a/eol-globi-lib/src/main/java/org/eol/globi/service/WikidataUtil.java b/eol-globi-lib/src/main/java/org/eol/globi/service/WikidataUtil.java
@@ -40,6 +40,7 @@ public final class WikidataUtil {
         put(TaxonomyProvider.INATURALIST_TAXON, "P3151");
         put(TaxonomyProvider.NBN, "P3240");
         put(TaxonomyProvider.MSW, "P959");
+        put(TaxonomyProvider.PLAZI, "P1992");
     }};
     public static final Map<String, TaxonomyProvider> WIKIDATA_TO_PROVIDER = new TreeMap<String, TaxonomyProvider>() {{
         put("P815", TaxonomyProvider.ITIS);
@@ -53,6 +54,7 @@ public final class WikidataUtil {
         put("P3151", TaxonomyProvider.INATURALIST_TAXON);
         put("P3240", TaxonomyProvider.NBN);
         put("P959", TaxonomyProvider.MSW);
+        put("P1992", TaxonomyProvider.PLAZI);
     }};
 
     public static String executeQuery(String sparql) throws URISyntaxException, IOException {

diff --git a/eol-globi-lib/src/main/java/org/eol/globi/util/ExternalIdUtil.java b/eol-globi-lib/src/main/java/org/eol/globi/util/ExternalIdUtil.java
@@ -52,6 +52,7 @@ public class ExternalIdUtil {
         put(TaxonomyProvider.WIKIDATA.getIdPrefix(), "https://www.wikidata.org/wiki/");
         put(TaxonomyProvider.GEONAMES.getIdPrefix(), "http://www.geonames.org/");
         put(TaxonomyProvider.MSW.getIdPrefix(), "http://www.departments.bucknell.edu/biology/resources/msw3/browse.asp?s=y&id=");
+        put(TaxonomyProvider.PLAZI.getIdPrefix(), "http://treatment.plazi.org/id/");
     }};
 
     private static final Map<String, String> URL_TO_PREFIX_MAP = new HashMap<String, String>() {{

diff --git a/eol-globi-lib/src/test/java/org/eol/globi/util/ExternalIdUtilTest.java b/eol-globi-lib/src/test/java/org/eol/globi/util/ExternalIdUtilTest.java
@@ -38,6 +38,7 @@ public void mapping() {
         assertThat(ExternalIdUtil.urlForExternalId("ALATaxon:NZOR-4-77345"), is("https://bie.ala.org.au/species/NZOR-4-77345"));
         assertThat(ExternalIdUtil.urlForExternalId("BioGoMx:Spp-23-0494"), is("http://gulfbase.org/biogomx/biospecies.php?species=Spp-23-0494"));
         assertThat(ExternalIdUtil.urlForExternalId("EOL_V2:1234"), is("https://doi.org/10.5281/zenodo.1495266#1234"));
+        assertThat(ExternalIdUtil.urlForExternalId("PLAZI:99915444-EC70-3196-7F2D-637F418F0730"), is("http://treatment.plazi.org/id/99915444-EC70-3196-7F2D-637F418F0730"));
     }
 
     @Test