From ab788613300c36da80e7d37f946d699b19d562dd Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Fri, 23 Aug 2024 15:48:26 +0100 Subject: [PATCH] JAL-4449 signed off and also updated Ensembl REST API version after fixing the EnsemblGene BRAF query test: JAL-3018 --- src/jalview/ext/ensembl/EnsemblRestClient.java | 4 ++-- test/jalview/ext/ensembl/EnsemblGeneTest.java | 5 ++++- 2 files changed, 6 insertions(+), 3 deletions(-) diff --git a/src/jalview/ext/ensembl/EnsemblRestClient.java b/src/jalview/ext/ensembl/EnsemblRestClient.java index 3cc778a..9521305 100644 --- a/src/jalview/ext/ensembl/EnsemblRestClient.java +++ b/src/jalview/ext/ensembl/EnsemblRestClient.java @@ -70,9 +70,9 @@ abstract class EnsemblRestClient extends EnsemblSequenceFetcher * @see https://github.com/Ensembl/ensembl-rest/wiki/Change-log * @see http://rest.ensembl.org/info/rest?content-type=application/json */ - private static final String LATEST_ENSEMBLGENOMES_REST_VERSION = "15.2"; + private static final String LATEST_ENSEMBLGENOMES_REST_VERSION = "15.8"; - private static final String LATEST_ENSEMBL_REST_VERSION = "15.2"; + private static final String LATEST_ENSEMBL_REST_VERSION = "15.8"; private static final String REST_CHANGE_LOG = "https://github.com/Ensembl/ensembl-rest/wiki/Change-log"; diff --git a/test/jalview/ext/ensembl/EnsemblGeneTest.java b/test/jalview/ext/ensembl/EnsemblGeneTest.java index 4a6036f..4923c8f 100644 --- a/test/jalview/ext/ensembl/EnsemblGeneTest.java +++ b/test/jalview/ext/ensembl/EnsemblGeneTest.java @@ -326,7 +326,10 @@ public class EnsemblGeneTest assertTrue(geneIds.contains("ENSRNOG00000010957")); // rat assertTrue(geneIds.contains("ENSXETG00000004845")); // xenopus assertTrue(geneIds.contains("ENSDARG00000017661")); // zebrafish - assertTrue(geneIds.contains("ENSGALG00000012865")); // chicken + // was ENSGALG00000012865 - which is still the canonical uniprot BRAF cross + // reference via GRCg6a + assertTrue(geneIds.contains("ENSGALG00010013466")); // chicken BRAF + // bGalGal1.mat.broiler.GRCg7b assertEquals(8, geneIds.size()); } -- 1.7.10.2