From 7f2e4bd18288dadf9c553e16021513a4a2c47bc2 Mon Sep 17 00:00:00 2001 From: Guillaume Poirier-Morency Date: Fri, 20 Oct 2023 17:56:11 -0700 Subject: [PATCH] Add missing fixtures for testing mm39 --- gemma-core/src/main/resources/sql/init-entities.sql | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/gemma-core/src/main/resources/sql/init-entities.sql b/gemma-core/src/main/resources/sql/init-entities.sql index 4506d8f36a..bf37c5ba16 100644 --- a/gemma-core/src/main/resources/sql/init-entities.sql +++ b/gemma-core/src/main/resources/sql/init-entities.sql @@ -95,6 +95,7 @@ call add_external_database('hg38', NULL, '', NULL, 'SEQUENCE'); call add_external_database('mm8', NULL, '', NULL, 'SEQUENCE'); call add_external_database('mm9', NULL, '', NULL, 'SEQUENCE'); call add_external_database('mm10', NULL, '', NULL, 'SEQUENCE'); +call add_external_database('mm39', NULL, '', NULL, 'SEQUENCE'); call add_external_database('rn4', NULL, '', NULL, 'SEQUENCE'); call add_external_database('rn6', NULL, '', NULL, 'SEQUENCE'); call add_external_database('rn7', NULL, '', NULL, 'SEQUENCE'); @@ -104,13 +105,13 @@ call add_external_database('hg38 annotations', NULL, 'https://hgdownload.cse.ucs call add_external_database('mm8 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/mm8/database/', NULL, 'OTHER'); call add_external_database('mm9 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/mm9/database/', NULL, 'OTHER'); call add_external_database('mm10 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/mm10/database/', NULL, 'OTHER'); -call add_external_database('mm11 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/mm11/database/', NULL, 'OTHER'); call add_external_database('mm39 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/mm39/database/', NULL, 'OTHER'); call add_external_database('rn4 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/rn4/database/', NULL, 'OTHER'); call add_external_database('rn6 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/rn6/database/', NULL, 'OTHER'); call add_external_database('rn7 annotations', NULL, 'https://hgdownload.cse.ucsc.edu/goldenpath/rn7/database/', NULL, 'OTHER'); call add_external_database('hg38 RNA-Seq annotations', NULL, NULL, NULL, 'OTHER'); call add_external_database('mm10 RNA-Seq annotations', NULL, NULL, NULL, 'OTHER'); +call add_external_database('mm39 RNA-Seq annotations', NULL, NULL, NULL, 'OTHER'); call add_external_database('rn7 RNA-Seq annotations', NULL, NULL, NULL, 'OTHER'); call add_external_database('gene', NULL, NULL, 'https://ftp.ncbi.nih.gov/gene/DATA/gene_info.gz', 'OTHER'); call add_external_database('go', NULL, NULL, 'https://ftp.ncbi.nih.gov/gene/DATA/gene2go.gz', 'ONTOLOGY'); @@ -124,6 +125,7 @@ create procedure add_external_database_relation(in parent_name varchar(255), in call add_external_database_relation('hg38', 'hg38 annotations'); call add_external_database_relation('hg19', 'hg19 annotations'); call add_external_database_relation('hg18', 'hg18 annotations'); +call add_external_database_relation('mm39', 'mm39 annotations'); call add_external_database_relation('mm10', 'mm10 annotations'); call add_external_database_relation('mm9', 'mm9 annotations'); call add_external_database_relation('mm8', 'mm8 annotations'); @@ -132,6 +134,7 @@ call add_external_database_relation('rn6', 'rn4 annotations'); call add_external_database_relation('rn4', 'rn6 annotations'); call add_external_database_relation('hg38', 'hg38 RNA-Seq annotations'); +call add_external_database_relation('mm39', 'mm39 RNA-Seq annotations'); call add_external_database_relation('mm10', 'mm10 RNA-Seq annotations'); call add_external_database_relation('rn7', 'rn7 RNA-Seq annotations');