database updates

misc-scripts/xref_mapping/xref_config.ini

@@ -491,7 +491,7 @@ priority        = 1
 prio_descr      =
 parser          = CCDSParser
 release_uri     =
-data_uri        = script:host=>ens-livemirror,dbname=>ccds_human,tran_name=>ENST,
+data_uri        = script:host=>ens-livemirror,dbname=>ccds_human_GRCh37_take2,tran_name=>ENST,
 
 [source CCDS::mus_musculus]
 # Used by mus_musculus
@@ -990,8 +990,23 @@ prio_descr      = main
 parser          = GOParser
 release_uri     =
 data_uri        = ftp://ftp.geneontology.org/pub/go/gene-associations/gene_association.zfin.gz
+<<<<<<< xref_config.ini
 data_uri        = http://archive.geneontology.org/latest-termdb/go_daily-termdb.obo-xml.gz
 
+[source GOSlim::MULTI]
+# Used by all 
+name            = GOSlim
+download        = Y
+order           = 120
+priority        = 1
+prio_descr      = main
+parser          = GOSlimParser
+release_uri     =
+data_uri        = script:host=>ens-staging,dbname=>ensembl_ontology_56,
+=======
+data_uri        = http://archive.geneontology.org/latest-termdb/go_daily-termdb.obo-xml.gz
+>>>>>>> 1.83
+
 [source GO::homo_sapiens]
 # Used by homo_sapiens
 name            = GO
@@ -1107,7 +1122,9 @@ priority        = 1
 prio_descr      = havana
 parser          = HGNC_ENSTParser
 release_uri     =
-data_uri        = script:host=>ens-staging,port=>3306,dbname=>homo_sapiens_vega_55_37,
+data_uri        = script:host=>ensdb-1-11,port=>5317,dbname=>vega_homo_sapiens_ext_20090710_v55_GRCh37
+
+,
 
 
 
@@ -2305,7 +2322,8 @@ priority        = 1
 prio_descr      =
 parser          = HGNC_curated_transcriptParser
 release_uri     = 
-data_uri        = script:host=>ens-staging,port=>3306,dbname=>homo_sapiens_vega_55_37,
+data_uri        = script:host=>ensdb-1-11,port=>5317,dbname=>vega_homo_sapiens_ext_20090710_v55_GRCh37
+,
 
 [source HGNC_automatic_transcript::homo_sapiens]
 name            = HGNC_automatic_transcript
@@ -3174,6 +3192,7 @@ source          = Uniprot/SWISSPROT::MULTI
 source          = ncRNA::MULTI
 #source          = UCSC::homo_sapiens            ADD WHEN STABLE ID'S ADDED FOR NEW ASEMBLY
 source          = HGNC_curated_transcript::homo_sapiens
+source          = GOSlim::MULTI
 
 [species ixodes_scapularis]
 taxonomy_id     = 6945