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ensembl-gh-mirror
ensembl
Commits
6b64a71c
Unverified
Commit
6b64a71c
authored
Jun 18, 2019
by
Marek Szuba
Committed by
GitHub
Jun 18, 2019
Browse files
Merge pull request #396 from Ensembl/e98_version_bump
Release-98 version bump
parents
1d07af8d
082c2055
Changes
41
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20 changed files
with
200 additions
and
195 deletions
+200
-195
modules/Bio/EnsEMBL/ApiVersion.pm
modules/Bio/EnsEMBL/ApiVersion.pm
+1
-1
modules/t/test-genome-DBs/circ/core/SQLite/table.sql
modules/t/test-genome-DBs/circ/core/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/circ/core/meta.txt
modules/t/test-genome-DBs/circ/core/meta.txt
+2
-1
modules/t/test-genome-DBs/circ/core/table.sql
modules/t/test-genome-DBs/circ/core/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/core/SQLite/table.sql
modules/t/test-genome-DBs/homo_sapiens/core/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/core/meta.txt
modules/t/test-genome-DBs/homo_sapiens/core/meta.txt
+2
-1
modules/t/test-genome-DBs/homo_sapiens/core/table.sql
modules/t/test-genome-DBs/homo_sapiens/core/table.sql
+174
-174
modules/t/test-genome-DBs/homo_sapiens/empty/SQLite/table.sql
...les/t/test-genome-DBs/homo_sapiens/empty/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt
modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt
+2
-1
modules/t/test-genome-DBs/homo_sapiens/empty/table.sql
modules/t/test-genome-DBs/homo_sapiens/empty/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/patch/SQLite/table.sql
...les/t/test-genome-DBs/homo_sapiens/patch/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/patch/meta.txt
modules/t/test-genome-DBs/homo_sapiens/patch/meta.txt
+2
-1
modules/t/test-genome-DBs/homo_sapiens/patch/table.sql
modules/t/test-genome-DBs/homo_sapiens/patch/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/variation/meta.txt
modules/t/test-genome-DBs/homo_sapiens/variation/meta.txt
+2
-1
modules/t/test-genome-DBs/homo_sapiens/variation/table.sql
modules/t/test-genome-DBs/homo_sapiens/variation/table.sql
+1
-1
modules/t/test-genome-DBs/homo_sapiens/xref/SQLite/table.sql
modules/t/test-genome-DBs/homo_sapiens/xref/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/mapping/core/SQLite/table.sql
modules/t/test-genome-DBs/mapping/core/SQLite/table.sql
+1
-1
modules/t/test-genome-DBs/mapping/core/meta.txt
modules/t/test-genome-DBs/mapping/core/meta.txt
+2
-1
modules/t/test-genome-DBs/mapping/core/table.sql
modules/t/test-genome-DBs/mapping/core/table.sql
+1
-1
modules/t/test-genome-DBs/multi/compara/SQLite/table.sql
modules/t/test-genome-DBs/multi/compara/SQLite/table.sql
+2
-3
No files found.
modules/Bio/EnsEMBL/ApiVersion.pm
View file @
6b64a71c
...
...
@@ -56,7 +56,7 @@ use base qw( Exporter );
our
@EXPORT
=
qw( software_version )
;
my
$API_VERSION
=
9
7
;
my
$API_VERSION
=
9
8
;
sub
software_version
{
return
$API_VERSION
}
...
...
modules/t/test-genome-DBs/circ/core/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:03:5
3 2019
-- Created on
Mon Jun 17 16:51:3
3 2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/circ/core/meta.txt
View file @
6b64a71c
...
...
@@ -39,7 +39,7 @@
95 \N patch patch_83_84_c.sql|protein_feature_unique
96 \N patch patch_83_84_d.sql|longer_synonym
1 \N schema_type core
2 \N schema_version 9
7
2 \N schema_version 9
8
8 1 assembly.accession GCA_000292705.1
10 1 assembly.date 2012-08
7 1 assembly.default GCA_000292705.1
...
...
@@ -131,3 +131,4 @@
131 \N patch patch_96_97_c.sql|rnaproduct_tables
132 \N patch patch_96_97_d.sql|add_object_type_rnaproduct
133 \N patch patch_96_97_e.sql|add_stable_id_event_type_rnaproduct
134 \N patch patch_97_98_a.sql|schema_version
modules/t/test-genome-DBs/circ/core/table.sql
View file @
6b64a71c
...
...
@@ -490,7 +490,7 @@ CREATE TABLE `meta` (
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`species_key_value_idx`
(
`species_id`
,
`meta_key`
,
`meta_value`
),
KEY
`species_value_idx`
(
`species_id`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
13
4
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
13
5
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/homo_sapiens/core/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:03:56
2019
-- Created on
Mon Jun 17 16:51:37
2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/homo_sapiens/core/meta.txt
View file @
6b64a71c
1 \N schema_version 9
7
1 \N schema_version 9
8
2 1 assembly.default NCBI34
3 1 species.taxonomy_id 9606
26 1 species.classification Homo sapiens
...
...
@@ -110,3 +110,4 @@
177 \N patch patch_96_97_c.sql|rnaproduct_tables
178 \N patch patch_96_97_d.sql|add_object_type_rnaproduct
179 \N patch patch_96_97_e.sql|add_stable_id_event_type_rnaproduct
180 \N patch patch_97_98_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/core/table.sql
View file @
6b64a71c
This diff is collapsed.
Click to expand it.
modules/t/test-genome-DBs/homo_sapiens/empty/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:03:59
2019
-- Created on
Mon Jun 17 16:51:40
2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt
View file @
6b64a71c
1 \N schema_version 9
7
1 \N schema_version 9
8
2 1 assembly.default NCBI34
33 1 species.classification Chordata
32 1 species.classification Vertebrata
...
...
@@ -110,3 +110,4 @@
159 \N patch patch_96_97_c.sql|rnaproduct_tables
160 \N patch patch_96_97_d.sql|add_object_type_rnaproduct
161 \N patch patch_96_97_e.sql|add_stable_id_event_type_rnaproduct
162 \N patch patch_97_98_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/empty/table.sql
View file @
6b64a71c
...
...
@@ -490,7 +490,7 @@ CREATE TABLE `meta` (
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`species_key_value_idx`
(
`species_id`
,
`meta_key`
,
`meta_value`
),
KEY
`species_value_idx`
(
`species_id`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
16
2
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
16
3
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/homo_sapiens/patch/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:04:02
2019
-- Created on
Mon Jun 17 16:51:43
2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/homo_sapiens/patch/meta.txt
View file @
6b64a71c
1 \N schema_version 9
7
1 \N schema_version 9
8
2014 1 species.classification Haplorrhini
40 1 assembly.default GRCh37
41 1 assembly.date 2009-02
...
...
@@ -115,3 +115,4 @@
2122 \N patch patch_96_97_c.sql|rnaproduct_tables
2123 \N patch patch_96_97_d.sql|add_object_type_rnaproduct
2124 \N patch patch_96_97_e.sql|add_stable_id_event_type_rnaproduct
2125 \N patch patch_97_98_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/patch/table.sql
View file @
6b64a71c
...
...
@@ -490,7 +490,7 @@ CREATE TABLE `meta` (
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`species_key_value_idx`
(
`species_id`
,
`meta_key`
,
`meta_value`
),
KEY
`species_value_idx`
(
`species_id`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
212
5
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
212
6
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/homo_sapiens/variation/meta.txt
View file @
6b64a71c
1 \N schema_type variation
2 \N schema_version 9
7
2 \N schema_version 9
8
3 \N patch patch_84_85_a.sql|schema version
4 \N patch patch_84_85_b.sql|create sample_synonym
5 \N patch patch_84_85_c.sql|drop column moltype from variation_synonym
...
...
@@ -42,3 +42,4 @@
42 \N patch patch_96_97_a.sql|schema version
43 \N patch patch_96_97_b.sql|move ancestral allele column to variation_feature
44 \N patch patch_96_97_c.sql|add an unique index on the name column
45 \N patch patch_97_98_a.sql|schema version
modules/t/test-genome-DBs/homo_sapiens/variation/table.sql
View file @
6b64a71c
...
...
@@ -186,7 +186,7 @@ CREATE TABLE `meta` (
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`species_key_value_idx`
(
`species_id`
,
`meta_key`
,
`meta_value`
),
KEY
`species_value_idx`
(
`species_id`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
4
5
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
4
6
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
NOT
NULL
,
...
...
modules/t/test-genome-DBs/homo_sapiens/xref/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:04:03
2019
-- Created on
Mon Jun 17 16:51:44
2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/mapping/core/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:04:05
2019
-- Created on
Mon Jun 17 16:51:47
2019
--
BEGIN
TRANSACTION
;
...
...
modules/t/test-genome-DBs/mapping/core/meta.txt
View file @
6b64a71c
1 \N schema_version 9
7
1 \N schema_version 9
8
2 1 assembly.default MULTIMAP
3 1 species.taxonomy_id 1
4 1 assembly.mapping chromosome:MULTIMAP#contig
...
...
@@ -71,3 +71,4 @@
164 \N patch patch_96_97_c.sql|rnaproduct_tables
165 \N patch patch_96_97_d.sql|add_object_type_rnaproduct
166 \N patch patch_96_97_e.sql|add_stable_id_event_type_rnaproduct
167 \N patch patch_97_98_a.sql|schema_version
modules/t/test-genome-DBs/mapping/core/table.sql
View file @
6b64a71c
...
...
@@ -490,7 +490,7 @@ CREATE TABLE `meta` (
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`species_key_value_idx`
(
`species_id`
,
`meta_key`
,
`meta_value`
),
KEY
`species_value_idx`
(
`species_id`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
16
7
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
16
8
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/multi/compara/SQLite/table.sql
View file @
6b64a71c
--
-- Created by SQL::Translator::Producer::SQLite
-- Created on
Tue Apr 2 16:04:07
2019
-- Created on
Mon Jun 17 16:51:50
2019
--
BEGIN
TRANSACTION
;
...
...
@@ -292,8 +292,7 @@ CREATE TABLE "gene_tree_root_attr" (
"lca_node_id"
integer
,
"taxonomic_coverage"
float
,
"ratio_species_genes"
float
,
"model_name"
varchar
(
40
),
"division"
varchar
(
10
)
"model_name"
varchar
(
40
)
);
--
...
...
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