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ensembl-gh-mirror
ensembl
Commits
1cf224f2
Commit
1cf224f2
authored
Sep 24, 2018
by
Marek Szuba
Browse files
Patch test databases to schema version 95
parent
19f740cc
Changes
20
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20 changed files
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30 additions
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20 deletions
+30
-20
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/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
+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/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/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/mus_musculus/core/meta.txt
modules/t/test-genome-DBs/mus_musculus/core/meta.txt
+2
-1
modules/t/test-genome-DBs/mus_musculus/core/table.sql
modules/t/test-genome-DBs/mus_musculus/core/table.sql
+1
-1
modules/t/test-genome-DBs/nameless/core/meta.txt
modules/t/test-genome-DBs/nameless/core/meta.txt
+2
-1
modules/t/test-genome-DBs/nameless/core/table.sql
modules/t/test-genome-DBs/nameless/core/table.sql
+1
-1
modules/t/test-genome-DBs/ontology/ontology/meta.txt
modules/t/test-genome-DBs/ontology/ontology/meta.txt
+2
-1
modules/t/test-genome-DBs/ontology/ontology/table.sql
modules/t/test-genome-DBs/ontology/ontology/table.sql
+1
-1
modules/t/test-genome-DBs/polyploidy/core/meta.txt
modules/t/test-genome-DBs/polyploidy/core/meta.txt
+2
-1
modules/t/test-genome-DBs/polyploidy/core/table.sql
modules/t/test-genome-DBs/polyploidy/core/table.sql
+1
-1
modules/t/test-genome-DBs/test_collection/core/meta.txt
modules/t/test-genome-DBs/test_collection/core/meta.txt
+2
-1
modules/t/test-genome-DBs/test_collection/core/table.sql
modules/t/test-genome-DBs/test_collection/core/table.sql
+1
-1
No files found.
modules/t/test-genome-DBs/circ/core/meta.txt
View file @
1cf224f2
...
...
@@ -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
4
2 \N schema_version 9
5
8 1 assembly.accession GCA_000292705.1
10 1 assembly.date 2012-08
7 1 assembly.default GCA_000292705.1
...
...
@@ -122,3 +122,4 @@
122 \N patch patch_93_94_a.sql|schema_version
123 \N patch patch_93_94_b.sql|nullable_ox_analysis
124 \N patch patch_93_94_c.sql|default_aln_type
125 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/circ/core/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
12
5
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
12
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/core/meta.txt
View file @
1cf224f2
1 \N schema_version 9
4
1 \N schema_version 9
5
2 1 assembly.default NCBI34
3 1 species.taxonomy_id 9606
26 1 species.classification Homo sapiens
...
...
@@ -101,3 +101,4 @@
168 \N patch patch_93_94_a.sql|schema_version
169 \N patch patch_93_94_b.sql|nullable_ox_analysis
170 \N patch patch_93_94_c.sql|default_aln_type
171 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/core/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
17
1
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
17
2
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt
View file @
1cf224f2
1 \N schema_version 9
4
1 \N schema_version 9
5
2 1 assembly.default NCBI34
33 1 species.classification Chordata
32 1 species.classification Vertebrata
...
...
@@ -101,3 +101,4 @@
150 \N patch patch_93_94_a.sql|schema_version
151 \N patch patch_93_94_b.sql|nullable_ox_analysis
152 \N patch patch_93_94_c.sql|default_aln_type
153 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/empty/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
15
3
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
15
4
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/meta.txt
View file @
1cf224f2
1 \N schema_version 9
4
1 \N schema_version 9
5
2014 1 species.classification Haplorrhini
40 1 assembly.default GRCh37
41 1 assembly.date 2009-02
...
...
@@ -106,3 +106,4 @@
2113 \N patch patch_93_94_a.sql|schema_version
2114 \N patch patch_93_94_b.sql|nullable_ox_analysis
2115 \N patch patch_93_94_c.sql|default_aln_type
2116 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/homo_sapiens/patch/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
211
6
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
211
7
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/mapping/core/meta.txt
View file @
1cf224f2
1 \N schema_version 9
4
1 \N schema_version 9
5
2 1 assembly.default MULTIMAP
3 1 species.taxonomy_id 1
4 1 assembly.mapping chromosome:MULTIMAP#contig
...
...
@@ -62,3 +62,4 @@
155 \N patch patch_93_94_a.sql|schema_version
156 \N patch patch_93_94_b.sql|nullable_ox_analysis
157 \N patch patch_93_94_c.sql|default_aln_type
158 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/mapping/core/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
15
8
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
15
9
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/mus_musculus/core/meta.txt
View file @
1cf224f2
1 \N schema_type core
2 \N schema_version 9
4
2 \N schema_version 9
5
3 \N patch patch_65_66_a.sql|schema_version
4 \N patch patch_65_66_b.sql|fix_external_db_id
5 \N patch patch_65_66_c.sql|reorder_unmapped_obj_index
...
...
@@ -179,3 +179,4 @@
1691 \N patch patch_93_94_a.sql|schema_version
1692 \N patch patch_93_94_b.sql|nullable_ox_analysis
1693 \N patch patch_93_94_c.sql|default_aln_type
1694 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/mus_musculus/core/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
169
4
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
169
5
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/nameless/core/meta.txt
View file @
1cf224f2
1 \N schema_version 9
4
1 \N schema_version 9
5
2 1 assembly.default NCBI34
3 1 species.taxonomy_id 9606
26 1 species.classification Homo sapiens
...
...
@@ -100,3 +100,4 @@
154 \N patch patch_93_94_a.sql|schema_version
155 \N patch patch_93_94_b.sql|nullable_ox_analysis
156 \N patch patch_93_94_c.sql|default_aln_type
157 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/nameless/core/table.sql
View file @
1cf224f2
...
...
@@ -479,7 +479,7 @@ 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
=
15
7
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
15
8
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/ontology/ontology/meta.txt
View file @
1cf224f2
...
...
@@ -9,7 +9,7 @@
10 patch patch_72_73_b.sql|meta \N
12 patch patch_73_74_a.sql|schema_version \N
14 patch patch_74_75_a.sql|schema_version \N
15 schema_version 9
4
\N
15 schema_version 9
5
\N
16 patch patch_75_76_a.sql|schema_version \N
17 patch patch_76_77_a.sql|schema_version \N
18 patch patch_77_78_a.sql|schema_version \N
...
...
@@ -36,3 +36,4 @@
39 patch patch_91_92_a.sql|schema_version \N
40 patch patch_92_93_a.sql|schema_version \N
41 patch patch_93_94_a.sql|schema_version \N
42 patch patch_94_95_a.sql|schema_version \N
modules/t/test-genome-DBs/ontology/ontology/table.sql
View file @
1cf224f2
...
...
@@ -139,7 +139,7 @@ CREATE TABLE `meta` (
`species_id`
int
(
1
)
unsigned
DEFAULT
NULL
,
PRIMARY
KEY
(
`meta_id`
),
UNIQUE
KEY
`key_value_idx`
(
`meta_key`
,
`meta_value`
)
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
4
2
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
4
3
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`ontology`
(
`ontology_id`
int
(
10
)
unsigned
NOT
NULL
AUTO_INCREMENT
,
...
...
modules/t/test-genome-DBs/polyploidy/core/meta.txt
View file @
1cf224f2
1 \N schema_type core
2 \N schema_version 9
4
2 \N schema_version 9
5
3 \N patch patch_68_69_a.sql|schema_version
4 1 species.taxonomy_id 4565
6 1 species.alias bread wheat
...
...
@@ -155,3 +155,4 @@
235 \N patch patch_93_94_a.sql|schema_version
236 \N patch patch_93_94_b.sql|nullable_ox_analysis
237 \N patch patch_93_94_c.sql|default_aln_type
238 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/polyploidy/core/table.sql
View file @
1cf224f2
...
...
@@ -489,7 +489,7 @@ 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
=
23
8
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
23
9
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
modules/t/test-genome-DBs/test_collection/core/meta.txt
View file @
1cf224f2
...
...
@@ -39,7 +39,7 @@
190 \N patch patch_83_84_c.sql|protein_feature_unique
191 \N patch patch_83_84_d.sql|longer_synonym
1 \N schema_type core
2 \N schema_version 9
4
2 \N schema_version 9
5
8 1 assembly.accession GCA_000292705.1
10 1 assembly.date 2012-08
7 1 assembly.default GCA_000292705.1
...
...
@@ -175,3 +175,4 @@
217 \N patch patch_93_94_a.sql|schema_version
218 \N patch patch_93_94_b.sql|nullable_ox_analysis
219 \N patch patch_93_94_c.sql|default_aln_type
220 \N patch patch_94_95_a.sql|schema_version
modules/t/test-genome-DBs/test_collection/core/table.sql
View file @
1cf224f2
...
...
@@ -479,7 +479,7 @@ 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
=
22
0
DEFAULT
CHARSET
=
latin1
;
)
ENGINE
=
MyISAM
AUTO_INCREMENT
=
22
1
DEFAULT
CHARSET
=
latin1
;
CREATE
TABLE
`meta_coord`
(
`table_name`
varchar
(
40
)
COLLATE
latin1_bin
NOT
NULL
DEFAULT
''
,
...
...
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