Skip inserting data when creating empty schemas (#258)

Author: labkey-adam

GenotypeAssays/resources/schemas/dbscripts/postgresql/genotypeassays-0.00-0.01.sql

@@ -23,6 +23,8 @@ CREATE TABLE genotypeassays.assaytypes (
   CONSTRAINT pk_assaytypes PRIMARY KEY (name)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO genotypeassays.assaytypes (name, description) VALUES ('SSP', 'Sequence-specific PCR');
 INSERT INTO genotypeassays.assaytypes (name, description) VALUES ('STR', 'Microsatellite');
-INSERT INTO genotypeassays.assaytypes (name, description) VALUES ('SBT', 'Sequence-based Genotyping');
+INSERT INTO genotypeassays.assaytypes (name, description) VALUES ('SBT', 'Sequence-based Genotyping');
+-- @SkipOnEmptySchemasEnd

GenotypeAssays/resources/schemas/dbscripts/postgresql/genotypeassays-0.02-0.03.sql

@@ -26,7 +26,9 @@ CREATE TABLE genotypeassays.ssp_result_types
   CONSTRAINT PK_ssp_result_types PRIMARY KEY (result)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT into genotypeassays.ssp_result_types (result, meaning, importAliases) VALUES ('POS', 'Positive', '+,1,Y');
 INSERT into genotypeassays.ssp_result_types (result, meaning, importAliases) VALUES ('NEG', 'Negative', '-,0,N');
 INSERT into genotypeassays.ssp_result_types (result, meaning, importAliases) VALUES ('IND', 'Indeterminate', null);
-INSERT into genotypeassays.ssp_result_types (result, meaning, importAliases) VALUES ('FAIL', 'Fail', 'F');
+INSERT into genotypeassays.ssp_result_types (result, meaning, importAliases) VALUES ('FAIL', 'Fail', 'F');
+-- @SkipOnEmptySchemasEnd

elispot_assay/resources/schemas/dbscripts/postgresql/elispot_assay-0.00-0.01.sql

@@ -56,7 +56,9 @@ CREATE TABLE elispot_assay.assay_types (
   constraint PK_assay_types PRIMARY KEY (rowid)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO elispot_assay.assay_types (name, description) VALUES ('IFN-Gamma', 'Interferon Gamma');
+-- @SkipOnEmptySchemasEnd
 
 CREATE TABLE elispot_assay.instruments
 (

elispot_assay/resources/schemas/dbscripts/postgresql/elispot_assay-0.02-0.03.sql

@@ -1 +1,3 @@
-INSERT INTO elispot_assay.instruments (instrument) VALUES ('AID Plate Reader');
+-- @SkipOnEmptySchemasBegin
+INSERT INTO elispot_assay.instruments (instrument) VALUES ('AID Plate Reader');
+-- @SkipOnEmptySchemasEnd

elispot_assay/resources/schemas/dbscripts/postgresql/elispot_assay-0.03-0.04.sql

@@ -1,3 +1,4 @@
+-- @SkipOnEmptySchemasBegin
 TRUNCATE TABLE elispot_assay.peptide_pools;
 INSERT INTO elispot_assay.peptide_pools (pool_name, category) VALUES ('SIVmac239 Env Pool A', 'SIV');
 INSERT INTO elispot_assay.peptide_pools (pool_name, category) VALUES ('SIVmac239 Env Pool B', 'SIV');
@@ -909,3 +910,4 @@ INSERT INTO elispot_assay.peptide_pool_members (poolid, sequence) select rowid,
 INSERT INTO elispot_assay.peptide_pool_members (poolid, sequence) select rowid,   'GKEVDSSSHMEDTGE' as sequence from elispot_assay.peptide_pools pp WHERE pp.pool_name = 'SIVmac239 Pol Pool Z';
 INSERT INTO elispot_assay.peptide_pool_members (poolid, sequence) select rowid,   'DSSSHMEDTGEAREV' as sequence from elispot_assay.peptide_pools pp WHERE pp.pool_name = 'SIVmac239 Pol Pool Z';
 INSERT INTO elispot_assay.peptide_pool_members (poolid, sequence) select rowid,   'HMEDTGEAREVA' as sequence from elispot_assay.peptide_pools pp WHERE pp.pool_name = 'SIVmac239 Pol Pool Z';
+-- @SkipOnEmptySchemasEnd

flowassays/resources/schemas/dbscripts/postgresql/flowassays-0.00-0.01.sql

@@ -30,6 +30,7 @@ CREATE TABLE flowassays.populations
     CONSTRAINT PK_populations PRIMARY KEY (Name)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO flowassays.populations (Name) VALUES
     ('NK'),
     ('CD14 Mono'),
@@ -38,7 +39,7 @@ INSERT INTO flowassays.populations (Name) VALUES
     ('CD4'),
     ('CD14'),
     ('CD8');
-
+-- @SkipOnEmptySchemasEnd
 
 CREATE TABLE flowassays.units
 (
@@ -47,15 +48,16 @@ CREATE TABLE flowassays.units
     CONSTRAINT PK_units PRIMARY KEY (unit)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO flowassays.units VALUES ('cells/uL'), ('Tc/uL');
-
+-- @SkipOnEmptySchemasEnd
 
 UPDATE flowassays.populations SET Name = 'CD4 T-cells' WHERE Name = 'CD4';
 UPDATE flowassays.populations SET Name = 'CD8 T-cells' WHERE Name = 'CD8';
 
-
+-- @SkipOnEmptySchemasBegin
 INSERT INTO flowassays.units VALUES ('%');
-
+-- @SkipOnEmptySchemasEnd
 
 CREATE TABLE flowassays.instruments
 (
@@ -64,7 +66,9 @@ CREATE TABLE flowassays.instruments
     CONSTRAINT PK_instruments PRIMARY KEY (instrument)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO flowassays.instruments VALUES ('BD LSR II');
+-- @SkipOnEmptySchemasEnd
 
 CREATE TABLE flowassays.assay_types (
   rowid serial,
@@ -74,6 +78,7 @@ CREATE TABLE flowassays.assay_types (
   constraint pk_assay_types PRIMARY KEY (rowid)
 );
 
+-- @SkipOnEmptySchemasBegin
 DELETE FROM flowassays.populations WHERE name = 'NK';
 DELETE FROM flowassays.populations WHERE name = 'CD4';
 DELETE FROM flowassays.populations WHERE name = 'CD8';
@@ -97,4 +102,5 @@ DELETE FROM flowassays.populations WHERE name = 'T-cells';
 INSERT INTO flowassays.populations(name) VALUES ('T-cells');
 
 
-INSERT INTO flowassays.assay_types(name) VALUES ('TruCount');
+INSERT INTO flowassays.assay_types(name) VALUES ('TruCount');
+-- @SkipOnEmptySchemasEnd

flowassays/resources/schemas/dbscripts/postgresql/flowassays-0.02-0.03.sql

@@ -13,11 +13,13 @@
  * See the License for the specific language governing permissions and
  * limitations under the License.
  */
+-- @SkipOnEmptySchemasBegin
 DELETE FROM flowassays.populations WHERE name = 'T-cells';
 DELETE FROM flowassays.populations WHERE name = 'T-Cells';
 INSERT INTO flowassays.populations (name) VALUES ('T-cells');
 
 DELETE FROM flowassays.populations WHERE name = 'Lymphocytes';
 INSERT INTO flowassays.populations (name) VALUES ('Lymphocytes');
 
-INSERT INTO flowassays.assay_types (name) VALUES ('Phenotyping');
+INSERT INTO flowassays.assay_types (name) VALUES ('Phenotyping');
+-- @SkipOnEmptySchemasEnd

flowassays/resources/schemas/dbscripts/postgresql/flowassays-12.21-12.22.sql

@@ -1,7 +1,9 @@
-DELETE FROM flowassays.populations WHERE name = 'Lymphocytes';  
+-- @SkipOnEmptySchemasBegin
+DELETE FROM flowassays.populations WHERE name = 'Lymphocytes';
 INSERT INTO flowassays.populations (name) VALUES ('Lymphocytes');
 
 DELETE FROM flowassays.assay_types WHERE name = 'Tetramer';
 DELETE FROM flowassays.assay_types WHERE name = 'Phenotyping';
 INSERT INTO flowassays.assay_types(name) VALUES ('Tetramer');
 INSERT INTO flowassays.assay_types(name) VALUES ('Phenotyping');
+-- @SkipOnEmptySchemasEnd

tcrdb/resources/schemas/dbscripts/postgresql/tcrdb-15.31-15.32.sql

@@ -4,6 +4,7 @@ CREATE TABLE tcrdb.loci (
   constraint PK_loci PRIMARY KEY (locus)
 );
 
+-- @SkipOnEmptySchemasBegin
 INSERT INTO tcrdb.loci (locus) VALUES ('IGH');
 INSERT INTO tcrdb.loci (locus) VALUES ('IGL');
 INSERT INTO tcrdb.loci (locus) VALUES ('IGK');
@@ -14,3 +15,4 @@ INSERT INTO tcrdb.loci (locus) VALUES ('TRD');
 INSERT INTO tcrdb.loci (locus) VALUES ('IG');
 INSERT INTO tcrdb.loci (locus) VALUES ('TCR');
 INSERT INTO tcrdb.loci (locus) VALUES ('ALL');
+-- @SkipOnEmptySchemasEnd