-- Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute
-- Copyright [2016-2019] EMBL-European Bioinformatics Institute
-- 
-- Licensed under the Apache License, Version 2.0 (the "License");
-- you may not use this file except in compliance with the License.
-- You may obtain a copy of the License at
-- 
--      http://www.apache.org/licenses/LICENSE-2.0
-- 
-- Unless required by applicable law or agreed to in writing, software
-- distributed under the License is distributed on an "AS IS" BASIS,
-- WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
-- See the License for the specific language governing permissions and
-- limitations under the License.

/** 
@header patch_67_68_c.sql - input_set_subset.replicate_is_control
@desc   Add replicate field to input_set and input_subset
*/



ALTER TABLE input_subset ADD `replicate` tinyint(3) unsigned NOT NULL;
ALTER TABLE input_subset ADD `is_control` tinyint(3) unsigned NOT NULL;
ALTER TABLE input_set ADD `replicate` tinyint(3) unsigned NOT NULL;

-- If input_subset.replicate=0 and input_subset.is_control=0
-- then current subset file represents a replicate pool
-- with or without a control file

-- If input_subset.replicate=0 and input_subset.is_control=1
-- subset is a pool of controls

-- If input_subset.replicate>0 and input_subset.is_control=1
-- subset is a single control file


OPTIMIZE TABLE input_subset;
ANALYZE TABLE input_set;
OPTIMIZE TABLE input_set;
ANALYZE TABLE input_subset;

# patch identifier
INSERT INTO meta (species_id, meta_key, meta_value) VALUES (NULL, 'patch', 'patch_67_68_c.sql|input_set_subset.replicate_is_control');


