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Slow query

Tags

  • assigned: Uditgulati
  • priority: high
  • status: stalled
  • keywords: slow query, from github

Description

These queries take 3 minutes and are pretty insane!

 Query_time: 187.220555  Lock_time: 0.075028  Rows_sent: 71  Rows_examined: 21265516
 Query_time: 188.479018  Lock_time: 0.204036  Rows_sent: 71  Rows_examined: 21202414
(SELECT 0, PublishXRef.Id, PublishFreeze.createtime as thistable, Publication.PubMed_ID as Publication_PubMed_ID, Phenotype.Post_publication_description as Phe
notype_Name FROM  PublishFreeze, Publication, PublishXRef, Phenotype WHERE PublishXRef.InbredSetId = 1 and  ((Phenotype.Post_publication_description REGEXP "[[
:<:]]Gene.refGene[[:>:]]" OR Phenotype.Pre_publication_description REGEXP "[[:<:]]Gene.refGene[[:>:]]" OR Phenotype.Pre_publication_abbreviation REGEXP "[[:<:]
]Gene.refGene[[:>:]]" OR Phenotype.Post_publication_abbreviation REGEXP "[[:<:]]Gene.refGene[[:>:]]" OR Phenotype.Lab_code REGEXP "[[:<:]]Gene.refGene[[:>:]]"
OR Publication.PubMed_ID REGEXP "[[:<:]]Gene.refGene[[:>:]]" OR Publication.Abstract REGEXP "[[:<:]]Gene.refGene[[:>:]]" OR Publication.Title REGEXP "[[:<:]]Ge
ne.refGene[[:>:]]" OR Publication.Authors REGEXP "[[:<:]]Gene.refGene[[:>:]]" OR PublishXRef.Id REGEXP "[[:<:]]Gene.refGene[[:>:]]"))  and PublishXRef.Phenotyp
eId = Phenotype.Id and PublishXRef.PublicationId = Publication.Id and PublishFreeze.Id = 1)  UNION (SELECT 0, PublishXRef.Id, PublishFreeze.createtime as thist
able, Publication.PubMed_ID as Publication_PubMed_ID, Phenotype.Post_publication_description as Phenotype_Name FROM  PublishFreeze, Publication, PublishXRef, P
henotype WHERE PublishXRef.InbredSetId = 1 and  ((Phenotype.Post_publication_description REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Phenotype.Pre_publication_descriptio
n REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Phenotype.Pre_publication_abbreviation REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Phenotype.Post_publication_abbreviation REGEXP "[[
:<:]]PIP5K1B[[:>:]]" OR Phenotype.Lab_code REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.PubMed_ID REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.Abstract REGEX
P "[[:<:]]PIP5K1B[[:>:]]" OR Publication.Title REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.Authors REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR PublishXRef.Id REGEXP "[
[:<:]]PIP5K1B[[:>:]]"))  and PublishXRef.PhenotypeId = Phenotype.Id and PublishXRef.PublicationId = Publication.Id and PublishFreeze.Id = 1)  UNION (SELECT 0,
PublishXRef.Id, PublishFreeze.createtime as thistable, Publication.PubMed_ID as Publication_PubMed_ID, Phenotype.Post_publication_description as Phenotype_Name
 FROM  PublishFreeze, Publication, PublishXRef, Phenotype WHERE PublishXRef.InbredSetId = 1 and  ((Phenotype.Post_publication_description REGEXP "[[:<:]]PIP5K1
B[[:>:]]" OR Phenotype.Pre_publication_description REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Phenotype.Pre_publication_abbreviation REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR P
henotype.Post_publication_abbreviation REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Phenotype.Lab_code REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.PubMed_ID REGEXP "[[:
<:]]PIP5K1B[[:>:]]" OR Publication.Abstract REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.Title REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR Publication.Authors REGEXP "[
[:<:]]PIP5K1B[[:>:]]" OR PublishXRef.Id REGEXP "[[:<:]]PIP5K1B[[:>:]]"))  and PublishXRef.PhenotypeId = Phenotype.Id and PublishXRef.PublicationId = Publicatio
n.Id and PublishFreeze.Id = 1)  UNION (SELECT 0, PublishXRef.Id, PublishFreeze.createtime as thistable, Publication.PubMed_ID as Publication_PubMed_ID, Phenoty
pe.Post_publication_description as Phenotype_Name FROM  PublishFreeze, Publication, PublishXRef, Phenotype WHERE PublishXRef.InbredSetId = 1 and  ((Phenotype.P
ost_publication_description REGEXP "[[:<:]]PIP5K1B[[:>:]]" OR

and just keeps going on. Amazing MariaDB actually manages to do them ;)


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