Times Reported Time consuming queries #1

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[ User: pubeu - Total duration: 22m45s - Times executed: 106 ]

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SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 02:02:08
Duration: 22s336ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 08:16:46
Duration: 21s318ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 00:06:52
Duration: 21s79ms
Database: ctdprd51
User: pubeu
Bind query: yes

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Times Reported Time consuming queries #2

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/* * Run daily to prune LOG_QUERY, archive old queries to LOG_QUERY_ARCHIVE * and vacuum/analyze the tables. * * $Id: archive_query_logs.sql 10832 2012-03-19 15:27:11Z mcr $ */ SELECT maint_query_logs_archive ();

Date: 2025-09-07 00:10:08
Duration: 9m45s

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Times Reported Time consuming queries #3

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[ User: pubeu - Total duration: 55s670ms - Times executed: 11 ]

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SELECT /* BatchChemGODAO */ 'ddt' "Input", sqi.chem_nm "ChemicalName", sqi.chem_acc_txt "ChemicalID", sqi.casRN "CasRN", sqi.gene_symbol "GeneSymbol", sqi.gene_acc_txt "GeneID", sqi.ontology_nm "Ontology", sqi.go_term_nm "GoTermName", sqi.go_acc_txt "GoTermID" FROM ( WITH sq AS ( SELECT DISTINCT c.id chem_id, c.nm chem_nm, c.acc_txt chem_acc_txt, c.secondary_nm casRN, c.nm_sort chem_nm_sort, gcr.gene_id, g.nm gene_symbol, g.acc_txt gene_acc_txt, g.nm_sort gene_symbol_sort FROM term c INNER JOIN gene_chem_reference gcr ON c.id = gcr.chem_id INNER JOIN term g ON gcr.gene_id = g.id WHERE (c.id = 1322208)) SELECT DISTINCT sq.chem_nm, sq.chem_acc_txt, sq.casRN, sq.gene_symbol, sq.gene_acc_txt, gt.nm go_term_nm, gt.acc_txt go_acc_txt, sq.chem_nm_sort, sq.gene_symbol_sort, gt.nm_sort, d.nm ontology_nm FROM sq INNER JOIN gene_go_annot gga ON sq.gene_id = gga.gene_id INNER JOIN dag_node gt ON gga.go_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE gga.is_not = false AND (d.id = 5 OR d.id = 4) ORDER BY sq.chem_nm_sort, sq.gene_symbol_sort, d.nm, gt.nm_sort) sqi;

Date: 2025-09-07 15:02:33
Duration: 5s123ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchChemGODAO */ 'ddt' "Input", sqi.chem_nm "ChemicalName", sqi.chem_acc_txt "ChemicalID", sqi.casRN "CasRN", sqi.gene_symbol "GeneSymbol", sqi.gene_acc_txt "GeneID", sqi.ontology_nm "Ontology", sqi.go_term_nm "GoTermName", sqi.go_acc_txt "GoTermID" FROM ( WITH sq AS ( SELECT DISTINCT c.id chem_id, c.nm chem_nm, c.acc_txt chem_acc_txt, c.secondary_nm casRN, c.nm_sort chem_nm_sort, gcr.gene_id, g.nm gene_symbol, g.acc_txt gene_acc_txt, g.nm_sort gene_symbol_sort FROM term c INNER JOIN gene_chem_reference gcr ON c.id = gcr.chem_id INNER JOIN term g ON gcr.gene_id = g.id WHERE (c.id = 1322208)) SELECT DISTINCT sq.chem_nm, sq.chem_acc_txt, sq.casRN, sq.gene_symbol, sq.gene_acc_txt, gt.nm go_term_nm, gt.acc_txt go_acc_txt, sq.chem_nm_sort, sq.gene_symbol_sort, gt.nm_sort, d.nm ontology_nm FROM sq INNER JOIN gene_go_annot gga ON sq.gene_id = gga.gene_id INNER JOIN dag_node gt ON gga.go_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE gga.is_not = false AND (d.id = 5 OR d.id = 4) ORDER BY sq.chem_nm_sort, sq.gene_symbol_sort, d.nm, gt.nm_sort) sqi;

Date: 2025-09-07 03:02:32
Duration: 5s90ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchChemGODAO */ 'ddt' "Input", sqi.chem_nm "ChemicalName", sqi.chem_acc_txt "ChemicalID", sqi.casRN "CasRN", sqi.gene_symbol "GeneSymbol", sqi.gene_acc_txt "GeneID", sqi.ontology_nm "Ontology", sqi.go_term_nm "GoTermName", sqi.go_acc_txt "GoTermID" FROM ( WITH sq AS ( SELECT DISTINCT c.id chem_id, c.nm chem_nm, c.acc_txt chem_acc_txt, c.secondary_nm casRN, c.nm_sort chem_nm_sort, gcr.gene_id, g.nm gene_symbol, g.acc_txt gene_acc_txt, g.nm_sort gene_symbol_sort FROM term c INNER JOIN gene_chem_reference gcr ON c.id = gcr.chem_id INNER JOIN term g ON gcr.gene_id = g.id WHERE (c.id = 1322208)) SELECT DISTINCT sq.chem_nm, sq.chem_acc_txt, sq.casRN, sq.gene_symbol, sq.gene_acc_txt, gt.nm go_term_nm, gt.acc_txt go_acc_txt, sq.chem_nm_sort, sq.gene_symbol_sort, gt.nm_sort, d.nm ontology_nm FROM sq INNER JOIN gene_go_annot gga ON sq.gene_id = gga.gene_id INNER JOIN dag_node gt ON gga.go_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE gga.is_not = false AND (d.id = 5 OR d.id = 4) ORDER BY sq.chem_nm_sort, sq.gene_symbol_sort, d.nm, gt.nm_sort) sqi;

Date: 2025-09-07 05:02:32
Duration: 5s87ms
Database: ctdprd51
User: pubeu
Bind query: yes

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Times Reported Time consuming queries #4

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[ User: pubeu - Total duration: 38s734ms - Times executed: 7 ]

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SELECT /* ChemGODAO */ d.abbr dagAbbr, d.nm dagNm, gt.level_min_no dagLevelMin, gt.nm gonm, gt.nm_html gonmhtml, gt.acc_txt goacc, gt.object_id goid, te.corrected_p_val pValCorrected, te.raw_p_val pValRaw, te.target_match_qty targetmatchqty, te.target_total_qty targettotalqty, te.background_match_qty backgroundmatchqty, te.background_total_qty backgroundtotalqty, COUNT(*) OVER () fullRowCount FROM term_enrichment te INNER JOIN dag_node gt ON te.enriched_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE te.term_id = '1310937' AND te.enriched_object_type_id = 5 ORDER BY te.corrected_p_val, d.abbr, gt.nm_sort LIMIT 50;

Date: 2025-09-07 22:18:20
Duration: 5s835ms
Bind query: yes

SELECT /* ChemGODAO */ d.abbr dagAbbr, d.nm dagNm, gt.level_min_no dagLevelMin, gt.nm gonm, gt.nm_html gonmhtml, gt.acc_txt goacc, gt.object_id goid, te.corrected_p_val pValCorrected, te.raw_p_val pValRaw, te.target_match_qty targetmatchqty, te.target_total_qty targettotalqty, te.background_match_qty backgroundmatchqty, te.background_total_qty backgroundtotalqty, COUNT(*) OVER () fullRowCount FROM term_enrichment te INNER JOIN dag_node gt ON te.enriched_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE te.term_id = '1310937' AND te.enriched_object_type_id = 5 ORDER BY te.corrected_p_val, d.abbr, gt.nm_sort LIMIT 50;

Date: 2025-09-07 22:18:26
Duration: 5s796ms
Bind query: yes

SELECT /* ChemGODAO */ d.abbr dagAbbr, d.nm dagNm, gt.level_min_no dagLevelMin, gt.nm gonm, gt.nm_html gonmhtml, gt.acc_txt goacc, gt.object_id goid, te.corrected_p_val pValCorrected, te.raw_p_val pValRaw, te.target_match_qty targetmatchqty, te.target_total_qty targettotalqty, te.background_match_qty backgroundmatchqty, te.background_total_qty backgroundtotalqty, COUNT(*) OVER () fullRowCount FROM term_enrichment te INNER JOIN dag_node gt ON te.enriched_term_id = gt.object_id INNER JOIN dag d ON gt.dag_id = d.id WHERE te.term_id = '1295161' AND te.enriched_object_type_id = 5 ORDER BY te.corrected_p_val, d.abbr, gt.nm_sort LIMIT 50;

Date: 2025-09-07 22:16:56
Duration: 5s727ms
Database: ctdprd51
User: pubeu
Bind query: yes

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Times Reported Time consuming queries #5

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[ User: pubeu - Total duration: 7s726ms - Times executed: 1 ]

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select distinct /* ChemPhenotypesAssnsDAO */ associatedTerm.nm || '^' || o.cd || '^' || associatedTerm.nm_html || '^' || associatedTerm.acc_txt || '^' || associatedTerm.acc_db_cd as associatedTerm, associatedTerm.id associatedTermId, ptr.ixn_id ixnId, associatedTerm.object_type_id || '|' || associatedTerm.nm_sort associatedTermNmSort, COALESCE(associatedTerm.secondary_nm, '') casRN, phenotypeTerm.nm || '^' || 'go' || '^' || phenotypeTerm.nm_html || '^' || phenotypeTerm.acc_txt || '^' || phenotypeTerm.acc_db_cd as phenotype, phenotypeTerm.id phenotypeId, ( SELECT STRING_AGG(distinct taxonTerm.nm || '^' || 'taxon' || '^' || taxonTerm.nm_html || '^' || taxonTerm.acc_txt || '^' || taxonTerm.acc_db_cd || '^' || COALESCE(taxonTerm.secondary_nm, ''), '|')) as taxonTerms, ( SELECT STRING_AGG(distinct anatomyTerm.nm_html || '^' || anatomyTerm.acc_txt || '^' || ia.level_seq || '^' || anatomyTerm.acc_db_cd || '^' || anatomyTerm.nm, '|')) as anatomyTerms, COUNT(DISTINCT taxonTerm.nm) taxonCount, i.ixn_prose_html ixnProseHtml, i.ixn_prose_txt ixnProse, i.sort_txt ixnSort, ( SELECT STRING_AGG(distinct r.acc_txt, '|')) as references, COUNT(DISTINCT ptr.reference_id) refCount, pt.indirect_term_qty inferredCount, COUNT(*) OVER () fullRowCount from phenotype_term_reference ptr inner join phenotype_term pt on ptr.term_id = pt.term_id and ptr.phenotype_id = pt.phenotype_id inner join term associatedTerm on ptr.term_id = associatedTerm.id inner join term phenotypeTerm on ptr.phenotype_id = phenotypeTerm.id left outer join term taxonTerm on ptr.taxon_id = taxonTerm.id inner join reference r on ptr.reference_id = r.id inner join ixn i on ptr.ixn_id = i.id inner join object_type o on associatedTerm.object_type_id = o.id left outer join ixn_anatomy ia on ptr.ixn_id = ia.ixn_id left outer join term anatomyTerm on ia.anatomy_id = anatomyTerm.id where ptr.term_id IN ( select /* DBConstants.getDAGTermSQL */ distinct dp.descendant_object_id from dag_path dp WHERE dp.ancestor_object_id in ( select distinct id from term baseTerm where object_type_id = 2 and upper(baseTerm.nm) LIKE '2-DIETHYLAMINOETHANOL')) and i.id in ( select ixn_id from ixn_axn where action_type_nm = 'phenotype' and action_degree_type_nm in ('increases', 'decreases', 'affects')) group by associatedTerm, associatedTermNmSort, phenotype, casRN, ixnId, ixnProseHtml, ixnProse, ixnSort, associatedTermId, phenotypeId, inferredCount ORDER BY associatedTermNmSort LIMIT 50;

Date: 2025-09-07 17:57:57
Duration: 7s726ms
Database: ctdprd51
User: pubeu
Bind query: yes

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Times Reported Time consuming queries #6

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VACUUM ANALYZE log_query_archive;

Date: 2025-09-07 00:10:16
Duration: 7s309ms

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Times Reported Time consuming queries #1

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[ User: pubeu - Total duration: 22m45s - Times executed: 106 ]

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SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 02:02:08
Duration: 22s336ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 08:16:46
Duration: 21s318ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* BatchDiseasePhenotypeAssnsDAO */ 'go:0006915' AS "Input", phenotypeTerm.nm as "PhenotypeName", phenotypeTerm.acc_txt as "PhenotypeID", diseaseTerm.nm as "DiseaseName", diseaseTerm.acc_db_cd || ':' || diseaseTerm.acc_txt "DiseaseID", ( SELECT STRING_AGG(distinct geneTerm.nm, '|') from term geneTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = geneTerm.id and ptr.via_term_object_type_id = 4) AS "GeneInferenceNetwork", ( SELECT STRING_AGG(distinct chemTerm.nm, '|') from term chemTerm, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and ptr.via_term_id = chemTerm.id and ptr.via_term_object_type_id = 2) AS "ChemInferenceNetwork", ( SELECT STRING_AGG(distinct r.acc_txt, '|') from reference r, phenotype_term_reference ptr where pt.phenotype_id = ptr.phenotype_id and pt.term_id = ptr.term_id and (r.id = ptr.reference_id or r.id = ptr.term_reference_id)) AS "PubMedIDs" FROM phenotype_term pt inner join term phenotypeTerm on pt.phenotype_id = phenotypeTerm.id inner join term diseaseTerm on pt.term_id = diseaseTerm.id WHERE (phenotypeTerm.id = 1268254) and diseaseTerm.object_type_id = 3;

Date: 2025-09-07 00:06:52
Duration: 21s79ms
Database: ctdprd51
User: pubeu
Bind query: yes