Times Reported Time consuming queries #1

x Hide

[ User: pubc - Total duration: 9m19s - Times executed: 1 ]

x Hide

[ Application: psql - Total duration: 9m19s - Times executed: 1 ]

x Hide

/* * 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: 2026-08-12 00:09:21
Duration: 9m19s
Database: ctdprd51
User: pubc
Application: psql

x Hide

Times Reported Time consuming queries #2

x Hide

[ User: postgres - Total duration: 7m32s - Times executed: 4 ]

x Hide

[ Application: pg_dump - Total duration: 7m32s - Times executed: 4 ]

x Hide

COPY pubc.log_query_archive (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, gene_set_txt, molecule_type_txt, volume_txt, first_page_txt, journal_query_type, journal_txt, is_review, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 06:06:55
Duration: 1m53s
Database: ctdprd51
User: postgres
Application: pg_dump

COPY pubc.log_query_archive (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, gene_set_txt, molecule_type_txt, volume_txt, first_page_txt, journal_query_type, journal_txt, is_review, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 14:06:55
Duration: 1m53s
Database: ctdprd51
User: postgres
Application: pg_dump

COPY pubc.log_query_archive (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, gene_set_txt, molecule_type_txt, volume_txt, first_page_txt, journal_query_type, journal_txt, is_review, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 10:06:54
Duration: 1m53s
Database: ctdprd51
User: postgres
Application: pg_dump

x Hide

Times Reported Time consuming queries #3

x Hide

[ User: pubeu - Total duration: 3m11s - Times executed: 5 ]

x Hide

SELECT /* DiseaseGeneAssnsDAO */ d.nm diseaseNm, d.acc_txt diseaseAcc, d.acc_db_cd diseaseAccDbCd, d.id diseaseId, g.nm geneSymbol, g.acc_txt geneAcc, g.acc_db_cd geneAccDbCd, g.id geneId, gd.network_score networkScore, gd.indirect_chem_qty inferredCount, gd.reference_qty referenceCount, gd.exposure_reference_qty exposureReferenceCount, CASE WHEN gd.curated_reference_qty > 0 THEN ( SELECT STRING_AGG(a.action_type_cd || '^' || a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gd.gene_id AND a.disease_id = gd.disease_id) ELSE NULL END actionTypes FROM gene_disease gd INNER JOIN term g ON gd.gene_id = g.id INNER JOIN term d ON gd.disease_id = d.id WHERE gd.disease_id IN ( SELECT p.descendant_object_id FROM dag_path p WHERE p.ancestor_object_id = '2196186') ORDER BY actionTypes, gd.network_score DESC NULLS LAST, g.nm_sort, d.nm_sort;

Date: 2026-08-12 21:03:38
Duration: 48s639ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* DiseaseGeneAssnsDAO */ d.nm diseaseNm, d.acc_txt diseaseAcc, d.acc_db_cd diseaseAccDbCd, d.id diseaseId, g.nm geneSymbol, g.acc_txt geneAcc, g.acc_db_cd geneAccDbCd, g.id geneId, gd.network_score networkScore, gd.indirect_chem_qty inferredCount, gd.reference_qty referenceCount, gd.exposure_reference_qty exposureReferenceCount, CASE WHEN gd.curated_reference_qty > 0 THEN ( SELECT STRING_AGG(a.action_type_cd || '^' || a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gd.gene_id AND a.disease_id = gd.disease_id) ELSE NULL END actionTypes FROM gene_disease gd INNER JOIN term g ON gd.gene_id = g.id INNER JOIN term d ON gd.disease_id = d.id WHERE gd.disease_id IN ( SELECT p.descendant_object_id FROM dag_path p WHERE p.ancestor_object_id = '2196186') ORDER BY actionTypes, gd.network_score DESC NULLS LAST, g.nm_sort, d.nm_sort;

Date: 2026-08-12 21:06:31
Duration: 46s325ms
Database: ctdprd51
User: pubeu
Bind query: yes

SELECT /* DiseaseGeneAssnsDAO */ d.nm diseaseNm, d.acc_txt diseaseAcc, d.acc_db_cd diseaseAccDbCd, d.id diseaseId, g.nm geneSymbol, g.acc_txt geneAcc, g.acc_db_cd geneAccDbCd, g.id geneId, gd.network_score networkScore, gd.indirect_chem_qty inferredCount, gd.reference_qty referenceCount, gd.exposure_reference_qty exposureReferenceCount, CASE WHEN gd.curated_reference_qty > 0 THEN ( SELECT STRING_AGG(a.action_type_cd || '^' || a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gd.gene_id AND a.disease_id = gd.disease_id) ELSE NULL END actionTypes FROM gene_disease gd INNER JOIN term g ON gd.gene_id = g.id INNER JOIN term d ON gd.disease_id = d.id WHERE gd.disease_id IN ( SELECT p.descendant_object_id FROM dag_path p WHERE p.ancestor_object_id = '2196660') ORDER BY actionTypes, gd.network_score DESC NULLS LAST, g.nm_sort, d.nm_sort;

Date: 2026-08-12 11:06:46
Duration: 32s591ms
Database: ctdprd51
User: pubeu
Bind query: yes

x Hide

Times Reported Time consuming queries #4

x Hide

[ User: pubeu - Total duration: 56s821ms - Times executed: 1 ]

x Hide

SELECT /* BatchDiseaseGeneAssnsDAO */ 'mesh:d056486' "Input", d.nm "DiseaseName", d.acc_db_cd || ':' || d.acc_txt "DiseaseID", g.nm "GeneSymbol", g.acc_txt "GeneID", ( SELECT STRING_AGG(stm.slim_term_nm, '|' ORDER BY stm.slim_term_nm) FROM slim_term_mapping stm WHERE stm.mapped_term_id = d.id) "DiseaseCategories", CASE WHEN gdr.via_chem_id IS NULL THEN ( SELECT STRING_AGG(a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gdr.gene_id AND a.disease_id = gdr.disease_id) ELSE NULL END "DirectEvidence", c.nm "InferenceChemicalName", gdr.network_score "InferenceScore", STRING_AGG(gdr.source_acc_txt, '|' ORDER BY gdr.source_acc_txt) "OmimIDs", STRING_AGG(DISTINCT r.acc_txt, '|') "PubMedIDs" FROM gene_disease_reference gdr INNER JOIN term g ON gdr.gene_id = g.id INNER JOIN term d ON gdr.disease_id = d.id LEFT OUTER JOIN reference r ON gdr.reference_id = r.id LEFT OUTER JOIN term c ON gdr.via_chem_id = c.id WHERE (d.id = 2192415) GROUP BY g.nm, g.acc_txt, d.nm, d.id, d.acc_txt, d.acc_db_cd, d.nm_sort, CASE WHEN gdr.via_chem_id IS NULL THEN ( SELECT STRING_AGG(a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gdr.gene_id AND a.disease_id = gdr.disease_id) ELSE NULL END, c.nm, gdr.network_score ORDER BY d.nm_sort, g.nm, "DirectEvidence", c.nm;

Date: 2026-08-12 09:29:38
Duration: 57s747ms
Bind query: yes

SELECT /* BatchDiseaseGeneAssnsDAO */ 'mesh:d056486' "Input", d.nm "DiseaseName", d.acc_db_cd || ':' || d.acc_txt "DiseaseID", g.nm "GeneSymbol", g.acc_txt "GeneID", ( SELECT STRING_AGG(stm.slim_term_nm, '|' ORDER BY stm.slim_term_nm) FROM slim_term_mapping stm WHERE stm.mapped_term_id = d.id) "DiseaseCategories", CASE WHEN gdr.via_chem_id IS NULL THEN ( SELECT STRING_AGG(a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gdr.gene_id AND a.disease_id = gdr.disease_id) ELSE NULL END "DirectEvidence", c.nm "InferenceChemicalName", gdr.network_score "InferenceScore", STRING_AGG(gdr.source_acc_txt, '|' ORDER BY gdr.source_acc_txt) "OmimIDs", STRING_AGG(DISTINCT r.acc_txt, '|') "PubMedIDs" FROM gene_disease_reference gdr INNER JOIN term g ON gdr.gene_id = g.id INNER JOIN term d ON gdr.disease_id = d.id LEFT OUTER JOIN reference r ON gdr.reference_id = r.id LEFT OUTER JOIN term c ON gdr.via_chem_id = c.id WHERE (d.id = 2192415) GROUP BY g.nm, g.acc_txt, d.nm, d.id, d.acc_txt, d.acc_db_cd, d.nm_sort, CASE WHEN gdr.via_chem_id IS NULL THEN ( SELECT STRING_AGG(a.action_type_nm, '|') FROM gene_disease_axn a WHERE a.gene_id = gdr.gene_id AND a.disease_id = gdr.disease_id) ELSE NULL END, c.nm, gdr.network_score ORDER BY d.nm_sort, g.nm, "DirectEvidence", c.nm;

Date: 2026-08-12 09:44:21
Duration: 56s821ms
Database: ctdprd51
User: pubeu
Bind query: yes

x Hide

Times Reported Time consuming queries #5

x Hide

COPY pubc.log_query_bots (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 06:07:19
Duration: 24s314ms

COPY pubc.log_query_bots (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 18:07:18
Duration: 24s253ms

COPY pubc.log_query_bots (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status) TO stdout;

Date: 2026-08-12 10:07:19
Duration: 24s236ms

x Hide

Times Reported Time consuming queries #6

x Hide

[ User: pubeu - Total duration: 1m24s - Times executed: 1 ]

x Hide

WITH anatomy AS ( SELECT chem_conc_id, array_agg(anatomy_id ORDER BY anatomy_id) AS anatomy_ids, string_agg(DISTINCT anatomy_nm_html || '^' || anatomy_acc_txt || '^' || position_seq || '^' || anatomy_acc_db_id || '^' || anatomy_nm, '|') AS anatomyTerms FROM chem_conc_anatomy cca GROUP BY chem_conc_id ), reference_groups AS ( SELECT cc.chem_id, cc.chem_conc, cc.chem_conc_uom_nm, cc.taxon_id, cc.disease_id, cc.chem_conc_exp_route_nm, cc.ixn_qualifier_nm, cc.action_type_cd, COALESCE(a.anatomy_ids, ARRAY[]::integer[]) AS anatomy_ids, string_agg(DISTINCT r.acc_txt, '|') AS refAcc, COUNT(DISTINCT cc.reference_id) AS referenceCount FROM chem_conc cc LEFT JOIN anatomy a ON a.chem_conc_id = cc.id LEFT JOIN reference r ON r.id = cc.reference_id GROUP BY cc.chem_id, cc.chem_conc, cc.chem_conc_uom_nm, cc.taxon_id, cc.disease_id, cc.chem_conc_exp_route_nm, cc.ixn_qualifier_nm, cc.action_type_cd, COALESCE(a.anatomy_ids, ARRAY[]::integer[]) ), deduplicated_cc AS ( SELECT cc.*, COALESCE(a.anatomy_ids, ARRAY[]::integer[]) AS anatomy_ids, a.anatomyTerms, ROW_NUMBER() OVER (PARTITION BY cc.chem_id, cc.chem_conc, cc.chem_conc_uom_nm, cc.taxon_id, cc.disease_id, cc.chem_conc_exp_route_nm, cc.ixn_qualifier_nm, cc.action_type_cd, COALESCE(a.anatomy_ids, ARRAY[]::integer[]) ORDER BY cc.id) AS rn FROM chem_conc cc LEFT JOIN anatomy a ON a.chem_conc_id = cc.id WHERE EXISTS ( SELECT 1 FROM chem_conc cc_ref LEFT JOIN anatomy a_ref ON a_ref.chem_conc_id = cc_ref.id WHERE cc_ref.chem_id IS NOT DISTINCT FROM cc.chem_id AND cc_ref.chem_conc IS NOT DISTINCT FROM cc.chem_conc AND cc_ref.chem_conc_uom_nm IS NOT DISTINCT FROM cc.chem_conc_uom_nm AND cc_ref.taxon_id IS NOT DISTINCT FROM cc.taxon_id AND cc_ref.disease_id IS NOT DISTINCT FROM cc.disease_id AND cc_ref.chem_conc_exp_route_nm IS NOT DISTINCT FROM cc.chem_conc_exp_route_nm AND cc_ref.ixn_qualifier_nm IS NOT DISTINCT FROM cc.ixn_qualifier_nm AND cc_ref.action_type_cd IS NOT DISTINCT FROM cc.action_type_cd AND COALESCE(a_ref.anatomy_ids, ARRAY[]::integer[]) = COALESCE(a.anatomy_ids, ARRAY[]::integer[]))) SELECT /* ChemConcentrationDao */ cc.chem_id AS chem_id, t.nm AS chem, t.nm_html AS chemNmHtml, t.acc_txt AS chemAcc, t.secondary_nm AS casRN, cc.chem_conc || ' ' || cc.chem_conc_uom_nm AS concentration, cc.ixn_qualifier_nm AS vivoVitro, cc.chem_conc_exp_route_nm AS expRoute, cc.taxon_nm_html AS organism, cc.anatomyTerms AS anatomyTerms, cc.anatomyTerms AS anatomyTermsSort, cc.action_type_cd AS directEvidence, cc.action_type_cd AS directEvidenceSort, d.nm AS diseasenm, d.acc_txt AS diseaseacc, d.acc_db_cd AS diseaseaccdbcd, d.id AS diseaseid, tx.nm AS taxonnm, tx.secondary_nm AS taxoncomnm, tx.id AS taxonid, tx.acc_txt AS taxonacc, rg.refAcc, rg.referenceCount, COUNT(*) OVER () fullRowCount FROM deduplicated_cc cc INNER JOIN term t ON cc.chem_id = t.id INNER JOIN term tx ON cc.taxon_id = tx.id LEFT JOIN term d ON cc.disease_id = d.id INNER JOIN reference_groups rg ON rg.chem_id IS NOT DISTINCT FROM cc.chem_id AND rg.chem_conc IS NOT DISTINCT FROM cc.chem_conc AND rg.chem_conc_uom_nm IS NOT DISTINCT FROM cc.chem_conc_uom_nm AND rg.taxon_id IS NOT DISTINCT FROM cc.taxon_id AND rg.disease_id IS NOT DISTINCT FROM cc.disease_id AND rg.chem_conc_exp_route_nm IS NOT DISTINCT FROM cc.chem_conc_exp_route_nm AND rg.ixn_qualifier_nm IS NOT DISTINCT FROM cc.ixn_qualifier_nm AND rg.action_type_cd IS NOT DISTINCT FROM cc.action_type_cd AND rg.anatomy_ids = cc.anatomy_ids WHERE cc.rn = 1 AND t.id in ( select distinct dp.descendant_object_id from dag_path dp WHERE dp.ancestor_object_id = '1429606') ORDER BY organism LIMIT 50;

Date: 2026-08-12 13:44:54
Duration: 1m24s
Database: ctdprd51
User: pubeu
Bind query: yes

x Hide

Times Reported Time consuming queries #7

x Hide

[ User: postgres - Total duration: 1m20s - Times executed: 4 ]

x Hide

[ Application: pg_dump - Total duration: 1m20s - Times executed: 4 ]

x Hide

COPY edit.db_link (object_id, object_type_id, acc_txt, db_id, type_cd, is_primary, create_by, create_tm, mod_by, mod_tm) TO stdout;

Date: 2026-08-12 06:00:21
Duration: 20s314ms
Database: ctdprd51
User: postgres
Application: pg_dump

COPY edit.db_link (object_id, object_type_id, acc_txt, db_id, type_cd, is_primary, create_by, create_tm, mod_by, mod_tm) TO stdout;

Date: 2026-08-12 10:00:22
Duration: 20s274ms
Database: ctdprd51
User: postgres
Application: pg_dump

COPY edit.db_link (object_id, object_type_id, acc_txt, db_id, type_cd, is_primary, create_by, create_tm, mod_by, mod_tm) TO stdout;

Date: 2026-08-12 14:00:21
Duration: 20s69ms
Database: ctdprd51
User: postgres
Application: pg_dump

x Hide

Times Reported Time consuming queries #8

x Hide

COPY pubc.log_query_bots_original (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status, user_agent_pattern) TO stdout;

Date: 2026-08-12 10:07:34
Duration: 15s569ms

COPY pubc.log_query_bots_original (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status, user_agent_pattern) TO stdout;

Date: 2026-08-12 14:07:35
Duration: 15s551ms

COPY pubc.log_query_bots_original (id, type_cd, query_tm, submission_qty, session_id, remote_addr, http_user_agent, server_nm, node_nm, results_qty, execution_ms, basic_query_type, basic_query_txt, gene_query_type, gene_txt, gene_form_type_txt, taxon_query_type, taxon_txt, chem_query_type, chem_txt, party_query_type, party_nm_txt, acc_txt, go_query_type, go_txt, disease_query_type, disease_txt, action_type_txt, action_degree_type_txt, from_yr, through_yr, title_abstract_txt, has_marray, pathway_query_type, pathway_txt, dag_txt, results_format_txt, batch_input_type_txt, gd_assn_type, p_val, p_val_type, input_term_qty, review_status, user_agent_pattern) TO stdout;

Date: 2026-08-12 06:07:35
Duration: 15s475ms