RE: Postgres12 looking for possible HashAggregate issue workarounds?
have received this message by mistake. Thank you for your cooperation. ____________ De: David Rowley Enviado: 18 de dezembro de 2022 11:06 Para: João Paulo Luís Cc: Justin Pryzby ; pgsql-performance@lists.postgresql.org Assunto: Re: Postgres12 looking for possible HashAggregate issue workarounds? [Não costuma receber e-mails de dgrowle...@gmail.com. Saiba por que motivo isto é importante em https://aka.ms/LearnAboutSenderIdentification. ] CAUTION: External E-mail On Sun, 18 Dec 2022 at 23:44, João Paulo Luís wrote: > Meanwhile, as a one-time workaround I've disabled the hashagg algorithm, The way the query planner determines if Hash Aggregate's hash table will fit in work_mem or not is based on the n_distinct estimate of the columns being grouped on. You may want to review what analyze set n_distinct to on this table. That can be done by looking at: select attname,n_distinct from pg_Stats where tablename = 'sentencesource' and attname = 'sentence'; If what that's set to does not seem realistic, then you can overwrite this with: ALTER TABLE sentencesource ALTER COLUMN sentence SET (n_distinct = N); Please see the paragraph in [1] about n_distinct. Using an absolute value is likely not a great idea if the table is going to grow. You could maybe give it a better estimate about how many times values are repeated by setting some negative value, as described in the documents. You'll need to analyze the table again after changing this setting. David [1] https://www.postgresql.org/docs/12/sql-altertable.html
Re: Postgres12 looking for possible HashAggregate issue workarounds?
On Sun, 18 Dec 2022 at 23:44, João Paulo Luís wrote: > Meanwhile, as a one-time workaround I've disabled the hashagg algorithm, The way the query planner determines if Hash Aggregate's hash table will fit in work_mem or not is based on the n_distinct estimate of the columns being grouped on. You may want to review what analyze set n_distinct to on this table. That can be done by looking at: select attname,n_distinct from pg_Stats where tablename = 'sentencesource' and attname = 'sentence'; If what that's set to does not seem realistic, then you can overwrite this with: ALTER TABLE sentencesource ALTER COLUMN sentence SET (n_distinct = N); Please see the paragraph in [1] about n_distinct. Using an absolute value is likely not a great idea if the table is going to grow. You could maybe give it a better estimate about how many times values are repeated by setting some negative value, as described in the documents. You'll need to analyze the table again after changing this setting. David [1] https://www.postgresql.org/docs/12/sql-altertable.html
RE: Postgres12 looking for possible HashAggregate issue workarounds?
Thank you. It seems it is precisely that problem. (I will discuss with the rest of the team upgrade possibilities, as I guess it will never be backported to the bugfixes of version 12.) Meanwhile, as a one-time workaround I've disabled the hashagg algorithm, SET enable_hashagg=off; repeated the query, and it finished in 1h28m (and the RAM resident memory stayed just a little above the 16GB of shared_buffers). Happy holidays! João Luís Senior Developer <mailto:%%Email%%>joao.l...@pdmfc.com<mailto:joao.l...@pdmfc.com> +351 210 337 700 [https://dlnk.bio/wp-content/uploads/2022/11/assinaturaPDM-Natal-1-1.gif] [https://www.pdmfc.com/images/email-signature/28-04.png]<https://pdmfc.com> [https://www.pdmfc.com/images/email-signature/28-06.png] <https://www.facebook.com/PDMFC> [https://www.pdmfc.com/images/email-signature/28-05.png] <https://www.linkedin.com/company/pdmfc> [https://www.pdmfc.com/images/email-signature/28-07.png] <https://www.instagram.com/pdmfc.tech> [https://www.pdmfc.com/images/email-signature/28-08.png] <https://www.youtube.com/channel/UCFiu8g5wv10TfMB-OfOaJUA> Confidentiality The information in this message is confidential and privileged. It is intended solely for the addressee. If you are not the intended recipient, any disclosure, copying, or distribution of the message, or any action or omission taken by you in reliance on it is prohibited. Please contact the sender immediately if you have received this message by mistake. Thank you for your cooperation. De: Justin Pryzby Enviado: 16 de dezembro de 2022 16:06 Para: João Paulo Luís Cc: pgsql-performance@lists.postgresql.org Assunto: Re: Postgres12 looking for possible HashAggregate issue workarounds? [Não costuma receber e-mails de pry...@telsasoft.com. Saiba por que motivo isto é importante em https://aka.ms/LearnAboutSenderIdentification. ] CAUTION: External E-mail On Fri, Dec 16, 2022 at 03:24:17PM +, João Paulo Luís wrote: > Hi! Sorry to post to this mailing list, but I could not find many tips > working around HashAggregate issues. > > In a research project involving text repetition analysis (on top of public > documents) > I have a VirtualMachine (CPU AMD Epyc 7502P, 128GB RAM, 12TB HDD, 2TB SSD), > running postgres 12.12 (Ubuntu 12.12-0ubuntu0.20.04.1) > and some tables with many rows: > 1 - the query is making a postgresql project have 76.7 GB resident RAM usage. > Having a WORK_MEM setting of 2GB (and "simple" COUNT() results), > that was not expected. > (I risk oom-killer killing my postgres as soon as I run another concurrent > query.) > The rows=261275 on HashAggregate (cost=26397219.92..26399832.67 rows=261275 > width=8) seems VERY WRONG! > I was expecting something like rows=1.0E+09 instead. > I would guess that HashAggregate is behaving very badly (using to much RAM > beyond WORK_MEM, amd also badly estimating the #rows and taking forever...) Huge memory use sounds like what was fixed in postgres 13. https://www.postgresql.org/docs/13/release-13.html Allow hash aggregation to use disk storage for large aggregation result sets (Jeff Davis) Previously, hash aggregation was avoided if it was expected to use more than work_mem memory. Now, a hash aggregation plan can be chosen despite that. The hash table will be spilled to disk if it exceeds work_mem times hash_mem_multiplier. This behavior is normally preferable to the old behavior, in which once hash aggregation had been chosen, the hash table would be kept in memory no matter how large it got — which could be very large if the planner had misestimated. If necessary, behavior similar to that can be obtained by increasing hash_mem_multiplier. -- Justin
Re: Postgres12 looking for possible HashAggregate issue workarounds?
On Fri, Dec 16, 2022 at 03:24:17PM +, João Paulo Luís wrote: > Hi! Sorry to post to this mailing list, but I could not find many tips > working around HashAggregate issues. > > In a research project involving text repetition analysis (on top of public > documents) > I have a VirtualMachine (CPU AMD Epyc 7502P, 128GB RAM, 12TB HDD, 2TB SSD), > running postgres 12.12 (Ubuntu 12.12-0ubuntu0.20.04.1) > and some tables with many rows: > 1 - the query is making a postgresql project have 76.7 GB resident RAM usage. > Having a WORK_MEM setting of 2GB (and "simple" COUNT() results), > that was not expected. > (I risk oom-killer killing my postgres as soon as I run another concurrent > query.) > The rows=261275 on HashAggregate (cost=26397219.92..26399832.67 rows=261275 > width=8) seems VERY WRONG! > I was expecting something like rows=1.0E+09 instead. > I would guess that HashAggregate is behaving very badly (using to much RAM > beyond WORK_MEM, amd also badly estimating the #rows and taking forever...) Huge memory use sounds like what was fixed in postgres 13. https://www.postgresql.org/docs/13/release-13.html Allow hash aggregation to use disk storage for large aggregation result sets (Jeff Davis) Previously, hash aggregation was avoided if it was expected to use more than work_mem memory. Now, a hash aggregation plan can be chosen despite that. The hash table will be spilled to disk if it exceeds work_mem times hash_mem_multiplier. This behavior is normally preferable to the old behavior, in which once hash aggregation had been chosen, the hash table would be kept in memory no matter how large it got — which could be very large if the planner had misestimated. If necessary, behavior similar to that can be obtained by increasing hash_mem_multiplier. -- Justin
Postgres12 looking for possible HashAggregate issue workarounds?
Hi! Sorry to post to this mailing list, but I could not find many tips working around HashAggregate issues. In a research project involving text repetition analysis (on top of public documents) I have a VirtualMachine (CPU AMD Epyc 7502P, 128GB RAM, 12TB HDD, 2TB SSD), running postgres 12.12 (Ubuntu 12.12-0ubuntu0.20.04.1) and some tables with many rows: nsoamt=> ANALYSE VERBOSE SentenceSource; INFO: analyzing "public.sentencesource" INFO: "sentencesource": scanned 3 of 9028500 pages, containing 3811990 live rows and 268323 dead rows; 3 rows in sample, 1147218391 estimated total rows ANALYZE nsoamt=> ANALYSE VERBOSE SentenceToolCheck; INFO: analyzing "public.sentencetoolcheck" INFO: "sentencetoolcheck": scanned 3 of 33536425 pages, containing 498508 live rows and 25143 dead rows; 3 rows in sample, 557272538 estimated total rows ANALYZE nsoamt=> ANALYZE VERBOSE Document; INFO: analyzing "public.document" INFO: "document": scanned 3 of 34570 pages, containing 1371662 live rows and 30366 dead rows; 3 rows in sample, 1580612 estimated total rows ANALYZE The estimates for the number of rows above are accurate. I am running this query SELECT COUNT(*), COUNT(NULLIF(Stchk.haserrors,'f')) FROM SentenceToolCheck Stchk WHERE EXISTS (SELECT SSrc.sentence FROM SentenceSource SSrc, Document Doc WHERE SSrc.sentence = Stchk.id AND Doc.id = SSrc.document AND Doc.source ILIKE '/bigpostgres/misc/arxiv/arxiv/arxiv/pdf/%'); and I have 2 (related?) problems 1 - the query is making a postgresql project have 76.7 GB resident RAM usage. Having a WORK_MEM setting of 2GB (and "simple" COUNT() results), that was not expected. (I risk oom-killer killing my postgres as soon as I run another concurrent query.) The memory settings are: work_mem = 2GB shared_buffers = 16GB maintenance_work_mem = 1GB 2 - the query never finishes... (it is over 3x24hours execution by now, and I have no ideia how far from finishing it is). The EXPLAIN plan is: QUERY PLAN Aggregate (cost=28630195.79..28630195.80 rows=1 width=16) -> Nested Loop (cost=26397220.49..28628236.23 rows=261275 width=1) -> HashAggregate (cost=26397219.92..26399832.67 rows=261275 width=8) Group Key: ssrc.sentence -> Hash Join (cost=73253.21..23635527.52 rows=1104676957 width=8) Hash Cond: (ssrc.document = doc.id) -> Seq Scan on sentencesource ssrc (cost=0.00..20540394.02 rows=1151189402 width=16) -> Hash (cost=54310.40..54310.40 rows=1515425 width=4) -> Seq Scan on document doc (cost=0.00..54310.40 rows=1515425 width=4) Filter: (source ~~* '/bigpostgres/misc/arxiv/arxiv/arxiv/pdf/%'::text) -> Index Scan using pk_sentencetoolcheck on sentencetoolcheck stchk (cost=0.57..8.53 rows=1 width=9) Index Cond: (id = ssrc.sentence) JIT: Functions: 20 Options: Inlining true, Optimization true, Expressions true, Deforming true (15 rows) The rows=1515425 estimate on Seq Scan on document doc (cost=0.00..54310.40 rows=1515425 width=4) seems right. The rows=1104676957 estimate on Hash Join (cost=73253.21..23635527.52 rows=1104676957 width=8) also seems right. The rows=261275 on HashAggregate (cost=26397219.92..26399832.67 rows=261275 width=8) seems VERY WRONG! I was expecting something like rows=1.0E+09 instead. On a laptop (with just 80% of the rows, 32GB RAM, but all SSD disks), I finish the query in a few hours (+/- 2 hours). The EXPLAIN plan is different on the laptop: QUERY PLAN - Aggregate (cost=216688374.89..216688374.90 rows=1 width=16) -> Nested Loop (cost=211388557.47..216686210.27 rows=288616 width=1) -> Unique (cost=211388556.90..215889838.75 rows=288616 width=8) -> Sort (cost=211388556.90..213639197.82 rows=900256370 width=8) Sort Key: ssrc.sentence -> Hash Join (cost=56351.51..28261726.31 rows=900256370 width=8) Hash Cond: (ssrc.document = doc.id) -> Seq Scan on sentencesource ssrc (cost=0.00..16453055.44 rows=948142144 width=16) -> Hash (cost=38565.65..38565.65 rows=1084069 width=4) -> Seq Scan on document doc (cost=0.00..38565.65 rows=1084069 width=4) Filter: (source ~~* '/bigpostgres/misc/arxiv/arxiv/arxiv/pdf/%'::text) -
