Caused By Org.postgresql.util.psqlexception Error Deadlock Detected
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Operationalerror: Deadlock Detected
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Select For Update Postgres
vote 4 down vote favorite 1 I'm trying to insert some files into a Postgres database. Since lots of duplication is expected, we put the files themselves into the file table, then link them to the section of the database we're using with the output_file table. As the file table is also referenced by tables other than output_file (for example, the similar input_file table), one of its columns is a reference count, which is updated by a trigger when rows are inserted into output_file (and the other tables, too, although they aren't being used at the times the problem occurs). CREATE TABLE file ( file_id serial PRIMARY KEY, --other columns occurences integer NOT NULL DEFAULT 0 ); CREATE TABLE output_file ( output_file_id serial PRIMARY KEY, --other columns file_id integer REFERENCES file NOT NULL ); CREATE OR REPLACE FUNCTION file_insert() RETURNS opaque AS ' BEGIN UPDATE file SET occurences = occurences + 1 WHERE file.file_id = NEW.file_id; RETURN NEW; END; ' LANGUAGE plpgsql; CREATE TRIGGER output_file_insert AFTER INSERT ON output_file FOR EACH ROW EXECUTE PROCEDURE file_insert(); The code that inserts the files is shown below, and is all one transaction. private void insertFiles(Set
Support Search GitHub This repository Watch 37 Star 124 Fork 77 IQSS/dataverse Code Issues 738 Pull requests 14 Projects 1 Pulse Graphs New issue Indexing: index all causes org.postgresql.util.PSQLException: ERROR: deadlock detected #1666 Closed pdurbin opened this Issue Mar 12, 2015 · 5 comments Projects None yet Labels Component: Search/Browse http://stackoverflow.com/questions/6841703/why-are-my-queries-deadlocking Status: QA Type: Bug Milestone Beta 15 - Dataver... Assignees kcondon 3 participants Institute for Quantitative Social Science member pdurbin commented Mar 12, 2015 I just deployed the latest code (commit 1c88e34 or pull request #1663) to https://apitest.dataverse.org and when I run "index all" https://github.com/IQSS/dataverse/issues/1666 I see "org.postgresql.util.PSQLException: ERROR: deadlock detected" in Glassfish's server.log. I suspect this has something to do with the performance improvements we've been making in #50 and/or the introduction of the @Asynchronous annotation in #702. Here's a stacktrace: [2015-03-12T15:48:23.005-0400] [glassfish 4.1] [WARNING] [] [org.eclipse.persistence.session.file:/usr/local/glassfish4/glassfish/domains/domain1/applications/dataverse-4.0/WEB-INF/classes/_VDCNet-ejbPU] [tid: _ThreadID=134 _ThreadName=__ejb-thread-pool9] [timeMillis: 1426189703005] [levelValue: 900] [[ Local Exception Stack: Exception [EclipseLink-4002] (Eclipse Persistence Services - 2.5.2.v20140319-9ad6abd): org.eclipse.persistence.exceptions.DatabaseException Internal Exception: org.postgresql.util.PSQLException: ERROR: deadlock detected Detail: Process 26300 waits for ShareLock on transaction 79290; blocked by process 26299. Process 26299 waits for ShareLock on transaction 79289; blocked by process 26300. Hint: See server log for query details. Error Code: 0 Call: UPDATE DVOBJECT SET PERMISSIONINDEXTIME = ? WHERE (ID = ?) bind => [2 parameters bound] Query: UpdateObjectQuery([Dataset id:9 ]) at org.eclipse.persistence.exceptions.DatabaseException.sqlException(DatabaseException.java:340) at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.processExceptionForCommError(DatabaseAccessor.java:1611) at org.eclipse.persistence.internal.databaseaccess.DatabaseAccessor.executeDirectNoSelect(DatabaseAccessor.java:898) at org.eclipse.persistence.internal.databas
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Board ExportXMLWordPrintable Details Type: Bug Status: Resolved (View Workflow) Priority: Major Resolution: Done Affects Version/s: 1.2 Final Fix Version/s: None Component/s: None Labels: None Description Client problem. Client is seeing logs of deadlock errors in the server log. org.postgresql.util.PSQLException: ERROR: deadlock detected sf issue: https://na1.salesforce.com/50030000001jyVu I noticed that the RtManagerEJBImpl.addData method is marked NOTSUPPORTED, but the jdbc stuff is using a local-tx. This probably means that the connection is not be enrolled in the current transaction (from the MDB MonitorRTEJBImpl.onMessage) and therefore probably running in autocommit mode. The interesting bits from the hqdb.log is (which happens many times: ERROR: deadlock detected DETAIL: Process 24872 waits for ShareLock on transaction 113386174; blocked by process 24639. Process 24639 waits for ShareLock on transaction 113386230; blocked by process 24872. CONTEXT: SQL statement "SELECT 1 FROM ONLY "public"."eam_error_code" x WHERE "id" = $1 FOR UPDATE OF x" The other interesting thing is: LOG: checkpoints are occurring too frequently (4 seconds apart) HINT: Consider increasing the configuration parameter "checkpoint_segments". Perhaps we need to up the checkpoint_segments to more like 10-30 as some recommend for large feeds of data. Gliffy Diagrams Sort Name Modify Date Ascending Descending OptionsSort By NameSort By DateAscendingDescendingDownload AllAttachments server-with-deadlock.log 10/Jan/06 4:35 PM 461 kB Greg Hinkle Activity All Comments Work Log History Activity Links Hierarchy Ascending order - Click to sort in descending order Hide Permalink Greg Hinkle added a comment - 10/Jan/06 4:35 PM Server log with deadlock errors Show Greg Hinkle added a commen