In thread dump, I do see this - SparkUI-160- acceptor-id-ServerConnector@id(HTTP/1.1) | RUNNABLE | Monitor - SparkUI-161-acceptor-id-ServerConnector@id(HTTP/1.1) | BLOCKED | Blocked by Thread(Some(160)) Lock - SparkUI-159-acceptor-id-ServerConnector@id(HTTP/1.1) | BLOCKED | Blocked by Thread(Some(160)) Lock
Could the fact that 160 has the monitor but is not running be causing a deadlock preventing the job from finishing? I do see my Finalizer and main method are waiting. I don’t see any other threads from 3rd party libraries or my code in the dump. I do see spark context cleaner has timed waiting. Thanks On Tue, Apr 21, 2020 at 9:58 AM Ruijing Li <liruijin...@gmail.com> wrote: > Strangely enough I found an old issue that is the exact same issue as mine > https://issues.apache.org/jira/plugins/servlet/mobile#issue/SPARK-18343 > > However I’m using spark 2.4.4 so the issue should have been solved by now. > > Like the user in the jira issue I am using mesos, but I am reading from > oracle instead of writing to Cassandra and S3. > > > On Thu, Apr 16, 2020 at 1:54 AM ZHANG Wei <wezh...@outlook.com> wrote: > >> The Thread dump result table of Spark UI can provide some clues to find >> out thread locks issue, such as: >> >> Thread ID | Thread Name | Thread State | Thread Locks >> 13 | NonBlockingInputStreamThread | WAITING | Blocked by >> Thread Some(48) Lock(jline.internal.NonBlockingInputStream@103008951}) >> 48 | Thread-16 | RUNNABLE | >> Monitor(jline.internal.NonBlockingInputStream@103008951}) >> >> And echo thread row can show the call stacks after being clicked, then >> you can check the root cause of holding locks like this(Thread 48 of above): >> >> org.fusesource.jansi.internal.Kernel32.ReadConsoleInputW(Native Method) >> >> org.fusesource.jansi.internal.Kernel32.readConsoleInputHelper(Kernel32.java:811) >> >> org.fusesource.jansi.internal.Kernel32.readConsoleKeyInput(Kernel32.java:842) >> >> org.fusesource.jansi.internal.WindowsSupport.readConsoleInput(WindowsSupport.java:97) >> jline.WindowsTerminal.readConsoleInput(WindowsTerminal.java:222) >> <snip...> >> >> Hope it can help you. >> >> -- >> Cheers, >> -z >> >> On Thu, 16 Apr 2020 16:36:42 +0900 >> Jungtaek Lim <kabhwan.opensou...@gmail.com> wrote: >> >> > Do thread dump continuously, per specific period (like 1s) and see the >> > change of stack / lock for each thread. (This is not easy to be done in >> UI >> > so maybe doing manually would be the only option. Not sure Spark UI will >> > provide the same, haven't used at all.) >> > >> > It will tell which thread is being blocked (even it's shown as running) >> and >> > which point to look at. >> > >> > On Thu, Apr 16, 2020 at 4:29 PM Ruijing Li <liruijin...@gmail.com> >> wrote: >> > >> > > Once I do. thread dump, what should I be looking for to tell where it >> is >> > > hanging? Seeing a lot of timed_waiting and waiting on driver. Driver >> is >> > > also being blocked by spark UI. If there are no tasks, is there a >> point to >> > > do thread dump of executors? >> > > >> > > On Tue, Apr 14, 2020 at 4:49 AM Gabor Somogyi < >> gabor.g.somo...@gmail.com> >> > > wrote: >> > > >> > >> The simplest way is to do thread dump which doesn't require any fancy >> > >> tool (it's available on Spark UI). >> > >> Without thread dump it's hard to say anything... >> > >> >> > >> >> > >> On Tue, Apr 14, 2020 at 11:32 AM jane thorpe >> <janethor...@aol.com.invalid> >> > >> wrote: >> > >> >> > >>> Here a is another tool I use Logic Analyser 7:55 >> > >>> https://youtu.be/LnzuMJLZRdU >> > >>> >> > >>> you could take some suggestions for improving performance queries. >> > >>> >> https://dzone.com/articles/why-you-should-not-use-select-in-sql-query-1 >> > >>> >> > >>> >> > >>> Jane thorpe >> > >>> janethor...@aol.com >> > >>> >> > >>> >> > >>> -----Original Message----- >> > >>> From: jane thorpe <janethor...@aol.com.INVALID> >> > >>> To: janethorpe1 <janethor...@aol.com>; mich.talebzadeh < >> > >>> mich.talebza...@gmail.com>; liruijing09 <liruijin...@gmail.com>; >> user < >> > >>> user@spark.apache.org> >> > >>> Sent: Mon, 13 Apr 2020 8:32 >> > >>> Subject: Re: Spark hangs while reading from jdbc - does nothing >> Removing >> > >>> Guess work from trouble shooting >> > >>> >> > >>> >> > >>> >> > >>> This tool may be useful for you to trouble shoot your problems away. >> > >>> >> > >>> >> > >>> >> https://www.javacodegeeks.com/2020/04/simplifying-apm-remove-the-guesswork-from-troubleshooting.html >> > >>> >> > >>> >> > >>> "APM tools typically use a waterfall-type view to show the blocking >> > >>> time of different components cascading through the control flow >> within an >> > >>> application. >> > >>> These types of visualizations are useful, and AppOptics has them, >> but >> > >>> they can be difficult to understand for those of us without a PhD." >> > >>> >> > >>> Especially helpful if you want to understand through visualisation >> and >> > >>> you do not have a phD. >> > >>> >> > >>> >> > >>> Jane thorpe >> > >>> janethor...@aol.com >> > >>> >> > >>> >> > >>> -----Original Message----- >> > >>> From: jane thorpe <janethor...@aol.com.INVALID> >> > >>> To: mich.talebzadeh <mich.talebza...@gmail.com>; liruijing09 < >> > >>> liruijin...@gmail.com>; user <user@spark.apache.org> >> > >>> CC: user <user@spark.apache.org> >> > >>> Sent: Sun, 12 Apr 2020 4:35 >> > >>> Subject: Re: Spark hangs while reading from jdbc - does nothing >> > >>> >> > >>> You seem to be implying the error is intermittent. >> > >>> You seem to be implying data is being ingested via JDBC. So the >> > >>> connection has proven itself to be working unless no data is >> arriving from >> > >>> the JDBC channel at all. If no data is arriving then one could >> say it >> > >>> could be the JDBC. >> > >>> If the error is intermittent then it is likely a resource involved >> in >> > >>> processing is filling to capacity. >> > >>> Try reducing the data ingestion volume and see if that completes, >> then >> > >>> increase the data ingested incrementally. >> > >>> I assume you have run the job on small amount of data so you have >> > >>> completed your prototype stage successfully. >> > >>> >> > >>> ------------------------------ >> > >>> On Saturday, 11 April 2020 Mich Talebzadeh < >> mich.talebza...@gmail.com> >> > >>> wrote: >> > >>> Hi, >> > >>> >> > >>> Have you checked your JDBC connections from Spark to Oracle. What is >> > >>> Oracle saying? Is it doing anything or hanging? >> > >>> >> > >>> set pagesize 9999 >> > >>> set linesize 140 >> > >>> set heading off >> > >>> select SUBSTR(name,1,8) || ' sessions as on '||TO_CHAR(CURRENT_DATE, >> > >>> 'MON DD YYYY HH:MI AM') from v$database; >> > >>> set heading on >> > >>> column spid heading "OS PID" format a6 >> > >>> column process format a13 heading "Client ProcID" >> > >>> column username format a15 >> > >>> column sid format 999 >> > >>> column serial# format 99999 >> > >>> column STATUS format a3 HEADING 'ACT' >> > >>> column last format 9,999.99 >> > >>> column TotGets format 999,999,999,999 HEADING 'Logical I/O' >> > >>> column phyRds format 999,999,999 HEADING 'Physical I/O' >> > >>> column total_memory format 999,999,999 HEADING 'MEM/KB' >> > >>> -- >> > >>> SELECT >> > >>> substr(a.username,1,15) "LOGIN" >> > >>> , substr(a.sid,1,5) || ','||substr(a.serial#,1,5) AS >> > >>> "SID/serial#" >> > >>> , TO_CHAR(a.logon_time, 'DD/MM HH:MI') "LOGGED IN SINCE" >> > >>> , substr(a.machine,1,10) HOST >> > >>> , substr(p.username,1,8)||'/'||substr(p.spid,1,5) "OS PID" >> > >>> , substr(a.osuser,1,8)||'/'||substr(a.process,1,5) "Client >> PID" >> > >>> , substr(a.program,1,15) PROGRAM >> > >>> --,ROUND((CURRENT_DATE-a.logon_time)*24) AS "Logged/Hours" >> > >>> , ( >> > >>> select round(sum(ss.value)/1024) from v$sesstat ss, >> > >>> v$statname sn >> > >>> where ss.sid = a.sid and >> > >>> sn.statistic# = ss.statistic# and >> > >>> -- sn.name in ('session pga memory') >> > >>> sn.name in ('session pga memory','session >> uga >> > >>> memory') >> > >>> ) AS total_memory >> > >>> , (b.block_gets + b.consistent_gets) TotGets >> > >>> , b.physical_reads phyRds >> > >>> , decode(a.status, 'ACTIVE', 'Y','INACTIVE', 'N') STATUS >> > >>> , CASE WHEN a.sid in (select sid from v$mystat where rownum >> = 1) >> > >>> THEN '<-- YOU' ELSE ' ' END "INFO" >> > >>> FROM >> > >>> v$process p >> > >>> ,v$session a >> > >>> ,v$sess_io b >> > >>> WHERE >> > >>> a.paddr = p.addr >> > >>> AND p.background IS NULL >> > >>> --AND a.sid NOT IN (select sid from v$mystat where rownum = 1) >> > >>> AND a.sid = b.sid >> > >>> AND a.username is not null >> > >>> --AND (a.last_call_et < 3600 or a.status = 'ACTIVE') >> > >>> --AND CURRENT_DATE - logon_time > 0 >> > >>> --AND a.sid NOT IN ( select sid from v$mystat where rownum=1) -- >> > >>> exclude me >> > >>> --AND (b.block_gets + b.consistent_gets) > 0 >> > >>> ORDER BY a.username; >> > >>> exit >> > >>> >> > >>> HTH >> > >>> >> > >>> Dr Mich Talebzadeh >> > >>> >> > >>> LinkedIn * >> https://www.linkedin.com/profile/view?id=AAEAAAAWh2gBxianrbJd6zP6AcPCCdOABUrV8Pw >> > >>> < >> https://www.linkedin.com/profile/view?id=AAEAAAAWh2gBxianrbJd6zP6AcPCCdOABUrV8Pw >> >* >> > >>> >> > >>> http://talebzadehmich.wordpress.com >> > >>> >> > >>> *Disclaimer:* Use it at your own risk. Any and all responsibility >> for >> > >>> any loss, damage or destruction of data or any other property which >> may >> > >>> arise from relying on this email's technical content is explicitly >> > >>> disclaimed. The author will in no case be liable for any monetary >> damages >> > >>> arising from such loss, damage or destruction. >> > >>> >> > >>> >> > >>> >> > >>> On Fri, 10 Apr 2020 at 17:37, Ruijing Li <liruijin...@gmail.com> >> wrote: >> > >>> >> > >>> Hi all, >> > >>> >> > >>> I am on spark 2.4.4 and using scala 2.11.12, and running cluster >> mode on >> > >>> mesos. I am ingesting from an oracle database using >> spark.read.jdbc. I am >> > >>> seeing a strange issue where spark just hangs and does nothing, not >> > >>> starting any new tasks. Normally this job finishes in 30 stages but >> > >>> sometimes it stops at 29 completed stages and doesn’t start the >> last stage. >> > >>> The spark job is idling and there is no pending or active task. >> What could >> > >>> be the problem? Thanks. >> > >>> -- >> > >>> Cheers, >> > >>> Ruijing Li >> > >>> >> > >>> -- >> > > Cheers, >> > > Ruijing Li >> > > >> > -- > Cheers, > Ruijing Li > -- Cheers, Ruijing Li
