RE: MonetDB causing disk space to fill up

12 Aug 2015


      Hey Hannes,
Thanks for looking into it. Any idea when will the new version be released?
Anu
From: developers-list [mailto:developers-list-bounces+anu.srivastava=rms.com@monetdb.org] On Behalf Of Hannes Mühleisen
Sent: Wednesday, August 12, 2015 5:04 AM
To: Communication channel for developers of the MonetDB suite. developers-list@monetdb.org
Subject: Re: MonetDB causing disk space to fill up
Hi Anu,
I just fixed a bug in the JDBC driver that lead to result sets piling up in the server. See https://www.monetdb.org/bugzilla/show_bug.cgi?id=3786
So the next version of the driver should no longer have this issue.
Thanks for taking the time to create your test program!
Best,
Hannes
On 11 Aug 2015, at 18:05, Anu Raj Srivastava <Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com> wrote:
Hi Hannes,
Thanks for looking into it. I did try a different connection pool so I am not sure whether it is connection pool issue or not.
Regards,
Anu
-----Original Message-----
From: Hannes Mühleisen [mailto:hannes.muehleisen@cwi.nl]
Sent: Tuesday, August 11, 2015 8:07 AM
To: Anu Raj Srivastava <Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com>
Cc: Communication channel for developers of the MonetDB suite. <developers-list@monetdb.orgmailto:developers-list@monetdb.org>
Subject: Re: MonetDB causing disk space to fill up
Confirmed, you test program does make the disk fill up. This should not happen, it could be the connection pool not properly releasing resources (such as Statement or ResultSet instances) or a bug in MonetDB itself. Will investigate further.
Hannes
On 11 Aug 2015, at 12:19, Hannes Mühleisen <Hannes.Muehleisen@cwi.nlmailto:Hannes.Muehleisen@cwi.nl> wrote:
https://www.monetdb.org/bugzilla/show_bug.cgi?id=3784
On 11 Aug 2015, at 12:02, Hannes Mühleisen <hannes.muehleisen@cwi.nlmailto:hannes.muehleisen@cwi.nl> wrote:
I checked on this, your test program triggers an assertion in mserver5. Will investigate.
On 11 Aug 2015, at 10:49, Hannes Mühleisen <hannes.muehleisen@cwi.nlmailto:hannes.muehleisen@cwi.nl> wrote:
Not yet, sorry.
On 10 Aug 2015, at 22:33, Anu Raj Srivastava <Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com> wrote:
Hi Hannes,
Just wanted to check if you got a chance to look into the issue?
Anu
On 7/31/15, 17:33, "developers-list on behalf of Anu Raj Srivastava"
<developers-list-bounces+anu.srivastava=rms.com@monetdb.orgmailto:developers-list-bounces+anu.srivastava=rms.com@monetdb.org on behalf of
Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com> wrote:
Hi Hannes,
I have uploaded a sample project on github
https://github.com/anu-srivastava/MonetDB_Test.
You should be able to replicate the problem.
Anu
On 7/22/15, 0:36, "Hannes Mühleisen" <Hannes.Muehleisen@cwi.nlmailto:Hannes.Muehleisen@cwi.nl> wrote:
Hi,
On 21.07.2015, at 20:27, Anu Raj Srivastava <Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com>
wrote:
I won't be able to share the code I am working against but I will try
to create a new stand-alone application which can replicate the issue.
I'll try to share it as soon as possible.
OK.
Also, in your earlier comments you mentioned that disk space does fill
up for a small period of time. Is that a desired behavior? What if the
connection pool stays active for long period and that causes disk space
to fill up? I think this could be the scenario in my case
This is expected behavior. MonetDB puts intermediate results into
memory-mapped files. For these, some space is required. These files are
removed once the query is finished (or should be). This has nothing to do
with connections.
Hannes
-----Original Message-----
From: developers-list
[mailto:developers-list-bounces+anu.srivastava=rms.com@monetdb.org] On
Behalf Of Hannes Mühleisen
Sent: Monday, July 20, 2015 11:19 PM
To: Communication channel for developers of the MonetDB suite.
Subject: Re: MonetDB causing disk space to fill up
Hey Anu,
we need more than a snippet of Java code to properly debug this.
Schema, sample data, queries, runnable stand-alone Java source at the
least.
Hannes
On 20.07.2015, at 23:28, Anu Raj Srivastava <Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com>
wrote:
I am sorry didn¹t realize mailing list is not their in my reply.
On 7/20/15, 14:24, "Ying Zhang" <Y.Zhang@cwi.nlmailto:Y.Zhang@cwi.nl> wrote:
Hello Anu,
Would you please post this to the MonetDB users mailing list?
Thanks!
Regards,
Jennie
On Jul 20, 2015, at 19:44, Anu Raj Srivastava
<Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com>
wrote:
Hi Hannes,
I am using apache dbcp2 connection Pool. I am running queries in a
constant loop with 8 concurrent invocations. And each 8 threads are
running 9 queries each again and again.
Java code is quite straight forward:-
private ConnectionPoolPG() {
try {
    final Properties properties = new Properties();
properties.load(ConnectionPoolPG.class.getClassLoader().getResourceA
sStre
am("monetDB.properties"));
    dataSource =
BasicDataSourceFactory.createDataSource(properties);
    schemaName = properties.getProperty("schemaname");
} catch (Exception e) {
    throw new ExposureStoreException("Unable to instantiate
connection pool: " + e.getMessage(),
            EAPAException.ERR_STORE_CONNECTION_CONFIG_ERROR);
}
}
public void AllQueryPerformance() throws Exception {
while (true) {
    if (queries != null) {
        for (String query : queries) {
            try (Connection connection =
ConnectionPoolPG.getInstance().getConnection()) {
                try (Statement statement =
connection.createStatement()) {
                    statement.execute(query);
                }
            }
        }
    }
}
}
-----Original Message-----
From: Hannes Mühleisen [mailto:Hannes.Muehleisen@cwi.nl]
Sent: Sunday, July 19, 2015 4:47 AM
To: Communication channel for developers of the MonetDB suite.
Cc: Ying Zhang; Anu Raj Srivastava
Subject: Re: MonetDB causing disk space to fill up
On 19 Jul 2015, at 13:23, Hannes Mühleisen
<Hannes.Muehleisen@cwi.nlmailto:Hannes.Muehleisen@cwi.nl>
wrote:
Hi,
On 16 Jul 2015, at 23:11, Ying Zhang <Y.Zhang@cwi.nlmailto:Y.Zhang@cwi.nl> wrote:
On Jul 13, 2015, at 22:32, Anu Raj Srivastava
<Anu.Srivastava@rms.commailto:Anu.Srivastava@rms.com> wrote:
Hey Jennie,
I did upgrade to latest version but I am facing the same issue.
Further debugging into the issue it seems like it is
ConnectionPool issue. When I use new connection for each query
MonetDB seems to be able to clean up the resources
Ok, MonetDB is doing what it¹s supposed to do.
but if I use ConnectionPool for some reason DiskSpace keep
filling up.
If a connection is kept open, I¹d expect MonetDB to be less eager
to clean up resources.
However, we generally recommend using a ConnectionPool, to avoid
too much overhead caused by making a new connection for every
query.  So my suggestion for now would be to keep using the
ConnectionPool, but try to find the reason why your disk is filled
up.
Do you have any idea why that could happen?
Hmmm, no.  We¹ve fixed quite some leaks in Jul2015...
Some more thinking:
- After how many iterations of repeatedly executing the queries is
your disk filled up?
- Can you please try to run your queries with mclient to observe
the behaviour of MonetDB (and disk usage)?
@Hannes: sorry to disturb you during holiday.  But if possible,
would you please have a look at this thread.  Does anything ring a
bell?
Thanks!
I tested this with ac3p0 connection pool (limited to 4 concurrent
connections) and repeating queries from 10 threads (SELECT
MIN(something) FROM Š). I was not able to observe any (!) increase
in storage footprint. So without a minimal reproducible example of
Java code + DB schema + sample data, it is hard to tell what is
going on. Is this running in auto commit? Using temporary tables?
Small follow-up: When forcing the allocation of a large intermediate
(SELECT MIN(something+1) FROM Š), additional storage space is indeed
claimed. The attached plot shows dbfarm size over time while 10
threads are running 1000 queries each using a 5-connection pool. You
can see how the amount of additional storage drops back to exactly
where it was once the pool shuts down at around 350s, and that there
is no accumulation of additional storage over the course of the pool
being active.
Hannes
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