mirror of
https://github.com/alanorth/cgspace-notes.git
synced 2024-11-22 22:55:04 +01:00
227 lines
8.8 KiB
HTML
227 lines
8.8 KiB
HTML
<!DOCTYPE html>
|
||
<html lang="en-us">
|
||
<head>
|
||
<meta charset="utf-8">
|
||
<meta name="description" content="">
|
||
<meta name="keywords" content="">
|
||
<meta name="author" content="Alan Orth">
|
||
<meta name="generator" content="Hugo 0.16-DEV" />
|
||
<meta name="viewport" content="width=device-width, initial-scale=1">
|
||
<link rel="stylesheet" href="/css/style.css" type="text/css">
|
||
<link rel="stylesheet" href="https://fonts.googleapis.com/css?family=Source+Code+Pro:400,700" type="text/css">
|
||
<link rel="alternate" href="/index.xml" type="application/rss+xml" title="CGSpace Notes">
|
||
<title>December, 2015 - CGSpace Notes</title>
|
||
</head>
|
||
<body>
|
||
|
||
<header>
|
||
<div class="container">
|
||
<a class="path" href="/cgspace-notes/">[CGSpace Notes]</a>
|
||
<span class="caret"># _</span>
|
||
</div>
|
||
</header>
|
||
|
||
<div class="container">
|
||
|
||
|
||
<main role="main" class="article">
|
||
|
||
<article class="single" itemscope itemtype="http://schema.org/BlogPosting">
|
||
<div class="meta">
|
||
|
||
<span class="key">published on</span>
|
||
<span class="val"><time itemprop="datePublished" datetime="2015-12-02">December 02, 2015</time></span>
|
||
|
||
|
||
|
||
<br>
|
||
<span class="key">tags:</span>
|
||
<span class="val">
|
||
|
||
<a href="/cgspace-notes/tags/notes">notes</a>
|
||
|
||
</span>
|
||
|
||
</div>
|
||
<h1 class="headline" itemprop="headline">December, 2015</h1>
|
||
<section class="body" itemprop="articleBody">
|
||
|
||
|
||
<h2 id="2015-12-02:012a628feed6d64ae1151cbd6151ccd6">2015-12-02</h2>
|
||
|
||
<ul>
|
||
<li>Replace <code>lzop</code> with <code>xz</code> in log compression cron jobs on DSpace Test—it uses less space:</li>
|
||
</ul>
|
||
|
||
<pre><code># cd /home/dspacetest.cgiar.org/log
|
||
# ls -lh dspace.log.2015-11-18*
|
||
-rw-rw-r-- 1 tomcat7 tomcat7 2.0M Nov 18 23:59 dspace.log.2015-11-18
|
||
-rw-rw-r-- 1 tomcat7 tomcat7 387K Nov 18 23:59 dspace.log.2015-11-18.lzo
|
||
-rw-rw-r-- 1 tomcat7 tomcat7 169K Nov 18 23:59 dspace.log.2015-11-18.xz
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>I had used lrzip once, but it needs more memory and is harder to use as it requires the lrztar wrapper</li>
|
||
<li>Need to remember to go check if everything is ok in a few days and then change CGSpace</li>
|
||
<li>CGSpace went down again (due to PostgreSQL idle connections of course)</li>
|
||
<li>Current database settings for DSpace are <code>db.maxconnections = 30</code> and <code>db.maxidle = 8</code>, yet idle connections are exceeding this:</li>
|
||
</ul>
|
||
|
||
<pre><code>$ psql -c 'SELECT * from pg_stat_activity;' | grep cgspace | grep -c idle
|
||
39
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>I restarted PostgreSQL and Tomcat and it’s back</li>
|
||
<li>On a related note of why CGSpace is so slow, I decided to finally try the <code>pgtune</code> script to tune the postgres settings:</li>
|
||
</ul>
|
||
|
||
<pre><code># apt-get install pgtune
|
||
# pgtune -i /etc/postgresql/9.3/main/postgresql.conf -o postgresql.conf-pgtune
|
||
# mv /etc/postgresql/9.3/main/postgresql.conf /etc/postgresql/9.3/main/postgresql.conf.orig
|
||
# mv postgresql.conf-pgtune /etc/postgresql/9.3/main/postgresql.conf
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>It introduced the following new settings:</li>
|
||
</ul>
|
||
|
||
<pre><code>default_statistics_target = 50
|
||
maintenance_work_mem = 480MB
|
||
constraint_exclusion = on
|
||
checkpoint_completion_target = 0.9
|
||
effective_cache_size = 5632MB
|
||
work_mem = 48MB
|
||
wal_buffers = 8MB
|
||
checkpoint_segments = 16
|
||
shared_buffers = 1920MB
|
||
max_connections = 80
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>Now I need to go read PostgreSQL docs about these options, and watch memory settings in munin etc</li>
|
||
<li>For what it’s worth, now the REST API should be faster (because of these PostgreSQL tweaks):</li>
|
||
</ul>
|
||
|
||
<pre><code>$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.474
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
2.141
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.685
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.995
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.786
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>Last week it was an average of 8 seconds… now this is <sup>1</sup>⁄<sub>4</sub> of that</li>
|
||
<li>CCAFS noticed that one of their items displays only the Atmire statlets: <a href="https://cgspace.cgiar.org/handle/10568/42445">https://cgspace.cgiar.org/handle/10568/42445</a></li>
|
||
</ul>
|
||
|
||
<p><img src="../images/2015/12/ccafs-item-no-metadata.png" alt="CCAFS item" /></p>
|
||
|
||
<ul>
|
||
<li>The authorizations for the item are all public READ, and I don’t see any errors in dspace.log when browsing that item</li>
|
||
<li>I filed a ticket on Atmire’s issue tracker</li>
|
||
<li>I also filed a ticket on Atmire’s issue tracker for the PostgreSQL stuff</li>
|
||
</ul>
|
||
|
||
<h2 id="2015-12-03:012a628feed6d64ae1151cbd6151ccd6">2015-12-03</h2>
|
||
|
||
<ul>
|
||
<li>CGSpace very slow, and monitoring emailing me to say its down, even though I can load the page (very slowly)</li>
|
||
<li>Idle postgres connections look like this (with no change in DSpace db settings lately):</li>
|
||
</ul>
|
||
|
||
<pre><code>$ psql -c 'SELECT * from pg_stat_activity;' | grep cgspace | grep -c idle
|
||
29
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>I restarted Tomcat and postgres…</li>
|
||
<li>Atmire commented that we should raise the JVM heap size by ~500M, so it is now <code>-Xms3584m -Xmx3584m</code></li>
|
||
<li>We weren’t out of heap yet, but it’s probably fair enough that the DSpace 5 upgrade (and new Atmire modules) requires more memory so it’s ok</li>
|
||
<li>A possible side effect is that I see that the REST API is twice as fast for the request above now:</li>
|
||
</ul>
|
||
|
||
<pre><code>$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.368
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.968
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
1.006
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.849
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.806
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.854
|
||
</code></pre>
|
||
|
||
<h2 id="2015-12-05:012a628feed6d64ae1151cbd6151ccd6">2015-12-05</h2>
|
||
|
||
<ul>
|
||
<li>CGSpace has been up and down all day and REST API is completely unresponsive</li>
|
||
<li>PostgreSQL idle connections are currently:</li>
|
||
</ul>
|
||
|
||
<pre><code>postgres@linode01:~$ psql -c 'SELECT * from pg_stat_activity;' | grep cgspace | grep -c idle
|
||
28
|
||
</code></pre>
|
||
|
||
<ul>
|
||
<li>I have reverted all the pgtune tweaks from the other day, as they didn’t fix the stability issues, so I’d rather not have them introducing more variables into the equation</li>
|
||
<li>The PostgreSQL stats from Munin all point to something database-related with the DSpace 5 upgrade around mid–late November</li>
|
||
</ul>
|
||
|
||
<p><img src="../images/2015/12/postgres_bgwriter-year.png" alt="PostgreSQL bgwriter (year)" />
|
||
<img src="../images/2015/12/postgres_cache_cgspace-year.png" alt="PostgreSQL cache (year)" />
|
||
<img src="../images/2015/12/postgres_locks_cgspace-year.png" alt="PostgreSQL locks (year)" />
|
||
<img src="../images/2015/12/postgres_scans_cgspace-year.png" alt="PostgreSQL scans (year)" /></p>
|
||
|
||
<h2 id="2015-12-07:012a628feed6d64ae1151cbd6151ccd6">2015-12-07</h2>
|
||
|
||
<ul>
|
||
<li>Atmire sent <a href="https://github.com/ilri/DSpace/pull/161">some fixes</a> to DSpace’s REST API code that was leaving contexts open (causing the slow performance and database issues)</li>
|
||
<li>After deploying the fix to CGSpace the REST API is consistently faster:</li>
|
||
</ul>
|
||
|
||
<pre><code>$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.675
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.599
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.588
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.566
|
||
$ curl -o /dev/null -s -w %{time_total}\\n https://cgspace.cgiar.org/rest/handle/10568/32802?expand=all
|
||
0.497
|
||
</code></pre>
|
||
|
||
<h2 id="2015-12-08:012a628feed6d64ae1151cbd6151ccd6">2015-12-08</h2>
|
||
|
||
<ul>
|
||
<li>Switch CGSpace log compression cron jobs from using lzop to xz—the compression isn’t as good, but it’s much faster and causes less IO/CPU load</li>
|
||
<li>Since we figured out (and fixed) the cause of the performance issue, I reverted Google Bot’s crawl rate to the “Let Google optimize” setting</li>
|
||
</ul>
|
||
|
||
</section>
|
||
</article>
|
||
|
||
</main>
|
||
|
||
|
||
</div>
|
||
|
||
<footer>
|
||
<div class="container">
|
||
<span class="copyright">© 2015 CGSpace Notes - <a rel="license" href="http://creativecommons.org/licenses/by/4.0/">CC BY 4.0</a></span>
|
||
</div>
|
||
</footer>
|
||
|
||
</body>
|
||
</html>
|
||
|