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From Justin <thelonecabb...@gmail.com>
Subject out of memory every time
Date Mon, 03 Mar 2008 19:43:03 GMT
I'm indexing a large number of documents.

As a server I'm using the /solr/example/start.jar

No matter how much memory I allocate it fails around 7200 documents.

I am committing every 100 docs, and optimizing every 300.

all of my xml's contain on doc, and can range in size from 2k to 700k.

when I restart the start.jar it again reports out of memory.


a sample document looks like this:
<?xml version="1.0" encoding="UTF-8"?>
<add>
 <doc>
  <field name="PK">1851</field>
  <field name="ft:genes.Symbol:1851">TRAJ20</field>
  <field name="ft:external_ids.SourceAccession:15531">12049</field>
  <field
name="ft:external_ids.SourceAccession:15532">ENSG00000211869</field>
  <field name="ft:external_ids.SourceAccession:15533">28735</field>
  <field name="ft:external_ids.SourceAccession:15534">HUgn28735</field>
  <field name="ft:external_ids.SourceAccession:15535">TRA_</field>
  <field name="ft:external_ids.SourceAccession:15536">TRAJ20</field>
  <field name="ft:external_ids.SourceAccession:15537">9953837</field>
  <field
name="ft:external_ids.SourceAccession:15538">ENSG00000211869</field>
  <field name="ft:aliases_and_descriptions.Value:9775">T cell receptor alpha
joining 20</field>
  <field name="ft:cytogenetic_locations.Cytoband:4909">14q11.2</field>
  <field name="ft:cytogenetic_locations.Cytoband:4910">14q11</field>
  <field name="ft:cytogenetic_locations.Cytoband:4911">14q11.2</field>
  <field name="ft:location_extras.ContigRefseq:11806">AE000662.1</field>
  <field name="ft:location_extras.ContigRefseq:11807">M94081.1</field>
  <field name="ft:location_extras.ContigRefseq:11808">CH471078.2</field>
  <field name="ft:location_extras.ContigRefseq:11809">NC_000014.7</field>
  <field name="ft:location_extras.ContigRefseq:11810">NT_026437.11</field>
  <field name="ft:location_extras.ContigRefseq:11811">NG_001332.2</field>
  <field name="ft:articles.SourceAccession:192767">8188290</field>
  <field name="ft:articles.Title:192767">The human T-cell receptor
TCRAC/TCRDC (C alpha/C delta) region: organization,sequence, and evolution
of 97.6 kb of DNA.</field>
  <field name="ft:authors.AuthorName:5909">Koop B.F.</field>
  <field name="ft:authors.AuthorName:6912">Rowen L.</field>
  <field name="ft:authors.AuthorName:6985">Hood L.</field>
  <field name="ft:authors.AuthorName:17109">Wang K.</field>
  <field name="ft:authors.AuthorName:72700">Kuo C.L.</field>
  <field name="ft:authors.AuthorName:84285">Seto D.</field>
  <field name="ft:authors.AuthorName:166156">Lenstra J.A.</field>
  <field name="ft:authors.AuthorName:216734">Howard S.</field>
  <field name="ft:authors.AuthorName:285493">Shan W.</field>
  <field name="ft:authors.AuthorName:346559">Deshpande P.</field>
  <field name="ft:probesets.Name:6773">31311_at</field>
  <field name="ft:probesets.BinaryPattern:6773">000000000000</field>
</doc>
</add>


the schema is (in summary):
<fields>
   <field name="PK" type="sint" indexed="true" stored="true" required="true"
multiValued="false" omitNorms="true"/>
   <field name="text" type="text" indexed="true" stored="false"
multiValued="true"  omitNorms="true"/>

   <dynamicField name="ft:*"  type="string"    indexed="true"
stored="true"  omitNorms="true"/>
   <dynamicField name="st:*"  type="string"  indexed="true"  stored="true"
omitNorms="true"/>
</fields>


<uniqueKey>PK</uniqueKey>
<defaultSearchField>text</defaultSearchField>
<solrQueryParser defaultOperator="OR"/>

<copyField source="ft:*" dest="text"/>
<copyField source="st:*" dest="text"/>


and my conf is:
   <useCompoundFile>false</useCompoundFile>
    <mergeFactor>100</mergeFactor>
    <maxBufferedDocs>900</maxBufferedDocs>
    <maxMergeDocs>2147483647</maxMergeDocs>
    <maxFieldLength>10000</maxFieldLength>

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