<html><head><meta http-equiv="Content-Type" content="text/html charset=windows-1252"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">Hi Santiago<div><br></div><div>This is likely to need ALA folks, but since they are asleep, this might give you some ideas to explore before they come online.</div><div><br></div><div>I’ve logged the issue with a proposed fix: </div><div> <a href="https://github.com/AtlasOfLivingAustralia/ala-name-matching/issues/4">https://github.com/AtlasOfLivingAustralia/ala-name-matching/issues/4</a> </div><div><br></div><div>What it fails on though is that it is getting NULL names. Perhaps you can modify your input checklist to not have null names ever?</div><div><br></div><div>You might for example use this kind of SQL or similar for whatever you are using to generate the names list:</div><div><br></div><div>SELECT</div><div> kingdom, phylum, class, order, family, genus, </div><div> COALESCE (name, genus, family, order, class, phylum, kingdom) AS scientificName</div><div>FROM ...</div><div><br></div><div>The COALESCE function will then set the name to be the first non NULL value.</div><div><br></div><div>I tried to build the project the fix myself, but “mvn:assembly:single” did not produce me a fat jar, and the project read me doesn’t tell me how they did it… sorry.</div><div><br></div><div>I hope this helps,</div><div>Tim</div><div><br></div><div><br></div><div><br><div><div>On 04 Sep 2014, at 14:50, Santiago Martinez de la Riva <<a href="mailto:sama@gbif.es">sama@gbif.es</a>> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi all,<br><br><br>I'm trying to create our own name index. I'm following the steps of the wiki in GitHub: <a href="https://github.com/AtlasOfLivingAustralia/documentation/wiki/Creating-a-name-index">https://github.com/AtlasOfLivingAustralia/documentation/wiki/Creating-a-name-index</a><br><br>Our dwca has the same estructura that dwca-col-mammals, but the problem is that when I try to generate the name index with the command: sudo nameindexer -dwca /...<br><br>I get the next exception:<br><br>vagrant@ala:/data/lucene/sources/dwca-spe2000-plantae$ sudo nameindexer -dwca /data/lucene/sources/dwca-spe2000-plantae<br>2014-09-04 12:04:26,093 INFO : [DwcaNameIndexer] - Generating loading index: true<br>2014-09-04 12:04:26,094 INFO : [DwcaNameIndexer] - Generating searching index: true<br>2014-09-04 12:04:26,094 INFO : [DwcaNameIndexer] - Using the DwCA name file: /data/lucene/sources/dwca-spe2000-plantae<br>2014-09-04 12:04:26,094 INFO : [DwcaNameIndexer] - Using the default IRMNG name file: /data/lucene/sources/IRMNG_DWC_HOMONYMS<br>2014-09-04 12:04:26,095 INFO : [DwcaNameIndexer] - Using the default common name file: /data/lucene/sources/col_vernacular.txt<br>2014-09-04 12:04:26,182 INFO : [DwcaNameIndexer] - Starting to create the temporary loading index.<br>2014-09-04 12:08:10,283 INFO : [DwcaNameIndexer] - Finished creating the temporary load index with 1070805 concepts<br>java.lang.NullPointerException<br> at au.org.ala.names.search.ALANameIndexer.isBlacklisted(ALANameIndexer.java:778)<br> at au.org.ala.names.search.ALANameIndexer.createALAIndexDocument(ALANameIndexer.java:788)<br> at au.org.ala.names.search.ALANameIndexer.createALAIndexDocument(ALANameIndexer.java:757)<br> at au.org.ala.names.search.DwcaNameIndexer.addIndex(DwcaNameIndexer.java:350)<br> at au.org.ala.names.search.DwcaNameIndexer.generateIndex(DwcaNameIndexer.java:281)<br> at au.org.ala.names.search.DwcaNameIndexer.create(DwcaNameIndexer.java:101)<br> at au.org.ala.names.search.DwcaNameIndexer.main(DwcaNameIndexer.java:527)<br><br>And when I try to search some name, I get this other one expection:<br><br>vagrant@ala:/data/lucene$ sudo nameindexer -testSearch "Nepeta Catarea"<br>Search for name<br>org.apache.lucene.index.IndexNotFoundException: no segments* file found in org.apache.lucene.store.NIOFSDirectory@/data/lucene/namematching/cb lockFactory=org.apache.lucene.store.NativeFSLockFactory@c22530: files: [write.lock]<br> at org.apache.lucene.index.SegmentInfos$FindSegmentsFile.run(SegmentInfos.java:741)<br> at org.apache.lucene.index.StandardDirectoryReader.open(StandardDirectoryReader.java:52)<br> at org.apache.lucene.index.DirectoryReader.open(DirectoryReader.java:65)<br> at au.org.ala.names.search.ALANameSearcher.<init>(ALANameSearcher.java:122)<br> at au.org.ala.names.search.DwcaNameIndexer.main(DwcaNameIndexer.java:465)<br><br><br>Because the nameindexer didn't generate the necessary files:<br><br>Help meee!! xD<br><br>Cheers,<br>SaMa<br><br><br>---------------------------------------------------------------------------------------<br>Santiago Martínez de la Riva<br>GBIF.ES, Unidad de Coordinación Tel. +34 91 4203017 x 273<br>Real Jardín Botánico - CSIC Fax +34 91 429 2405<br>Plaza de Murillo, 2 <a href="mailto:sama@gbif.es">sama@gbif.es</a><br>28014 Madrid, Spain <a href="http://www.gbif.es">www.gbif.es</a><br>_______________________________________________<br>Ala-portal mailing list<br><a href="mailto:Ala-portal@lists.gbif.org">Ala-portal@lists.gbif.org</a><br>http://lists.gbif.org/mailman/listinfo/ala-portal<br><br></blockquote></div><br></div></body></html>