<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class="">Hi Sukie,<div class=""><br class=""></div><div class="">That’s odd. I suggest then to remove all traces of your existing sparqler:</div><div class=""><br class=""></div><div class="">- [eagle-i-home]/eaglei/sparqler</div><div class="">- tomcat/webapps/sparqler</div><div class=""><br class=""></div><div class="">And then try installing the sparqler from scratch.</div><div class=""><br class=""></div><div class="">As of version 3.1.1 (<a href="https://open.med.harvard.edu/wiki/display/eaglei/3.1.1+Release+Notes#id-3.1.1ReleaseNotes-SPARQLer" class="">https://open.med.harvard.edu/wiki/display/eaglei/3.1.1+Release+Notes#id-3.1.1ReleaseNotes-SPARQLer</a>), we’ve simplified the sparqler a little bit by removing the use of the timestamp file. We are now maintaining the last synchronized time in memory.</div><div class=""><br class=""></div><div class="">Could you give that a try?</div><div class=""><br class=""></div><div class="">Thanks,</div><div class="">Sophia</div><div class=""><br class=""></div><div class=""><div><blockquote type="cite" class=""><div class="">On Apr 1, 2015, at 2:32 AM, Sukdith Punjasthitkul <<a href="mailto:Sukdith.Punjasthitkul@dartmouth.edu" class="">Sukdith.Punjasthitkul@dartmouth.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class="">Hi Sophia, <br class=""><br class="">RE: ontology browser link fix, sounds good. <br class=""><br class="">RE: SPARQLer, we're not running a cron job for SPARQL endpoint. My understanding was that an update summary was outputted to eagle-i-sparqler.last-sync-date.properties, which is currently not the case. Also, I've been unsuccessful in performing a manual synchronization using synchronize-sparqler.sh. <br class=""><br class="">--sukie--<br class=""><br class=""><br class=""><br class=""><blockquote type="cite" class="">On Mar 31, 2015, at 12:09 PM, Cheng, Sophia <<a href="mailto:Sophia_Cheng@hms.harvard.edu" class="">Sophia_Cheng@hms.harvard.edu</a>> wrote:<br class=""><br class="">Hi Sukie,<br class=""><br class="">We are aware of the broken ontology browser link. That is currently being fixed. When it is, a restart of the node should pull in the correct link information. We’ll let you know when that’s ready.<br class=""><br class="">Regarding the public sparqler, we think you may have an out dated cron job hanging around. In a much earlier iteration of the public SPARQL endpoint, the installation instructions included setting up a crontab to perform the synchronization. We no longer need this, the synchronization is now handled by the public SPARQLer itself. (Old documentation here: <a href="https://open.med.harvard.edu/wiki/pages/viewpage.action?pageId=10190875" class="">https://open.med.harvard.edu/wiki/pages/viewpage.action?pageId=10190875</a>)<br class=""><br class="">Removing the cron job and then restarting should do the trick.<br class=""><br class="">Let us know if that isn’t the case.<br class=""><br class="">Thanks!<br class="">-Sophia<br class=""><br class=""><br class=""><blockquote type="cite" class="">On Mar 31, 2015, at 10:34 AM, Sukdith Punjasthitkul <<a href="mailto:Sukdith.Punjasthitkul@dartmouth.edu" class="">Sukdith.Punjasthitkul@dartmouth.edu</a>> wrote:<br class=""><br class="">We just updated to version 3.4.2 and noticed that in SWEET, the Ontology Browser link is broken. <br class="">It currently points to:<br class=""><br class=""><a href="https://dartmouth.eagle-i.net:8443/sweet/default_value/model/" class="">https://dartmouth.eagle-i.net:8443/sweet/default_value/model/</a><br class=""><br class="">I'm getting a 404 Error: "The requested resource (/sweet/default_value/model/) is not available."<br class=""><br class="">We are also running into issues trying to synchronize the public sparqler. Running synchronize-sparqler.sh resulted in the following error: <br class=""><br class="">Error: Main method not found in class org.eaglei.repository.sparqler.SynchronizerCommand, please define the main method as:<br class=""> public static void main(String[] args)<br class=""><br class="">I updated the sparqler by turning off Tomcat, deleting the .war and sparqler/ file from $CATALINA_HOME/webapps/, copying over sparqler.war file from repo/webapps/, and then starting Tomcat up. I did not recreate the Sparqler admin or finish-install steps. Does updating sparqler require rebuilding the repo users as well?<br class=""><br class="">--sukie--<br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class=""><br class=""></blockquote><br class=""></blockquote><br class=""></div></blockquote></div><br class=""></div></body></html>