= 2010-10-19 =
(skype with Morris)

== Presentation Friday ==
 * Talk went well
 * Was expecting more feedback
 * Kostavas asked on MOLGENIS

== Plan BBMRI ==
Theme 1: fill the database

First goal: get LifeLines features included in BBMRI biobank.

 * get BBMRI catalog running
 * import the Excel

{{{
In the generation of the bbmri.generate : 
The bbmri_ui.xml contained  a form 

<form name="Biobanks" sortby="Name" view="list" entity="Biobank" hide_fields="Investigation,__Type,observationTargetType,individuals">

which produced error at the hide fields. I removed them , and the database was created correctly . I'm guessing something was missing and it wasn't  working. Any ideas?

}}}
{{{
In import : error for '''keys are missing: OntologyTerm.[ontology_name, term]'''
}}}
{{{


}}}
{{{
problem ...resolved!
}}}
 * biobank is a kind of panel
 * Lifelines is one of the biobanks
 * Get from Joris is a Excel export

Next goal: import more biobank information which we get from our BBMRI-EU colleagues

Theme 2: start with 'semantic molgenis'

First goal: link MOLGENIS to external ontology

 * first enhance N3 file with external mapping
 * then test if we use that ontology in SPARQL query
 * if works: then update the MOLGENIS model + generator

Next step: investigate ontologies that should be linked

 * how about biobankers list of Marco Roos?
 * disease ontology?
 * material ontology?

Actions

 * Have Kostavas visit?
 * Connect to Pedro to investigate his 'semantic molgenis' work?
 * Connect to BBMRI-EU to request more data?

= Virtuoso Install continues....(from yesterday) =
 * DONE :
   * make sure all dependencies packages are available
   * set CFLAGS, export CFLAGS, ./configure ,make install, make check (One hour & 1 GB)
   * '''BUT : make check FAILED .  try again '''
     * '''there is a possibility of conflicting with '''OpenLink installation of Virtuoso. Try Uninstall with following steps :
       * !http://support.openlinksw.com/supportweb/MacFAQ#How do I uninstall !OpenLink components on Mac OS X?
       1. /Applications/!OpenLink Virtuoso/Virtuoso 6.2/bin/uninstall-virtuoso.pl
         * http://www.mactech.com/articles/mactech/Vol.18/18.09/PerlforMacOSX/index.html
         * cd /Applications/!OpenLink Virtuoso/Virtuoso 6.2/bin         * sudo perl uninstall-virtuoso.pl ...........OK !
 * TODO : RUN