Changes between Version 17 and Version 18 of GIR3.2_NetKarma


Ignore:
Timestamp:
11/07/11 12:31:35 (8 years ago)
Author:
lnevers@bbn.com
Comment:

--

Legend:

Unmodified
Added
Removed
Modified
  • GIR3.2_NetKarma

    v17 v18  
    2121= !NetKarma How-to =
    2222
    23 Using the instructions in the NetKarma Version 2.5 [http://pti.iu.edu/sites/default/files/netkarma_version2.5_quick_start_guide.pdf Quick Start Guide], proceeded to download the only prerequisite tool the third-party Cytoscape visualization tool, which is available at: http://www.cytoscape.org. The download is one file a script named ''Cytoscape_2_8_2_unix.sh''.  Running the Cytoscape script which brings up an installation wizard.
     23Using the instructions in the NetKarma Version 2.5 [http://pti.iu.edu/sites/default/files/netkarma_version2.5_quick_start_guide.pdf Quick Start Guide], proceeded to download the only prerequisite tool the third-party Cytoscape visualization tool, which is available at: http://www.cytoscape.org. The download is one file a script named ''Cytoscape_2_8_2_unix.sh''.  Ran the Cytoscape script which brings up an installation wizard.. need to capture here.
    2424
     25== !NetKarma Gush Adaptor How-to ==
    2526Proceeded to unpack the NetKarma [http://pti.iu.edu/sites/default/files/karma-adaptor-2.5.tar.gz GUSH Adaptor Version 2.5]. Found additional prerequisites for ANT, JDK and RabbitMQ server.  For RabbitMQ used the instructions found the [http://www.rabbitmq.com/debian.html#apt Debian APT repository] page.
    2627
     
    9192Looking into the rulefile problem.
    9293
     94== !NetKarma GMOC Adaptor How-to ==
     95
     96Unpacked the package and compiled, note ant and JDK are prerequisites:
     97{{{
     98$ tar xvzf netkarmagmocadaptor-1.0.0.tar.gz
     99$ cd GMOCAdaptor/
     100$ ant create.jar
     101Buildfile: build.xml
     102
     103init:
     104
     105wsdl2java:
     106     [java] Retrieving document at '/home/lnevers/netkarma/rc3/GMOCAdaptor/config/KarmaService.wsdl'.
     107     [java] Retrieving schema at 'karma_query_schema.xsd', relative to 'file:/home/lnevers/netkarma/rc3/GMOCAdaptor/config/KarmaService.wsdl'.
     108     [java] Retrieving schema at 'rdf.xsd', relative to 'file:/home/lnevers/netkarma/rc3/GMOCAdaptor/config/karma_query_schema.xsd'.
     109     [java] Retrieving schema at 'karma_ingest_type_schema.xsd', relative to 'file:/home/lnevers/netkarma/rc3/GMOCAdaptor/config/karma_query_schema.xsd'.
     110     [java] Retrieving schema at 'opm.1_1.xsd', relative to 'file:/home/lnevers/netkarma/rc3/GMOCAdaptor/config/karma_query_schema.xsd'.
     111     [java] Retrieving schema at 'karma_ingest_type_schema.xsd', relative to 'file:/home/lnevers/netkarma/rc3/GMOCAdaptor/config/KarmaService.wsdl'.
     112     [java] log4j:WARN No appenders could be found for logger (org.apache.axis2.description.WSDL11ToAllAxisServicesBuilder).
     113     [java] log4j:WARN Please initialize the log4j system properly.
     114
     115jar:
     116    [javac] Compiling 624 source files to /home/lnevers/netkarma/rc3/GMOCAdaptor/client_gen/classes
     117    [javac] Note: Some input files use or override a deprecated API.
     118    [javac] Note: Recompile with -Xlint:deprecation for details.
     119    [javac] Note: Some input files use unchecked or unsafe operations.
     120    [javac] Note: Recompile with -Xlint:unchecked for details.
     121      [jar] Building jar: /home/lnevers/netkarma/rc3/GMOCAdaptor/dist/lib/client-stub-types.jar
     122
     123create.compile:
     124
     125create.jar:
     126
     127BUILD SUCCESSFUL
     128Total time: 10 seconds
     129}}}
     130
     131In order to configure the GMOCO Adaptor the file GMOC_config.txt, which expects the following to be defined:
     132{{{
     133#Properties for using GMOCAdaptor
     134#@author: Peng Chen (chenpeng@indiana.edu)
     135#Mon Jul 11 16:44:26 EDT 2011
     136url=URL of Mysql database
     137url_options=URL options for using SSL
     138dbName=name of GMOC database
     139driver=Mysql JDBC driver class
     140userName=username for logging into GMOC database
     141password=password for logging into GMOC database
     142serviceURL=URL of Karma axis2 webservice
     143}}}
     144
     145Requested account for access to http://gmoc.grnoc.iu.edu/ by sending email request to globalnoc@iu.edu.
     146
     147
     148 GMOC account information is needed.
    93149--------------
    94150{{{