Integrate new rdf-toolkit option to remove NamedIndividual assertions into gist workflow

[rjyounes]

rdf-toolkit provides a new option to suppress named individual assertions. These are added by Protege and we would like to eliminate them from gist. The option is:

-sni,--suppress-named-individuals       suppresses all instances of owl:NamedIndividual

Integrating this option into our workflow involves:

• Download the new version of rdf-toolkit into the tools directory
• Update serialize action in bundle.yaml
• Update serialize shell script

I'm also going to move all the serializer files into a subdirectory tools/serializer.

[rjyounes]

In progress, waiting for EDM Council to release the change and distribute a new jar file.

[rjyounes]

EDM Council has released a new version 1.14.1, but I still cannot get it to work and have sent test files to them. See rdf-toolkit issue #28.

[rjyounes]

@uscholdm Do you want to give it a shot to see if you can get it to work? Maybe I'm doing something wrong. Download their latest version and run it with option sni.

[Jamie-SA]

@stevenchalem as the release manager has offered to help look into this with some help from a more experienced person.

[rjyounes]

I've already made some progress with this so I'll continue with it. The issue so far is that EDM Council released a version that is supposed to remove the named individuals but so far hasn't worked. I can consult with Steve to see if he can give it a try, as maybe I've missed something.

[rjyounes]

EDM Council has released a new version that they believe fixes the problem. I will do some testing and hopefully be able to close this issue out. @stevenchalem I think I'm all set with this one. I'll let you know if I could use some help.