[GUSDEV] standardizing plugin cmd line args

[Steve F. <sfi...@pc...>]

folks-

there is at least one set of command line args that are used in the 
majority of plugins, those that get the name and version of the 
externalDatabaseRelease to tag the new data with.

many plugins have different names for these args.  here are some:
   --externalDatabase     and    --externalDatabaseVersion
   --externalDb  and -- externalDbRls
etc.

i'm getting a little tired of having to deal w/ the inconsistency.

i propose that we move to a new convention (slowly but surely).   i 
propose that plugins be upgraded to this when we get a chance, and, that 
we do not provide backward compatibility.   it just means a simple 
change to any script or pipeline that calls the plugin.

I think we should have this as the standard argument:
   --externalDatabaseSpec "Genbank|1.0.0"

In other words, we introduce a standard representation of a database 
name and version of the form:
    name|version

The plugin superclass method $self->getExtDbRlsId() will come in two 
forms.   The first would be new.  The second is already supported:
   $self->getExtDbRlsId($externalDatabaseSpec)
   $self->getExtDbRlsId($externalDatabaseName, $externalDatabaseVersion)

The additional advantage of introducing the standard format of 
name|version is that some plugins take two or more extDbRls's on the 
command line, and for each one there needs to be parallel args, one for 
the name and one for the version.   thus, this will simplify many plugin 
args.
   
Unless there are objections, new plugins will use this standard, and old 
ones will be upgraded sooner or later.

steve