Fix for https://github.com/openworm/org.geppetto/issues/267
Fix
set parents to nodes
Merge remote-tracking branch 'origin/development' into connections
populate visual groups for neuroml
Merge pull request #29 from openworm/connections

Connections
changes Map to HashMap
change replace to put for maps
changes to creationg of visual groups for neuroml visualization tree
ommitting couple channels, other updates
merge