Jkmarx/refactor provvis code (#2317)

* Remove analysis-launch module.

* Remove from unit test.

* Remove node-relationship module.

* Remove node-mapping module and add third party dependency to refinery.js.

* Clean up data-set-nav and remove references.

* Update unit tests.

* Remove select workflow module.

* Remove igv module.

* Fix typo ,

* Remove solr_table_view.

* Remove analysis view.

* Remove solr_facet view.

* Remove pivot matrix.

* Remove data_set_configurator.

* Remove IGV references.

* Remove the file browser one table and some unneccessary code.

* Remove unneeded code since there's only one view.

* Remove float thread code.

* Remove float thread dependencies.

* Remove matrix styling.

* Remove old help modals, not dealing with provvis.

* Remove tipsy.

* Remove tipsy depenency in angular.

* Add provvis tab.

* Remove node relationship model and references.

* Remove node_set model and references.

* Remove commented code which references old node sets.

* Remove node_set_manager reference.

* Remove node-set-manager references.

* Remove lingering merge tag.

* Add node set comments.

* Fix comment typo.

* Remove added dependency in wrong location and tracked.

* Fix height error.

* Revert data_set.html.

* Seperate out provvis module initialization.

* Move ctrls to own file.

* Move directives to own files.

* Remove inialization module, ctrl, & directives to own file.

* Add provvis module.

* Fix page redirect.

* Fix info-panel routing.

* Fix bug with panel groups redirect.

* Better solution to nav tab.

* Add padding to top of infobar.

* Add refinery-base class to btns.

* Remove modal for popover.

* Remove provenance view and template.

* Cosemetic changes.

* Prevent pre-generation from content.js when loading in data-set page.

* Add bootbox.

* Fix height issue.

* Fix missing closed tag.

* Fix outdent.

* Fix tabbing.

* Remove global dependency on bootbox.

* Remove bootstrap folder and use bower.

* Remove unneccessary reference.

* Remove old references to older versions of bootstrap.

* Revert commented script.

* Remove unused contacts view & template.

* Remove unused search page.

* Remove analyses & analysis views.

* Reintroduce missing text.

* Remove unused spinner library and related code.

* Remove fisheye reference not used anywhere.

* Grab analyses objects from within angular.

* Add files call.

* Update solrResponse with assayFiles.

* Update name to solrResponse.

* Refactor.

* Fix typo.

* Remove contents.js.

* Remove data set configuration no longer used.

* Remove other unused apis.

* Remove static solr code and unused api modules.

* Fix merge conflict.

* Remove unused window objs.

* Fix merge conflict errors.

* Remove backbone.

* Remove unused references.

* Remove static/select2 folder.

* Adjust canvas height.

* Remove jquery-cookie, unused.

* Remove jquery-ui, unused.

* Remove static jquery as it's provided via bower.

* Remove unused underscroll, provided via bower.

* Remove reference to deleted library.

* Convert timeline-view to a component.

* Add doi-view change to component.

* Add change-layers-view.

* Fix unit test.

* Fix typo.

* Fix typo.

* Add main ctrl unit test.

* Fix unit test typo.

* Fix bug related to finding length of obj.

* Fix spacing of file loading

* Move provvis init to a service.

* Add unit test.

* Split up render into services.

* Add dagre library to angular.

* Fix typo string.

* Add box service.

* Add dagre service.

* Add drag service.

* Add color-coding service.

* Add draw doi service.

* Add links service.

* Add draw timeline service.

* Add handle collapse service.

* Update link.

* Add highlightservice.

* Create doi service.

* Add node selection service.

* Update parts service.

* Add tooltip service and update helper service.

* Update render service.

* Add toolbar service.

* Update parts service.

* Add show service.

* Add update layer service.

* Add update analysis service.

* Add update render service.

* Move provvisDecl to service.

* Update unit test.

* Convert layout service.

* Convert motif service.

* Remove old js references.

* Fix typo.

* Slim down update render.

* Fix circular import.

* Revert constructor functions.

* Fix parts reference.

* Fix typo with function call.

* Fix referencing.

* Fix missing node.

* Fix typo to grab dom event.

* Fixed typo in variable name.

* Fix incorrect function call.

* Fix typo with method call.

* Fix bug due to typo.

* Comment out unit test.

* Remove unused provvis.js

* Add some existing unit tests.

* Add additional service unit tests.

* Flesh out parts service unit test.

* Add baseNode tests.

* Add more unit tests for other constructors.

* Fix failing unit tests.

* Check wrappers are returned.

* More unit tests for doi components.

* Generate provvis graph on tab ctrl load.

* Remove temp ctrl.

* Fix blopping loading icon.

* Fix styling.

* Fix button selection.

* Fix typo.

* Fix link typo.

* Remove unused ctrl.

* Fix missing paramater in function call.

* Update link.

* Minor unit test updates.