Use latest organization.

I reorganized some of the config values in rna2d so I have to change them here.
Fix some jslint complaints.
Merge branch 'dev' of github.com:BGSU-RNA/RNA-3D-Hub into dev
Set default behavior to clicking.

This now starts in click mode instead of Select mode as before.
Reset width of plot when changing views.

This is caused by a bug in the library where we change the view each time we
draw. Since we do this the height changes and so we get the strange shrinking
behavior when switching views.
Update to new rna2d library
Add jquery plugin for rna2d
Update required javascript scripts
Latest rna2d lib
Add a newer bootstrap button library

The newer version has a radio group of buttons which I need for displaying the
views, or at least I need that functionality and I don't want to reimplement
it. I've included it as a separate file without replacing the old one since I
don't know what will break. However, this is messy and should be changed. I'll
keep this file since it makes things work until Anton and I decide what to do,
weather to update, reorganize, or reimplement functionality.
Add controls for each type of motif
Update controls to use newest library.

This fixes some bugs, most notably it actually displays 2D structures now.
However, there are still some problems.

1. The buttons that should toggle do not, for example consider the IL, HL, and
Click/Select buttons. This appears to be due to the fact that we are using an
outdated version of bootstrap-buttons.js. However, I am not going to upgrade
this yet. Without the newest version they do not show the expected toggle
behavior.

2. We cannot display 3D structures. This has something to do with a complaint
inside jmol.js, which I have no control over. The cause may be else where but I
haven't isolated it yet.

3. The circle is too small.

4. It does not start in airport view for those structures that have an airport
view.

Overall this commit is an improvment so I will add it.
Update to newer bootstrap buttons.

This uses the newest bootstrap button javascript library. This allows the
toggle buttons to work correctly and updates the text of the buttons as needed.
Remove unneeded library
Remove commented out code.
When we have an airport display it to start.

This will now start in the airport view whenever possible. When it is not we
instead display the circular view.
Add a well for related structures.

This well shows all related structures and provides links to their 2D diagrams.
This is a useful thing Anton has requested and this is a basic version of it.
There are some problems with it. Notably the size of the jmol window above and
it do not match up. In addition I think the 2D diagram is now stretched so I'll
have to fix that.
Align jmol and related structures.

We align the related structures block and the jmol div because it looks better.
Also, I've changed the title of related structures to say that is 2D we are
linked to. I also fix the styling so links are not bold in the block.
Remove unneeded <p> element.
Prevent jmol div from being hidden.

No need to hide as we always display it. In addition we remove the showing code
since we always want it present.