Update the code to generate the variation tracks menu and update the way to generate the private tracks.
restore code to handle read coverage data
rejig rendering of resequencing view to allow implicit and confirmed read coverage to be displayed differently
restore read coverage track on transcript population image view
add comment explaining removal of uc() from araround sequence retrieval
remove accidentally included old code
Fixed intermediate tree display for ncRNAtrees
The "njtree" mode is the same as "ncbi_taxon"
LastZ self-alignments don't always have the "ucsc" source
Merge pull request #62 from emepyc/master

Fixed intermediate tree display for ncRNAtrees
Unwanted log outputs
Merge pull request #63 from muffato/newick_formats

Update the newick formats for gene trees
Style improvements for component buttons
Allow component buttons code to be reused

method 'buttons' added to Component, so any inheriting class can override this method to return a list of required buttons that should go above the actual Component content
method 'content_buttons' added to Component (not used in sub classes, but can be overridden in plugins to customise these buttons)
export related stuff moved to TextSequence
blast stuff moved to tools plugins
Export stuff for TextSequence

buttons method added to TextSequence to serve for all child classes
export_type replace with export_options, and can be used to specify multiple options instead of just type (like caption, params)
export_type method changed to export_options

new Package to Package->new
Use hub bigwig signal range.
Stop using deprecated methods.
Use coltab method to render variants.
SIFT/PolyPHEN CSS better for small screens.