NewickIO: whitespace tweaks
NewickIO: parse confidence values less stringently.

Moved confidence parsing to a separate function. Don't require confidences to be
in [0.0, 1.0] and don't treat integer confidences as percentages (i.e. dividing
by 100). These choices are left in the comments for future consideration.
Merge branch 'master' of github.com:biopython/biopython
By default, read support values from node labels. Support values from branch lengths or comments are available as options.
Fix tutorial typo reported by Peter Thorpe
update PAML test result generator to support PAML 4.7
add PAML 4.7 test results
Replace deprecated unittest assert_ methods with assertTrue
update PAML test result generator to support PAML 4.7
Will add support for NeXML trees to Bio.Phylo. Updating _io.py.
Adding stub write/parse methods and NeXML parser generated by generateDS.py.
Adding basic NeXML tree parser.
Updating copyright statement.
Use otu instead of label for taxon label.
Adding comments.
Most of the NeXML writer has been implemented, with TODOs marking what still needs to be done.
NeXML parser/writer with basic support for NeXML nodes, edges, and otus is now functional.
Using ElementTree parser instead of generateDS.py parser so that output will be correct and make appropriate use of namespaces.
Use xml.dom.minidom to re-parse NeXML output and pretty print the result.
Add xsi:schemaLocation.