updated to use logger rather than cl-specific option parser
Merge branch 'death-march' of github.com:bipy/qcli into death-march
updates to get to the point where we can (at least partially) print help text
Merge branch 'death-march' of github.com:bipy/qcli into death-march

Conflicts:
	qcli/interface/cli.py
added beginning of filter_samples_from_otu_table script config file
updated to fix printing of command line output
first working version of basic filter samples from otu table command
updated to support no short name
added remaining ParameterConversions to fill out this command
added cl types
filled out the command to match qiime
Merge pull request #42 from gregcaporaso/death-march

first full (mostly) working version of filter samples from otu table