added docopt instead of argparse.
replaced argparse with docopt
Remove unncessary functions and imports

Removed from globals.py:

* import generate as g (I'm not even sure what this was doing or where it was referenced)
* The get_settings_file def, which is now in meTypeset.py
Add docopt.py

This decreases external dependencies and also ensures we can work against a particular stable version.

The license is compatible so shouldn't be a problem.
Cleanup and fixes

* Added print_message_and_exit function as my environment couldn't find it.
* Added import docx2tei as this is how we find the settings path (via docx2tei.__file__)
reference tokenize fixed, ToDo: recognize of fir word after ref can be use as ID, otherwise an autonumeric will be required
ignore of Rodrigo testfolder
Remove diff marker
updated basic and sectionheader tests to python script (experimental)
added first commit of metadata merge
Error :
java -classpath "/home/withanage/software/meTypeset/runtime/xml-resolver-1.1.jar:/home/withanage/software/meTypeset/runtime/saxon9.jar" -Dxml.catalog.files=/home/withanage/software/meTypeset/runtime/catalog.xml net.sf.saxon.Transform -x org.apache.xml.resolver.tools.ResolvingXMLReader -y org.apache.xml.resolver.tools.ResolvingXMLReader -r org.apache.xml.resolver.tools.CatalogResolver -o 001/nlm/001.xml 001/nlm/out.xml /home/withanage/software/meTypeset/metadata/metadata.xsl matadataFile=/home/withanage/software/meTypeset/metadata/metadataSample.xml
Recoverable error on line 20 of file:/home/withanage/software/meTypeset/metadata/metadata.xsl:
  FODC0005: java.io.FileNotFoundException:
  /home/withanage/software/meTypeset/metadata/metadata.xml (No such file or directory)
[bugfix] metadata manipultation
[bugfix] delete temporary nlm file
Fix to make metadata run
Flatten all headers
[classifer]
basic functions for classifier
1. search and replace a tag
2. add a order and a uuid to the tag
[bug-fix] disable default manipulation in the output
[bug-fix] disable default manipulation example
[feature]sting replace for a xml file.  user replace a tag using a list of tags e.g.
 	search_tag = 'p'
        replace_tag = ['div','sec']
        text = self.replace(text,search_tag,*replace_tag)
[Scripts] Alex's scripts
[Front matter parser for presentation]