Merge pull request #56 from galaxyproject/restructure_galaxy

Re-re-visit how Galaxy modules are imported.

Author: jmchilton

Makefile

@@ -50,7 +50,7 @@ docs:
 	rm -f docs/planemo.rst
 	rm -f docs/modules.rst
 	sphinx-apidoc -o docs/ planemo
-	sphinx-apidoc -o docs/ galaxy
+	sphinx-apidoc -o docs/ planemo_ext
 	python scripts/commands_to_rst.py
 	$(MAKE) -C docs clean
 	$(MAKE) -C docs html
@@ -63,4 +63,4 @@ release: clean
 dist: clean
 	python setup.py sdist
 	python setup.py bdist_wheel
-	ls -l dist
+	ls -l dist