Adds flake8 and yapf configuration in setup.cfg

setup.cfg

@@ -4,4 +4,14 @@ build-dir  = doc/build
 all_files  = 1
 
 [upload_sphinx]
-upload-dir = doc/build
+upload-dir = doc/build
+
+[flake8]
+# excludes all directories that don't contain Python code in them
+exclude = .git, __pycache__, bin, doc, docker-image, extension_examples, GUI, install, launchers, plugin_examples,
+          singularity-recipes, system_files, test_data
+max-line-length = 120
+
+[yapf]
+column_limit = 120
+based_on_style = pep8