Merge pull request #277 from katyhuff/br_fixes

Minor Batch Reactor Fixes
First documentation of sample input.
Formatting fixes for gh rendering
First draft of complete doc for 1 example.
Some final changes on first draft of sample documentation.
Fix typo in heading
stopped this from trying to run the non-xml files
Merge branch 'gonuke-document_inputs' into develop
updated for CYCLUS_ROOT_DIR
fixed endif clause
fixed indentation
Merge pull request #279 from scopatz/cycroot

updated for CYCLUS_ROOT_DIR