add get_all_allocations_for_path method
updated ur submodule to 22f91bc
add replace option for compare_ok
cleanup
builder is supposed to be called in functions not just once
add data_dir_ok
cleanup test
formalize file order: got, expected

- invert diff so it's relative to second/expected file
- rename vars to indicate expected
- place expected in correct position
refactor, no feature changes
ensure the display of alignment results includes the test name
updated docs on htseq