enh: allow commandline interfaces to control terminal output
doc: added change note
fix: doctest for commandline
fix: failing flirt test
fix: ensure that commandline calls force terminal output if stdout or stderr is required
PEP8
DOctest fix
changelog
Merge pull request #503 from satra/enh/stdout2

enh: allow commandline interfaces to control terminal output
fix: change type of loops,speedup and between loops so its compatible with changes in the nipy code
Merge pull request #511 from akeshavan/nipy_realign

fix: change type of loops,speedup and between loops so its compatible wi...
simple crop interfaces that keeps oblique matrices