stdout/stderr streams go.

gives $FSLDEVDIR precedence, and also allows a global override.

stdout/stderr, and also redirects it to real stdout/stderr.

get image data as numpy array.

AtlasDescription.labels list.

    - not all atlases have a 2mm version
    - label atlas value does not correspond to its index in the
      AtlasDescription.labels list.

fixed a small documentation error as well
added a warning about missing if __name__ == '__main__' guard in script

The current intepreter is in sys.executable
Having the option to use a different intepreter seems like asking for
trouble (as an older interpreter might not be able to read the pickle
files)

If a logdir has been set that directory should be provided rather than the directory from which the job was submitted (which is what the logdir defaults to).

testing. Tweaks to various wrapper functions. fslmaths returns results dict,
rather than file name (for testing).

be standardised. Subsequent refactorings to _FileOrThing class, to make
sure that wrapper functions can be updated correctly. runfsl function
passes kwargs through to run.