wip
fix for the which[0]=1 option -> reslice 2..n images
Added FSL output type NIFTI to dmri mrtrix example
fix: avoid stopping of nipype-workflow caused by temporarily suspended LSF-jobs, And changed logfile of lsf-jobs from <lsf_jobid>.out to <scriptname>.log
3drefit does not accept -prefix option, since it operates on its own file
now it will work if you give the same out_file name as in_file name
however if you give no out filename it might not work if your
infile is a .nii or .nii.gz since afni will make briks
fix: testing to use numpy tester directly without extensive customization
fix: cleaned up nipype testing framework
fix: clean up fsl model tests.
fix: changed input name for 3dallineate
tst: added missing doctest file maps.nii
Merge pull request #564 from satra/fix/testing

FIX: updated testing so that nipype.test(doctests=True) works fine
tst: added doctest ellipses to fix afni tests
Merge pull request #566 from satra/fix/testing

tst: added doctest ellipses to fix afni tests
doc: update information on output options for CommandLine interfaces
fix the TCorrMap histogram options
fixe name_source traits
Merge branch 'cline_bug' into afni/tcorrmap

* cline_bug:
  fixe name_source traits
where does source_name come from? should fix a lot of gen_file in afni other than out_file
Merge branch 'cline_bug' into afni/tcorrmap

* cline_bug:
  where does source_name come from? should fix a lot of gen_file in afni other than out_file
fix tcorrmap for use of source_name, depends on recent fix cline_bug branch