fixed treatment of filename when namesource is not a file
test also for parameter based source name for output file
fixing command filename tests
Simplify input of a single LUT. Closes #726
Fixes for SPM ApplyTransform
Updated test for SPM ApplyTransform
fix: updated prov model
fix: updated prov model to allow QNames
Revert some changes that broke file gathering, added more efficient
commandline creation.
fix: update location attribute
Added new workflow for doing recon all on skullstripped data.
Fixed doctest
added missing new lines
Merge pull request #834 from chrisfilo/fix/dcm2nii

Revert some changes that broke file gathering, added more efficient commandline creation.
fixes
Fixed the fieldcoeff issue and also removed the linear transforms that are added to the warps. These are unnecessry
doc: few minor  typos
Partial revert of imoports in nipype namespace
Fix tests that fail with new interface import api
Merge pull request #843 from mwaskom/revert_interface_import

Partial revert of imoports in nipype namespace