Several small fixes

• New custom-clean json files for babies.
• Fix for passing in --bandstop and --anat-only at the same time.
• Added a note about not all args being used in all stages.
• Limit # of threads used by ANTS.

Fix Setup to match matlab location; fix cleanup json to keep a file.

Merge pull request #15 from DCAN-Labs/develop

Keep MNINonLinear/xfms/acpc_dc2standard.nii.gz.

Synchronization of master, develop, and new release.

Some error fixes that didn't get synchronized before.

Error out when we don't have T2w data.

v0.0.9

Error out when we don't have T2w data.

Latest pipeline w new INFANT_MNI_T1_1mm_brain.nii.gz

v0.0.8

Get latest pipeline w new INFANT_MNI_T1_1mm_brain.nii.gz

Latest internal tools

v0.0.7

Get latest internal tools

Fix: newer internal tools required more recent mcr version

v0.0.6

Newer version of matlab needed for newer internal tools.

Get latest pipeline scripts

Merge pull request #10 from DCAN-Labs/develop

Develop

Specify which internal tools to use.

tags

* Be explicit about which internal tools version to pull.
* Get pipeline fix.

Fix: Use arg for aseg instead of hard-coded path.

v0.0.3

Get latest version of pipeline code.