Tests

pipeline_test.sh is a convenient testing infrastructure.
In addition to the prerequisites mentioned in instructions,
it is depdendent on the following executables:

• dcm2niix
• fslroi
• bet
• antsRegistrationSyNQuick.sh

We recommend only putting the above executables in PATH without sourcing extenal environments
such as FSL's. For example--fslroi, bet could be put in PATH as:

export PATH=/path/to/fsl-6.0.7/share/fsl/bin:$PATH

In addition, you need to set:

export FSLDIR=/path/to/fsl-6.0.7/
export FSLOUTPUTTYPE=NIFTI_GZ

Moreover, you can put an exit statement after any line between 70-81 to run one or more tests:
https://github.com/pnlbwh/CNN-Diffusion-MRIBrain-Segmentation/blob/a81ef7e939714f88b67c0a6e84a0ff6db7004622/tests/pipeline_test.sh#L70-L81