def test_bedpostx2():
filelist, outdir, cwd = create_files_in_directory()
bpx = fsl.BEDPOSTX()
# make sure command gets called
yield assert_equal, bpx.cmd, 'bedpostx'
# test raising error with mandatory args absent
yield assert_raises, ValueError, bpx.run
# .inputs based parameters setting
bpx2 = fsl.BEDPOSTX()
bpx2.inputs.mask = example_data('mask.nii')
bpx2.inputs.dwi = example_data('diffusion.nii')
bpx2.inputs.bvals = example_data('bvals')
bpx2.inputs.bvecs = example_data('bvecs')
bpx2.inputs.fibres = 2
bpx2.inputs.weight = 0.3
bpx2.inputs.burn_period = 200
bpx2.inputs.jumps = 500
bpx2.inputs.sampling = 20
actualCmdline = sorted(bpx2.cmdline.split())
cmd = 'bedpostx bedpostx -b 200 -n 2 -j 500 -s 20 -w 0.30'
desiredCmdline = sorted(cmd.split())
yield assert_equal, actualCmdline, desiredCmdline
def test_bedpostx1():
input_map = dict(args = dict(argstr='%s',),
bpx_directory = dict(argstr='%s',),
burn_period = dict(argstr='-b %d',),
bvals = dict(mandatory=True,),
bvecs = dict(mandatory=True,),
dwi = dict(mandatory=True,),
environ = dict(),
fibres = dict(argstr='-n %d',),
jumps = dict(argstr='-j %d',),
mask = dict(mandatory=True,),
output_type = dict(),
sampling = dict(argstr='-s %d',),
weight = dict(argstr='-w %.2f',),
)
instance = fsl.BEDPOSTX()
for key, metadata in input_map.items():
for metakey, value in metadata.items():
yield assert_equal, getattr(instance.inputs.traits()[key], metakey), value