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TEST: make specs
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‎nipype/interfaces/freesurfer/tests/test_auto_GLMFit.py

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@@ -89,10 +89,22 @@ def test_GLMFit_inputs():
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extensions=None,
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xor=["cortex"],
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),
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logan=dict(
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argstr="--logan %s %s %f...",
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),
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mask_file=dict(
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argstr="--mask %s",
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extensions=None,
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),
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mrtm1=dict(
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argstr="--mrtm1 %s %s...",
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),
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mrtm2=dict(
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argstr="--mrtm2 %s %s %f...",
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),
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nii_gz=dict(
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argstr="--nii.gz",
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),
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no_contrast_ok=dict(
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argstr="--no-contrasts-ok",
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),

‎nipype/interfaces/freesurfer/tests/test_auto_GTMPVC.py

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# AUTO-GENERATED by tools/checkspecs.py - DO NOT EDIT
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from ..petsurfer import GTMPVC
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def test_GTMPVC_inputs():
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input_map = dict(
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X=dict(
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argstr="--X",
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),
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X0=dict(
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argstr="--X0",
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),
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args=dict(
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argstr="%s",
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),
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auto_mask=dict(
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argstr="--auto-mask %f %f",
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),
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beta=dict(
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argstr="--beta",
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),
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color_table_file=dict(
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argstr="--ctab %s",
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extensions=None,
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xor=("color_table_file", "default_color_table", "gca_color_table"),
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),
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contrast=dict(
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argstr="--C %s...",
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),
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default_color_table=dict(
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argstr="--ctab-default",
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xor=("color_table_file", "default_color_table", "gca_color_table"),
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),
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default_seg_merge=dict(
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argstr="--default-seg-merge",
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),
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environ=dict(
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nohash=True,
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usedefault=True,
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),
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frame=dict(
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argstr="--frame %i",
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),
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in_file=dict(
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argstr="--i %s",
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copyfile=False,
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extensions=None,
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mandatory=True,
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),
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km_hb=dict(
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argstr="--km-hb %s...",
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),
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km_ref=dict(
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argstr="--km-ref %s...",
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),
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lat=dict(
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argstr="--lat",
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),
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mask_file=dict(
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argstr="--mask %s",
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extensions=None,
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),
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merge_cblum_wm_gyri=dict(
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argstr="--merge-cblum-wm-gyri",
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),
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merge_hypos=dict(
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argstr="--merge-hypos",
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),
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mg=dict(
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argstr="--id %s...",
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),
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mg_ref_cerebral_wm=dict(
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argstr="--mg-ref-cerebral-wm",
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),
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mg_ref_lobes_wm=dict(
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argstr="--mg-ref-lobes-wm",
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),
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mgx=dict(
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argstr="--mgx %f",
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),
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no_reduce_fov=dict(
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argstr="--no-reduce-fov",
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),
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no_rescale=dict(
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argstr="--no-rescale",
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),
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no_tfe=dict(
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argstr="--no-tfe",
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),
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opt=dict(
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argstr="--threads %i",
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),
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opt_brain=dict(
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argstr="--opt-brain",
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),
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opt_seg_merge=dict(
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argstr="--opt-seg-merge",
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),
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opt_tol=dict(
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argstr="--opt-tol %f %f %f",
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),
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psf=dict(
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argstr="--psf %f",
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),
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psf_col=dict(
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argstr="--psf-col %f",
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),
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psf_row=dict(
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argstr="--psf-row %f",
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),
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psf_slice=dict(
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argstr="--psf-slice %f",
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),
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pvc_dir=dict(
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argstr="--o %s",
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genfile=True,
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),
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rbv=dict(
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argstr="--rbv",
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),
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rbv_res=dict(
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argstr="--rbv-res %f",
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),
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reduce_fox_eqodd=dict(
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argstr="--reduce-fox-eqodd",
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),
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reg_file=dict(
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argstr="--reg %s",
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extensions=None,
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mandatory=True,
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),
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reg_identity=dict(
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argstr="--regheader",
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),
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regheader=dict(
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argstr="--regheader",
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),
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replace=dict(
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argstr="--replace %i %i",
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),
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rescale=dict(
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argstr="--rescale %s...",
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),
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save_eres=dict(
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argstr="--save-eres",
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),
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save_input=dict(
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argstr="--save-input",
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),
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save_yhat=dict(
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argstr="--save-yhat",
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),
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save_yhat0=dict(
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argstr="--save_yhat0",
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),
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save_yhat_full_fov=dict(
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argstr="--save_yhat_full_fov",
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),
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save_yhat_with_noise=dict(
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argstr="--ss %i %i",
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),
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scale_refval=dict(
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argstr="--scale-refval %f",
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),
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segmentation=dict(
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argstr="--seg %s",
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extensions=None,
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mandatory=True,
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),
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segpvfres=dict(
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argstr="--segpvfres %f",
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),
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ss=dict(
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argstr="--ss %f %f %f",
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),
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subjects_dir=dict(),
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threads=dict(
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argstr="--threads %i",
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),
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tt_reduce=dict(
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argstr="--tt-reduce",
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),
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tt_update=dict(
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argstr="--tt-update",
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),
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y=dict(
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argstr="--y",
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),
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)
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inputs = GTMPVC.input_spec()
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for key, metadata in list(input_map.items()):
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for metakey, value in list(metadata.items()):
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assert getattr(inputs.traits()[key], metakey) == value
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def test_GTMPVC_outputs():
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output_map = dict(
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gtm_file=dict(
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extensions=None,
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),
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gtm_stats=dict(
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extensions=None,
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),
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hb_dat=dict(
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extensions=None,
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),
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hb_nifti=dict(
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extensions=None,
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),
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input_file=dict(
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extensions=None,
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),
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mgx_ctxgm=dict(
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extensions=None,
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),
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mgx_gm=dict(
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extensions=None,
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),
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mgx_subctxgm=dict(
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extensions=None,
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),
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nopvc_file=dict(
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extensions=None,
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),
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opt_params=dict(
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extensions=None,
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),
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pvc_dir=dict(),
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rbv=dict(
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extensions=None,
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),
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ref_file=dict(
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extensions=None,
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),
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reg_pet2anat=dict(
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extensions=None,
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),
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yhat=dict(
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extensions=None,
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),
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yhat0=dict(
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extensions=None,
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),
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yhat_full_fov=dict(
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extensions=None,
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),
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yhat_with_noise=dict(
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extensions=None,
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),
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)
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outputs = GTMPVC.output_spec()
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for key, metadata in list(output_map.items()):
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for metakey, value in list(metadata.items()):
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assert getattr(outputs.traits()[key], metakey) == value

‎nipype/interfaces/freesurfer/tests/test_auto_GTMSeg.py

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# AUTO-GENERATED by tools/checkspecs.py - DO NOT EDIT
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from ..petsurfer import GTMSeg
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def test_GTMSeg_inputs():
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input_map = dict(
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args=dict(
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argstr="%s",
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),
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ctab=dict(
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argstr="--ctab %s",
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extensions=None,
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),
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ctx_annot=dict(
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argstr="--ctx-annot %s %i %i",
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),
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dmax=dict(
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argstr="--dmax %f",
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),
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environ=dict(
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nohash=True,
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usedefault=True,
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),
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gtm_file=dict(
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argstr="--o %s",
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extensions=None,
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),
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head=dict(
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argstr="--head %s",
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),
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keep_cc=dict(
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argstr="--keep-cc",
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),
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keep_hypo=dict(
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argstr="--keep-hypo",
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),
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no_pons=dict(
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argstr="--no-pons",
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),
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no_seg_stats=dict(
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argstr="--no-seg-stats",
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),
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no_vermis=dict(
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argstr="--no-vermis",
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),
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output_usf=dict(
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argstr="--output-usf %i",
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),
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subject_id=dict(
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argstr="--s %s",
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mandatory=True,
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),
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subjects_dir=dict(),
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subseg_cblum_wm=dict(
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argstr="--subseg-cblum-wm",
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),
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subsegwm=dict(
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argstr="--subsegwm",
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),
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usf=dict(
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argstr="--usf %i",
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),
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wm_annot=dict(
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argstr="--wm-annot %s %i %i",
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),
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xcerseg=dict(
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argstr="--xcerseg",
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),
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)
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inputs = GTMSeg.input_spec()
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for key, metadata in list(input_map.items()):
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for metakey, value in list(metadata.items()):
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assert getattr(inputs.traits()[key], metakey) == value
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def test_GTMSeg_outputs():
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output_map = dict(
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gtm_file=dict(
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extensions=None,
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),
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)
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outputs = GTMSeg.output_spec()
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for key, metadata in list(output_map.items()):
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for metakey, value in list(metadata.items()):
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assert getattr(outputs.traits()[key], metakey) == value

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