Commit f277d18

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Merge pull request #3611 from manuegrx/master

[FIX] MRTrix3 change inputs position for MRTransform

2 parents c46a957 + 0d0d3ff commit f277d18Copy full SHA for f277d18

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2 files changed

-18

lines changed

nipype/interfaces/mrtrix3
- tests
  - test_auto_MRTransform.py
- utils.py

2 files changed

-18

lines changed

`‎nipype/interfaces/mrtrix3/tests/test_auto_MRTransform.py‎`

Lines changed: 0 additions & 9 deletions

Original file line number	Diff line number	Diff line change
`@@ -12,15 +12,13 @@ def test_MRTransform_inputs():`
`12`	`12`	`),`
`13`	`13`	`debug=dict(`
`14`	`14`	`argstr="-debug",`
`15`		`- position=1,`
`16`	`15`	`),`
`17`	`16`	`environ=dict(`
`18`	`17`	`nohash=True,`
`19`	`18`	`usedefault=True,`
`20`	`19`	`),`
`21`	`20`	`flip_x=dict(`
`22`	`21`	`argstr="-flipx",`
`23`		`- position=1,`
`24`	`22`	`),`
`25`	`23`	`grad_file=dict(`
`26`	`24`	`argstr="-grad %s",`
`@@ -45,12 +43,10 @@ def test_MRTransform_inputs():`
`45`	`43`	`),`
`46`	`44`	`invert=dict(`
`47`	`45`	`argstr="-inverse",`
`48`		`- position=1,`
`49`	`46`	`),`
`50`	`47`	`linear_transform=dict(`
`51`	`48`	`argstr="-linear %s",`
`52`	`49`	`extensions=None,`
`53`		`- position=1,`
`54`	`50`	`),`
`55`	`51`	`nthreads=dict(`
`56`	`52`	`argstr="-nthreads %d",`
`@@ -71,26 +67,21 @@ def test_MRTransform_inputs():`
`71`	`67`	`),`
`72`	`68`	`quiet=dict(`
`73`	`69`	`argstr="-quiet",`
`74`		`- position=1,`
`75`	`70`	`),`
`76`	`71`	`reference_image=dict(`
`77`	`72`	`argstr="-reference %s",`
`78`	`73`	`extensions=None,`
`79`		`- position=1,`
`80`	`74`	`),`
`81`	`75`	`replace_transform=dict(`
`82`	`76`	`argstr="-replace",`
`83`		`- position=1,`
`84`	`77`	`),`
`85`	`78`	`template_image=dict(`
`86`	`79`	`argstr="-template %s",`
`87`	`80`	`extensions=None,`
`88`		`- position=1,`
`89`	`81`	`),`
`90`	`82`	`transformation_file=dict(`
`91`	`83`	`argstr="-transform %s",`
`92`	`84`	`extensions=None,`
`93`		`- position=1,`
`94`	`85`	`),`
`95`	`86`	`)`
`96`	`87`	`inputs = MRTransform.input_spec()`

`‎nipype/interfaces/mrtrix3/utils.py‎`

Lines changed: 1 addition & 9 deletions

Original file line number	Diff line number	Diff line change
`@@ -822,13 +822,11 @@ class MRTransformInputSpec(MRTrix3BaseInputSpec):`
`822`	`822`	`)`
`823`	`823`	`invert = traits.Bool(`
`824`	`824`	`argstr="-inverse",`
`825`		`- position=1,`
`826`	`825`	`desc="Invert the specified transform before using it",`
`827`	`826`	`)`
`828`	`827`	`linear_transform = File(`
`829`	`828`	`exists=True,`
`830`	`829`	`argstr="-linear %s",`
`831`		`- position=1,`
`832`	`830`	`desc=(`
`833`	`831`	`"Specify a linear transform to apply, in the form of a 3x4 or 4x4 ascii file. "`
`834`	`832`	`"Note the standard reverse convention is used, "`
`@@ -838,38 +836,32 @@ class MRTransformInputSpec(MRTrix3BaseInputSpec):`
`838`	`836`	`)`
`839`	`837`	`replace_transform = traits.Bool(`
`840`	`838`	`argstr="-replace",`
`841`		`- position=1,`
`842`	`839`	`desc="replace the current transform by that specified, rather than applying it to the current transform",`
`843`	`840`	`)`
`844`	`841`	`transformation_file = File(`
`845`	`842`	`exists=True,`
`846`	`843`	`argstr="-transform %s",`
`847`		`- position=1,`
`848`	`844`	`desc="The transform to apply, in the form of a 4x4 ascii file.",`
`849`	`845`	`)`
`850`	`846`	`template_image = File(`
`851`	`847`	`exists=True,`
`852`	`848`	`argstr="-template %s",`
`853`		`- position=1,`
`854`	`849`	`desc="Reslice the input image to match the specified template image.",`
`855`	`850`	`)`
`856`	`851`	`reference_image = File(`
`857`	`852`	`exists=True,`
`858`	`853`	`argstr="-reference %s",`
`859`		`- position=1,`
`860`	`854`	`desc="in case the transform supplied maps from the input image onto a reference image, use this option to specify the reference. Note that this implicitly sets the -replace option.",`
`861`	`855`	`)`
`862`	`856`	`flip_x = traits.Bool(`
`863`	`857`	`argstr="-flipx",`
`864`		`- position=1,`
`865`	`858`	`desc="assume the transform is supplied assuming a coordinate system with the x-axis reversed relative to the MRtrix convention (i.e. x increases from right to left). This is required to handle transform matrices produced by FSL's FLIRT command. This is only used in conjunction with the -reference option.",`
`866`	`859`	`)`
`867`	`860`	`quiet = traits.Bool(`
`868`	`861`	`argstr="-quiet",`
`869`		`- position=1,`
`870`	`862`	`desc="Do not display information messages or progress status.",`
`871`	`863`	`)`
`872`		`- debug = traits.Bool(argstr="-debug", position=1, desc="Display debugging messages.")`
	`864`	`+ debug = traits.Bool(argstr="-debug", desc="Display debugging messages.")`
`873`	`865`
`874`	`866`
`875`	`867`	`class MRTransformOutputSpec(TraitedSpec):`

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Commit f277d18

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2 files changed

`‎nipype/interfaces/mrtrix3/tests/test_auto_MRTransform.py‎`

`‎nipype/interfaces/mrtrix3/utils.py‎`

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