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[ENH] Add ExtractedBrainN4 output to ANTs CorticalThickness interface #2784

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Merged
merged 5 commits into from
Nov 26, 2018

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satra
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@satra satra commented Nov 18, 2018

List of changes proposed in this PR (pull-request)

  • added new output option for antsCorticalThickness
  • fixed an input name for RealignUnwarp and generated auto test

Acknowledgment

  • (Mandatory) I acknowledge that this contribution will be available under the Apache 2 license.

* upstream/master:
  fix import of specs
  [MAINT] Outsource ``get_filecopy_info()`` from interfaces
  [MAINT] One less DeprecationWarning (configparser)
  [MAINT] Import only Sequence to avoid DeprecationWarning
  fixed
  [MAINT] DeprecationWarning: use ``HasTraits.trait_set`` instead
  [HOTFIX] Latest nilearn-0.5.0 breaks tests
  [MAINT] Stop using deprecated ``logger.warn()``
  [FIX] MapNodes failed when ``MultiProcPlugin`` passed by instance
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codecov-io commented Nov 25, 2018

Codecov Report

Merging #2784 into master will increase coverage by 0.69%.
The diff coverage is 66.66%.

Impacted file tree graph

@@            Coverage Diff             @@
##           master    #2784      +/-   ##
==========================================
+ Coverage    66.8%   67.49%   +0.69%     
==========================================
  Files         341      341              
  Lines       43295    43297       +2     
  Branches     5369     5369              
==========================================
+ Hits        28923    29224     +301     
+ Misses      13623    13371     -252     
+ Partials      749      702      -47
Flag Coverage Δ
#smoketests 50.64% <66.66%> (+2.44%) ⬆️
#unittests 64.89% <66.66%> (-0.04%) ⬇️
Impacted Files Coverage Δ
nipype/interfaces/spm/preprocess.py 57.03% <100%> (+4.14%) ⬆️
nipype/interfaces/ants/segmentation.py 73.73% <50%> (-0.09%) ⬇️
nipype/pipeline/plugins/legacymultiproc.py 60.5% <0%> (-4.5%) ⬇️
nipype/pipeline/engine/utils.py 82.14% <0%> (+0.11%) ⬆️
nipype/algorithms/misc.py 45.97% <0%> (+0.11%) ⬆️
nipype/pipeline/engine/nodes.py 84.52% <0%> (+0.33%) ⬆️
nipype/interfaces/fsl/utils.py 70.32% <0%> (+0.65%) ⬆️
nipype/interfaces/io.py 54.44% <0%> (+0.69%) ⬆️
nipype/pipeline/engine/workflows.py 79.15% <0%> (+1.18%) ⬆️
nipype/pipeline/plugins/multiproc.py 84.56% <0%> (+1.23%) ⬆️
... and 9 more

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@effigies effigies changed the title Enh/ants ct [ENH] Add ExtractedBrainN4 output to ANTs CorticalThickness interface Nov 26, 2018
@effigies effigies merged commit 8a813fe into nipy:master Nov 26, 2018
@effigies effigies added this to the 1.1.6 milestone Nov 26, 2018
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3 participants