FIX: Ensure replace() calls only alter the file basename

[mgxd]

This came up while generating a phasediff directory to test #292

[oesteban]

LGTM

[codecov-commenter]

Codecov Report

Base: 85.37% // Head: 87.28% // Increases project coverage by +1.91% 🎉

Coverage data is based on head (cd4401e) compared to base (1c1a469).
Patch coverage: 100.00% of modified lines in pull request are covered.

Additional details and impacted files

@@            Coverage Diff             @@
##           master     #293      +/-   ##
==========================================
+ Coverage   85.37%   87.28%   +1.91%     
==========================================
  Files          24       25       +1     
  Lines        1928     1982      +54     
  Branches      221      297      +76     
==========================================
+ Hits         1646     1730      +84     
+ Misses        246      219      -27     
+ Partials       36       33       -3     

Flag	Coverage Δ
travis	85.38% <100.00%> (+0.01%)	⬆️
unittests	87.18% <100.00%> (?)

Flags with carried forward coverage won't be shown. Click here to find out more.

Impacted Files	Coverage Δ
sdcflows/fieldmaps.py	99.41% <100.00%> (+<0.01%)	⬆️
sdcflows/conftest.py	0.00% <0.00%> (ø)
sdcflows/workflows/outputs.py	93.54% <0.00%> (+1.61%)	⬆️
sdcflows/interfaces/reportlets.py	89.83% <0.00%> (+1.69%)	⬆️
sdcflows/interfaces/bspline.py	88.00% <0.00%> (+5.33%)	⬆️
sdcflows/interfaces/fmap.py	87.35% <0.00%> (+14.94%)	⬆️
sdcflows/workflows/fit/syn.py	69.82% <0.00%> (+21.30%)	⬆️
sdcflows/utils/phasemanip.py	94.02% <0.00%> (+28.35%)	⬆️

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