Remove surface functions and interfaces (#890)

* Remove surface stuff.

* Fix style issues.

pyproject.toml

@@ -166,6 +166,7 @@ ignore = [
   "S602",  # TODO: Fix these
   "E402",  # TODO: Fix these
   "UP028",  # TODO: Fix these
+  "UP031",  # TODO: Fix these
   "BLE001",  # TODO: Fix these
 ]
 

qsiprep/config.py

@@ -151,7 +151,7 @@
     # Just get so analytics track one hit
     from contextlib import suppress
 
-    from requests import ConnectionError, ReadTimeout
+    from requests import ConnectionError, ReadTimeout  # noqa: A004
     from requests import get as _get_url
 
     with suppress((ConnectionError, ReadTimeout)):

qsiprep/interfaces/__init__.py

@@ -3,16 +3,9 @@
 from .bids import BIDSDataGrabber, BIDSInfo, DerivativesDataSink, DerivativesMaybeDataSink
 from .confounds import DMRISummary, GatherConfounds
 from .fmap import FieldToHz, FieldToRadS, Phasediff2Fieldmap, Phases2Fieldmap
-from .freesurfer import (
-    FSDetectInputs,
-    FSInjectBrainExtracted,
-    MakeMidthickness,
-    RefineBrainMask,
-    StructuralReference,
-)
+from .freesurfer import StructuralReference
 from .images import Conform, ConformDwi, IntraModalMerge, ValidateImage
 from .reports import AboutSummary, SubjectSummary
-from .surf import NormalizeSurf
 from .utils import AddTSVHeader, ConcatAffines
 
 __all__ = [
@@ -23,14 +16,10 @@
     'DMRISummary',
     'FieldToHz',
     'FieldToRadS',
-    'FSDetectInputs',
-    'FSInjectBrainExtracted',
     'GatherConfounds',
     'IntraModalMerge',
-    'MakeMidthickness',
     'Phasediff2Fieldmap',
     'Phases2Fieldmap',
-    'RefineBrainMask',
     'StructuralReference',
     'ValidateImage',
     'AboutSummary',
@@ -39,5 +28,4 @@
     'ConcatAffines',
     'DerivativesDataSink',
     'DerivativesMaybeDataSink',
-    'NormalizeSurf',
 ]