sty: run black across the whole project

Author: oesteban

dmriprep/workflows/dwi/eddy.py

@@ -36,7 +36,11 @@ def gen_eddy_textfiles(in_file, in_meta):
     from nipype.utils.filemanip import fname_presuffix
 
     # Generate output file name
-    out_acqparams = fname_presuffix(in_file, suffix="_acqparams.txt", use_ext=False,)
+    out_acqparams = fname_presuffix(
+        in_file,
+        suffix="_acqparams.txt",
+        use_ext=False,
+    )
 
     pe_dir = in_meta["PhaseEncodingDirection"]
     fsl_pe = ["0"] * 3
@@ -48,11 +52,13 @@ def gen_eddy_textfiles(in_file, in_meta):
             f"{' '.join(fsl_pe)} {get_trt(in_meta, in_file=in_file):0.7f}"
         )
     except ValueError:
-        Path(out_acqparams).write_text(
-            f"{' '.join(fsl_pe)} {0.05}"
-        )
+        Path(out_acqparams).write_text(f"{' '.join(fsl_pe)} {0.05}")
 
-    out_index = fname_presuffix(in_file, suffix="_index.txt", use_ext=False,)
+    out_index = fname_presuffix(
+        in_file,
+        suffix="_index.txt",
+        use_ext=False,
+    )
     Path(out_index).write_text(f"{' '.join(['1'] * nb.load(in_file).shape[3])}")
     return out_acqparams, out_index
 
@@ -81,24 +87,14 @@ def init_eddy_wf(debug=False, name="eddy_wf"):
 
     inputnode = pe.Node(
         niu.IdentityInterface(
-            fields=[
-                "dwi_file",
-                "metadata",
-                "dwi_mask",
-                "in_bvec",
-                "in_bval"
-            ]
+            fields=["dwi_file", "metadata", "dwi_mask", "in_bvec", "in_bval"]
         ),
         name="inputnode",
     )
 
     outputnode = pe.Node(
         niu.IdentityInterface(
-            fields=[
-                "out_rotated_bvecs",
-                "eddy_ref_image",
-                "out_eddy"
-            ]
+            fields=["out_rotated_bvecs", "eddy_ref_image", "out_eddy"]
         ),
         name="outputnode",
     )

docs/sphinxext/docscrape.py

@@ -13,9 +13,7 @@
 
 
 class Reader(object):
-    """A line-based string reader.
-
-    """
+    """A line-based string reader."""
 
     def __init__(self, data):
         """

docs/sphinxext/github.py

@@ -155,7 +155,7 @@ def ghcommit_role(name, rawtext, text, lineno, inliner, options={}, content=[]):
 
 def setup(app):
     """Install the plugin.
-    
+
     :param app: Sphinx application context.
     """
     app.info("Initializing GitHub plugin")

docs/tools/apigen.py

@@ -29,7 +29,7 @@
 
 
 class ApiDocWriter(object):
-    """ Class for automatic detection and parsing of API docs
+    """Class for automatic detection and parsing of API docs
     to Sphinx-parsable reST format"""
 
     # only separating first two levels
@@ -43,7 +43,7 @@ def __init__(
         module_skip_patterns=None,
         other_defines=True,
     ):
-        """ Initialize package for parsing
+        """Initialize package for parsing
 
         Parameters
         ----------
@@ -86,7 +86,7 @@ def get_package_name(self):
         return self._package_name
 
     def set_package_name(self, package_name):
-        """ Set package_name
+        """Set package_name
 
         >>> docwriter = ApiDocWriter('sphinx')
         >>> import sphinx
@@ -116,7 +116,7 @@ def _import(self, name):
         return mod
 
     def _get_object_name(self, line):
-        """ Get second token in line
+        """Get second token in line
         >>> docwriter = ApiDocWriter('sphinx')
         >>> docwriter._get_object_name("  def func():  ")
         'func'
@@ -131,7 +131,7 @@ def _get_object_name(self, line):
         return name.rstrip(":")
 
     def _uri2path(self, uri):
-        """ Convert uri to absolute filepath
+        """Convert uri to absolute filepath
 
         Parameters
         ----------
@@ -329,7 +329,7 @@ def generate_api_doc(self, uri):
         return head, body
 
     def _survives_exclude(self, matchstr, match_type):
-        """ Returns True if *matchstr* does not match patterns
+        """Returns True if *matchstr* does not match patterns
 
         ``self.package_name`` removed from front of string if present
 
@@ -370,7 +370,7 @@ def _survives_exclude(self, matchstr, match_type):
         return True
 
     def discover_modules(self):
-        """ Return module sequence discovered from ``self.package_name``
+        """Return module sequence discovered from ``self.package_name``
 
 
         Parameters