Fix flake8

NeurodataWithoutBorders · May 18, 2021 · 8ffda0d · 8ffda0d
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diff --git a/docs/gallery/domain/brain_observatory.py b/docs/gallery/domain/brain_observatory.py
@@ -142,9 +142,9 @@
 )
 
 ########################################
-# The Allen Institute does not include the raw imaging signal, as this data would make the file too large. Instead, these
-# data are  preprocessed, and a dF/F fluorescence signal extracted for each region-of-interest (ROI). To store the chain
-# of computations necessary to describe this data processing pipeline, pynwb provides a "processing module" with
+# The Allen Institute does not include the raw imaging signal, as this data would make the file too large. Instead,
+# these data are preprocessed, and a dF/F fluorescence signal extracted for each region-of-interest (ROI). To store the
+# chain of computations necessary to describe this data processing pipeline, pynwb provides a "processing module" with
 # interfaces that simplify and standardize the process of adding the steps in this provenance chain to the file:
 ophys_module = nwbfile.create_processing_module(
     name='ophys_module',

diff --git a/setup.cfg b/setup.cfg
@@ -20,18 +20,20 @@ exclude =
   src/pynwb/nwb-schema/
   docs/_build/,
   docs/source/conf.py
+  docs/source/tutorials/
   versioneer.py,
   src/pynwb/_version.py
   src/pynwb/_due.py
 per-file-ignores =
-  docs/gallery/*:E402,
-  docs/source/tutorials/*:E402
+  docs/gallery/*:E402,T001
   src/pynwb/io/__init__.py:F401
   src/pynwb/legacy/io/__init__.py:F401
   tests/integration/__init__.py:F401
   src/pynwb/testing/__init__.py:F401
+  src/pynwb/validate.py:T001
   setup.py:T001
   test.py:T001
+  scripts/*:T001
 
 [metadata]
 description-file = README.rst
diff --git a/src/pynwb/__init__.py b/src/pynwb/__init__.py
@@ -283,16 +283,16 @@ def export(self, **kwargs):
 from ._due import due, BibTeX  # noqa: E402
 due.cite(BibTeX("""
 @article {R{\"u}bel2021.03.13.435173,
-	author = {R{\"u}bel, Oliver and Tritt, Andrew and Ly, Ryan and Dichter, Benjamin K. and Ghosh, Satrajit and Niu, Lawrence and Soltesz, Ivan and Svoboda, Karel and Frank, Loren and Bouchard, Kristofer E.},
-	title = {The Neurodata Without Borders ecosystem for neurophysiological data science},
-	elocation-id = {2021.03.13.435173},
-	year = {2021},
-	doi = {10.1101/2021.03.13.435173},
-	publisher = {Cold Spring Harbor Laboratory},
-	abstract = {The neurophysiology of cells and tissues are monitored electrophysiologically and optically in diverse experiments and species, ranging from flies to humans. Understanding the brain requires integration of data across this diversity, and thus these data must be findable, accessible, interoperable, and reusable (FAIR). This requires a standard language for data and metadata that can coevolve with neuroscience. We describe design and implementation principles for a language for neurophysiology data. Our software (Neurodata Without Borders, NWB) defines and modularizes the interdependent, yet separable, components of a data language. We demonstrate NWB{\textquoteright}s impact through unified description of neurophysiology data across diverse modalities and species. NWB exists in an ecosystem which includes data management, analysis, visualization, and archive tools. Thus, the NWB data language enables reproduction, interchange, and reuse of diverse neurophysiology data. More broadly, the design principles of NWB are generally applicable to enhance discovery across biology through data FAIRness.Competing Interest StatementThe authors have declared no competing interest.},
-	URL = {https://www.biorxiv.org/content/early/2021/03/15/2021.03.13.435173},
-	eprint = {https://www.biorxiv.org/content/early/2021/03/15/2021.03.13.435173.full.pdf},
-	journal = {bioRxiv}
+    author = {R{\"u}bel, Oliver and Tritt, Andrew and Ly, Ryan and Dichter, Benjamin K. and Ghosh, Satrajit and Niu, Lawrence and Soltesz, Ivan and Svoboda, Karel and Frank, Loren and Bouchard, Kristofer E.},
+    title = {The Neurodata Without Borders ecosystem for neurophysiological data science},
+    elocation-id = {2021.03.13.435173},
+    year = {2021},
+    doi = {10.1101/2021.03.13.435173},
+    publisher = {Cold Spring Harbor Laboratory},
+    abstract = {The neurophysiology of cells and tissues are monitored electrophysiologically and optically in diverse experiments and species, ranging from flies to humans. Understanding the brain requires integration of data across this diversity, and thus these data must be findable, accessible, interoperable, and reusable (FAIR). This requires a standard language for data and metadata that can coevolve with neuroscience. We describe design and implementation principles for a language for neurophysiology data. Our software (Neurodata Without Borders, NWB) defines and modularizes the interdependent, yet separable, components of a data language. We demonstrate NWB{\textquoteright}s impact through unified description of neurophysiology data across diverse modalities and species. NWB exists in an ecosystem which includes data management, analysis, visualization, and archive tools. Thus, the NWB data language enables reproduction, interchange, and reuse of diverse neurophysiology data. More broadly, the design principles of NWB are generally applicable to enhance discovery across biology through data FAIRness.Competing Interest StatementThe authors have declared no competing interest.},
+    URL = {https://www.biorxiv.org/content/early/2021/03/15/2021.03.13.435173},
+    eprint = {https://www.biorxiv.org/content/early/2021/03/15/2021.03.13.435173.full.pdf},
+    journal = {bioRxiv}
 }
 """), description="The Neurodata Without Borders ecosystem for neurophysiological data science",  # noqa: E501
          path="pynwb/", version=__version__, cite_module=True)