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scverse · Feb 20, 2023 · 7bb60c0 · 7bb60c0
1 parent 91a94bf
commit 7bb60c0
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Showing 6 changed files with 1 addition and 6 deletions.
diff --git a/docs/source/conf.py b/docs/source/conf.py
@@ -79,6 +79,7 @@
     "use_repository_button": True,
 }
 
+
 # app setup hook
 def setup(app):
     app.add_config_value(

diff --git a/muon/_atac/plot.py b/muon/_atac/plot.py
@@ -257,7 +257,6 @@ def tss_enrichment(
     title: str = "TSS Enrichment",
     ax: Optional[Axes] = None,
 ):
-
     """
     Plot relative enrichment scores around a TSS.
 

diff --git a/muon/_atac/tools.py b/muon/_atac/tools.py
@@ -520,7 +520,6 @@ def scan_sequences(
 
 
 def get_sequences(data: Union[AnnData, MuData], bed: str, fasta_file: str, bed_file: str = None):
-
     try:
         import pybedtools
     except ImportError:
@@ -999,7 +998,6 @@ def _tss_pileup(
     for i in tqdm(
         range(features.shape[0]), desc="Fetching Regions..."
     ):  # iterate over features (e.g. genes)
-
         f = features.iloc[i]
         tss_start = f.Start - extend_upstream  # First position of the TSS region
         for fr in fragments.fetch(

diff --git a/muon/_core/io.py b/muon/_core/io.py
@@ -47,7 +47,6 @@ def read_10x_h5(filename: PathLike, extended: bool = True, *args, **kwargs) -> M
     # - attempt to locate fragments file
 
     if extended:
-
         # 1) Read interval field from the HDF5 file
         h5file = h5py.File(filename, "r")
 

diff --git a/tests/test_key_parsing.py b/tests/test_key_parsing.py
@@ -63,7 +63,6 @@ def mdata(request):
 
 
 class TestTraitParsing:
-
     # Observations
 
     def test_global_obs(self, mdata):

diff --git a/tests/test_muon_preproc.py b/tests/test_muon_preproc.py
@@ -22,7 +22,6 @@ def mdata():
 
 @pytest.mark.usefixtures("filepath_h5mu")
 class TestInPlaceFiltering:
-
     # Observations
 
     def test_filter_obs_adata(self, mdata, filepath_h5mu):
-Original file line number
+Diff line change
@@ Expand Up / @@ -257,7 +257,6 @@ def tss_enrichment( @@
         title: str = "TSS Enrichment",
         ax: Optional[Axes] = None,
     ):
         """
         Plot relative enrichment scores around a TSS.
@@ Expand Down @@
Original file line number	Diff line number	Diff line change
Expand Up		@@ -63,7 +63,6 @@ def mdata(request):


		class TestTraitParsing:

		# Observations

		def test_global_obs(self, mdata):
Expand Down