Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

[pre-commit.ci] pre-commit autoupdate #446

Closed
wants to merge 2 commits into from
Closed

[pre-commit.ci] pre-commit autoupdate #446

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
1cf186d
[pre-commit.ci] pre-commit autoupdate
pre-commit-ci[bot] Aug 14, 2023
0742b1a
[pre-commit.ci] auto fixes from pre-commit.com hooks
pre-commit-ci[bot] Aug 14, 2023
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 2 additions & 2 deletions .pre-commit-config.yaml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -15,7 +15,7 @@ repos:
hooks:
- id: blacken-docs
- repo: https://github.com/pre-commit/mirrors-prettier
rev: v3.0.0
rev: v3.0.1
hooks:
- id: prettier
# Newer versions of node don't work on systems that have an older version of GLIBC
Expand All @@ -26,7 +26,7 @@ repos:
language_version: "17.9.1"
exclude: '^\.conda'
- repo: https://github.com/astral-sh/ruff-pre-commit
rev: v0.0.281
rev: v0.0.284
hooks:
- id: ruff
args: [--fix, --exit-non-zero-on-fix]
Expand Down
17 changes: 4 additions & 13 deletions src/scirpy/io/_tracerlib/core.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -368,26 +368,17 @@
if not self.has_D_segment:
V_segment = self.summary[0]
J_segment = self.summary[1]
segments_string = "V segment:\t{V_segment}\n" "J segment:\t{J_segment}\n".format(
V_segment=V_segment, J_segment=J_segment
)
segments_string = f"V segment:\t{V_segment}\n" f"J segment:\t{J_segment}\n"

Check warning on line 371 in src/scirpy/io/_tracerlib/core.py

View check run for this annotation

Codecov / codecov/patch

src/scirpy/io/_tracerlib/core.py#L371 

Added line #L371 was not covered by tests
else:
V_segment = self.summary[0]
D_segment = self.summary[1]
J_segment = self.summary[2]
segments_string = "V segment:\t{V_segment}\nD segment:\t{D_segment}\n" "J segment:\t{J_segment}\n".format(
V_segment=V_segment, D_segment=D_segment, J_segment=J_segment
)
segments_string = f"V segment:\t{V_segment}\nD segment:\t{D_segment}\n" f"J segment:\t{J_segment}\n"

Check warning on line 376 in src/scirpy/io/_tracerlib/core.py

View check run for this annotation

Codecov / codecov/patch

src/scirpy/io/_tracerlib/core.py#L376 

Added line #L376 was not covered by tests
summary_string += segments_string
summary_string += f"ID:\t{self.identifier}\n"
summary_string += (
"TPM:\t{TPM}\nProductive:\t{productive}\nStop codon:"
"\t{stop_codon}\nIn frame:\t{in_frame}\n".format(
TPM=self.TPM,
productive=self.productive,
stop_codon=self.stop_codon,
in_frame=self.in_frame,
)
f"TPM:\t{self.TPM}\nProductive:\t{self.productive}\nStop codon:"
f"\t{self.stop_codon}\nIn frame:\t{self.in_frame}\n"
)

# lowercase CDR3 sequences if non-productive
Expand Down
4 changes: 2 additions & 2 deletions src/scirpy/util/__init__.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -463,8 +463,8 @@ def deprecated(message):
def deprecated_decorator(func):
def deprecated_func(*args, **kwargs):
warnings.warn(
"{} is a deprecated function and will be removed in a "
"future version of scirpy. {}".format(func.__name__, message),
f"{func.__name__} is a deprecated function and will be removed in a "
f"future version of scirpy. {message}",
category=FutureWarning,
stacklevel=2,
)
Expand Down
Loading