upgrade deps

.github/workflows/config.yml

@@ -176,6 +176,8 @@ jobs:
           df -h
       - name: Check out source repository
         uses: actions/checkout@v4
+        with:
+          fetch-depth: 0
       - name: Set up pdm
         uses: pdm-project/setup-pdm@v4
         with:

atom/atom.py

@@ -1099,8 +1099,7 @@ def stats(self, _vb: Int = -2, /):
                 duplicates = None
                 self._log(
                     "Unable to calculate the number of duplicate "
-                    "rows because a column is unhashable.",
-                    3,
+                    "rows because a column is unhashable.", 3,
                 )
 
             if not self.branch.X.empty:

docs_sources/dependencies.md

@@ -25,7 +25,7 @@ And operating systems:
 ATOM is built on top of several existing Python libraries. These
 packages are necessary for its correct functioning.
 
-* **[beartype](https://beartype.readthedocs.io/en/latest/)** (>=0.18.0)
+* **[beartype](https://beartype.readthedocs.io/en/latest/)** (>=0.18.5)
 * **[category-encoders](https://contrib.scikit-learn.org/categorical-encoding/index.html)** (>=2.6.3)
 * **[dill](https://pypi.org/project/dill/)** (>=0.3.6)
 * **[featuretools](https://www.featuretools.com/)** (>=1.28.0)

docs_sources/scripts/autorun.py

@@ -33,36 +33,6 @@
 cached_last_value = None
 
 
-class StreamOut:
-    """Override stdout to fetch the code's output."""
-
-    def __init__(self):
-        self.old = sys.stdout
-        self.stdout = StringIO()
-        sys.stdout = self.stdout
-
-    def read(self):
-        """Read the stringIO buffer."""
-        value = ""
-        if self.stdout is not None:
-            self.stdout.flush()
-            value = self.stdout.getvalue()
-            self.stdout = StringIO()
-            sys.stdout = self.stdout
-
-        return value
-
-    def __enter__(self):
-        """Enter the context manager."""
-        return self
-
-    def __exit__(self, type, value, traceback):
-        """Exit the context manager."""
-        sys.stdout = self.old
-        self.old = None
-        self.stdout = None
-
-
 def execute(src: str) -> tuple[list[list[str]], list[str]]:
     """Get the code with output.
 
@@ -133,7 +103,7 @@ def get_latest_file() -> str | None:
             # Get complete code block
             block = lines[node.lineno - 1: end_line]
 
-            if "# hide" not in line:
+            if not line.endswith("# hide"):
                 output[-1].extend([draw(code) for code in block])
 
             # Add filename parameter to plot call to save the figure
@@ -157,19 +127,20 @@ def get_latest_file() -> str | None:
 
             if code is None:
                 raise ValueError("Code block is incomplete.")
-            else:
-                try:
-                    # Capture anything sent to stdout
-                    with StreamOut() as stream:
-                        exec(code, ipy.locals)  # type: ignore[arg-type]
-
-                        if text := stream.read():
-                            # Omit plot's output
-                            if not text.startswith(("{'application/pdf'", "<pandas.io.formats")):
-                                output[-1].append(f"\n{text}")
-                except Exception:
-                    ipy.showtraceback()
-                    raise
+
+            sys.stdout = StringIO()
+            try:
+                exec(code, ipy.locals)  # type: ignore[arg-type]
+            except Exception:
+                ipy.showtraceback()
+                raise
+            finally:
+                if text := sys.stdout.getvalue():
+                    # Omit plot's output
+                    if not text.startswith(("{'application/pdf'", "<pandas.io.formats")):
+                        output[-1].append(f"\n{text[:-1]}")  # Remove last newline
+
+                sys.stdout = sys.__stdout__
 
             value = ipy.locals["__builtins__"].get("_")
             if cached_last_value is not value and isinstance(value, Styler):