SingleCellExperiment 0.4.2__tar.gz → 0.4.3__tar.gz

{SingleCellExperiment-0.4.2 → SingleCellExperiment-0.4.3}/.pre-commit-config.yaml

@@ -33,7 +33,7 @@ repos:
 
 - repo: https://github.com/astral-sh/ruff-pre-commit
   # Ruff version.
-  rev: v0.1.11
+  rev: v0.1.14
   hooks:
     - id: ruff
       args: [--fix, --exit-non-zero-on-fix]

{SingleCellExperiment-0.4.2/src/SingleCellExperiment.egg-info → SingleCellExperiment-0.4.3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: SingleCellExperiment
-Version: 0.4.2
+Version: 0.4.3
 Summary: Container class for single-cell experiments
 Home-page: https://github.com/BiocPy/SingleCellExperiment
 Author: jkanche

{SingleCellExperiment-0.4.2 → SingleCellExperiment-0.4.3/src/SingleCellExperiment.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: SingleCellExperiment
-Version: 0.4.2
+Version: 0.4.3
 Summary: Container class for single-cell experiments
 Home-page: https://github.com/BiocPy/SingleCellExperiment
 Author: jkanche

{SingleCellExperiment-0.4.2 → SingleCellExperiment-0.4.3}/src/singlecellexperiment/SingleCellExperiment.py

@@ -490,7 +490,7 @@ class SingleCellExperiment(RangedSummarizedExperiment):
             if dimension < 0:
                 raise IndexError("Index cannot be negative.")
 
-            if dimension > len(self.assay_names):
+            if dimension > len(self.reduced_dim_names):
                 raise IndexError("Index greater than the number of reduced dimensions.")
 
             return self._reduced_dims[self.reduced_dim_names[dimension]]
@@ -680,15 +680,19 @@ class SingleCellExperiment(RangedSummarizedExperiment):
             if name < 0:
                 raise IndexError("Index cannot be negative.")
 
-            if name > len(self.assay_names):
-                raise IndexError("Index greater than the number of reduced dimensions.")
+            if name > len(self.alternative_experiment_names):
+                raise IndexError(
+                    "Index greater than the number of alternative experiments."
+                )
 
-            return self.alternative_experiments[self.alternative_experiment_names[name]]
+            return self._alternative_experiments[
+                self.alternative_experiment_names[name]
+            ]
         elif isinstance(name, str):
-            if name not in self.reduced_dim:
-                raise AttributeError(f"Reduced dimension: {name} does not exist.")
+            if name not in self._alternative_experiments:
+                raise AttributeError(f"Alternative experiment: {name} does not exist.")
 
-            return self.alternative_experiments[name]
+            return self._alternative_experiments[name]
 
         raise TypeError(f"'name' must be a string or integer, provided '{type(name)}'.")
 
@@ -917,7 +921,7 @@ class SingleCellExperiment(RangedSummarizedExperiment):
 
         new_row_ranges = None
         if slicer.row_indices != slice(None):
-            new_row_ranges = self.row_ranges[slicer.row_indices]
+            new_row_ranges = self._row_ranges[slicer.row_indices]
 
         new_reduced_dims = {}
         for rdim, rmat in self._reduced_dims.items():