rectanglepy 0.4.5__tar.gz → 0.4.7__tar.gz

{rectanglepy-0.4.5 → rectanglepy-0.4.7}/.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 0.4.5
+current_version = 0.4.7
 tag = True
 commit = True
 

{rectanglepy-0.4.5 → rectanglepy-0.4.7}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: rectanglepy
-Version: 0.4.5
+Version: 0.4.7
 Summary: Hierarchical deconvolution of bulk  transcriptomics
 Project-URL: Documentation, https://rectanglepy.readthedocs.io/
 Project-URL: Source, https://github.com/ComputationalBiomedicineGroup/Rectangle
@@ -28,7 +28,6 @@ License: MIT License
         LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
         OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
         SOFTWARE.
-License-File: LICENSE
 Requires-Python: >=3.10
 Requires-Dist: anndata<0.10.9,>=0.8.0
 Requires-Dist: loguru

{rectanglepy-0.4.5 → rectanglepy-0.4.7}/pyproject.toml

@@ -4,7 +4,7 @@ requires = ["hatchling"]
 
 [project]
 name = "rectanglepy"
-version = "0.4.5"
+version = "0.4.7"
 description = "Hierarchical deconvolution of bulk  transcriptomics"
 readme = "README.md"
 requires-python = ">=3.10"

{rectanglepy-0.4.5 → rectanglepy-0.4.7}/src/rectanglepy/rectangle.py

@@ -112,7 +112,11 @@ def rectangle_consens(
         cell_fractions = deconvolution(signatures, bulks, correct_mrna_bias, n_cpus)
         estimations.append(cell_fractions)
         if "Unknown" in cell_fractions.columns:
-            unkn_gene_corr = _genes_linked_to_unkn(bulks, cell_fractions["Unknown"])
+            try:
+                unkn_gene_corr = _genes_linked_to_unkn(bulks, cell_fractions["Unknown"])
+            except Exception as e:
+                logger.warning(f"Could not calculate gene correlation with unknown cell type: {e}")
+                unkn_gene_corr = None
         else:
             unkn_gene_corr = None
         signatures.unkn_gene_corr = unkn_gene_corr
@@ -211,7 +215,7 @@ def load_tutorial_data() -> tuple[pd.DataFrame, pd.DataFrame, pd.DataFrame]:
 
 
 def _genes_linked_to_unkn(bulks: DataFrame, unkn_fractions: pd.Series):
-    genes = bulks.columns
+    genes = bulks.columns.drop_duplicates()
     corr = []
     for gene in genes:
         corr.append(unkn_fractions.corr(bulks.loc[:, gene]))