masster 0.5.24__tar.gz → 0.5.25__tar.gz

{masster-0.5.24 → masster-0.5.25}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: masster
-Version: 0.5.24
+Version: 0.5.25
 Summary: Mass spectrometry data analysis package
 Project-URL: homepage, https://github.com/zamboni-lab/masster
 Project-URL: repository, https://github.com/zamboni-lab/masster
@@ -684,7 +684,6 @@ Requires-Dist: alpharaw>=0.4.8
 Requires-Dist: bokeh>=3.7.3
 Requires-Dist: cmap>=0.6.2
 Requires-Dist: datashader>=0.18.1
-Requires-Dist: get-gecko-driver>=1.4
 Requires-Dist: h5py>=3.14.0
 Requires-Dist: hdbscan>=0.8.40
 Requires-Dist: holoviews>=1.21.0

{masster-0.5.24 → masster-0.5.25}/pyproject.toml

@@ -1,7 +1,7 @@
 
 [project]
 name = "masster"
-version = "0.5.24"
+version = "0.5.25"
 description = "Mass spectrometry data analysis package"
 authors = [
     { name = "Zamboni Lab" }
@@ -47,7 +47,6 @@ dependencies = [
     "scikit-learn>=1.7.1",
     "umap-learn>=0.5.9.post2",
     "hdbscan>=0.8.40",
-    "get-gecko-driver>=1.4",
     "webdriver-manager>=4.0.2",
 ]
 

{masster-0.5.24 → masster-0.5.25}/src/masster/_version.py

@@ -1,7 +1,7 @@
 from __future__ import annotations
 
 
-__version__ = "0.5.24"
+__version__ = "0.5.25"
 
 
 def get_version():

{masster-0.5.24 → masster-0.5.25}/src/masster/study/export.py

@@ -1305,10 +1305,34 @@ def export_parquet(self, filename: str | None = None) -> None:
     if self.consensus_df is not None and not self.consensus_df.is_empty():
         consensus_file = f"{filename}_consensus.parquet"
         try:
-            self.consensus_df.write_parquet(consensus_file)
+            # Create a copy of consensus_df for parquet export
+            consensus_export_df = self.consensus_df.clone()
+            
+            # Handle Object dtype columns that can't be serialized to parquet
+            for col in consensus_export_df.columns:
+                if consensus_export_df[col].dtype == pl.Object:
+                    if col == "iso":
+                        # Convert numpy arrays to string representation for parquet compatibility
+                        # This preserves the data while making it parquet-serializable
+                        consensus_export_df = consensus_export_df.with_columns([
+                            pl.col("iso").map_elements(
+                                lambda x: str(x.tolist()) if x is not None else None,
+                                return_dtype=pl.String
+                            ).alias("iso")
+                        ])
+                    else:
+                        # For other Object columns, convert to string representation
+                        consensus_export_df = consensus_export_df.with_columns([
+                            pl.col(col).map_elements(
+                                lambda x: str(x) if x is not None else None,
+                                return_dtype=pl.String
+                            ).alias(col)
+                        ])
+            
+            consensus_export_df.write_parquet(consensus_file)
             exported_files.append(consensus_file)
             self.logger.debug(
-                f"Exported consensus to {consensus_file} ({self.consensus_df.height} rows)",
+                f"Exported consensus to {consensus_file} ({consensus_export_df.height} rows)",
             )
         except Exception as e:
             self.logger.error(f"Error writing consensus parquet file: {e}")

{masster-0.5.24 → masster-0.5.25}/uv.lock

@@ -147,18 +147,6 @@ wheels = [
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-name = "beautifulsoup4"
-version = "4.12.3"
-source = { registry = "https://pypi.org/simple" }
-dependencies = [
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-]
-sdist = { url = "https://files.pythonhosted.org/packages/b3/ca/824b1195773ce6166d388573fc106ce56d4a805bd7427b624e063596ec58/beautifulsoup4-4.12.3.tar.gz", hash = "sha256:74e3d1928edc070d21748185c46e3fb33490f22f52a3addee9aee0f4f7781051", size = 581181, upload-time = "2024-01-17T16:53:17.902Z" }
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-
 [[package]]
 name = "biopython"
 version = "1.85"
@@ -848,21 +836,6 @@ wheels = [
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-[[package]]
-name = "get-gecko-driver"
-version = "1.4"
-source = { registry = "https://pypi.org/simple" }
-dependencies = [
-    { name = "beautifulsoup4" },
-    { name = "requests" },
-    { name = "typer" },
-    { name = "urllib3" },
-]
-sdist = { url = "https://files.pythonhosted.org/packages/94/81/79dc8fce839822b53852ef543c529e170593fc42874162dfe2cd9bfb83a9/get_gecko_driver-1.4.tar.gz", hash = "sha256:0a023816dacb363200ae7546e7f75104cae5f22d7f2946cff600b13395c2c5aa", size = 10000, upload-time = "2025-01-24T02:23:28.734Z" }
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-]
-
 [[package]]
 name = "h11"
 version = "0.16.0"
@@ -1473,14 +1446,13 @@ wheels = [
 
 [[package]]
 name = "masster"
-version = "0.5.24"
+version = "0.5.25"
 source = { editable = "." }
 dependencies = [
     { name = "alpharaw" },
     { name = "bokeh" },
     { name = "cmap" },
     { name = "datashader" },
-    { name = "get-gecko-driver" },
     { name = "h5py" },
     { name = "hdbscan" },
     { name = "holoviews" },
@@ -1538,7 +1510,6 @@ requires-dist = [
     { name = "coverage", marker = "extra == 'test'", specifier = ">=7.0.0" },
     { name = "datashader", specifier = ">=0.18.1" },
     { name = "flake8", marker = "extra == 'dev'", specifier = ">=5.0.0" },
-    { name = "get-gecko-driver", specifier = ">=1.4" },
     { name = "h5py", specifier = ">=3.14.0" },
     { name = "hdbscan", specifier = ">=0.8.40" },
     { name = "holoviews", specifier = ">=1.21.0" },
@@ -3149,15 +3120,6 @@ wheels = [
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 ]
 
-[[package]]
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-version = "2.8"
-source = { registry = "https://pypi.org/simple" }
-sdist = { url = "https://files.pythonhosted.org/packages/6d/e6/21ccce3262dd4889aa3332e5a119a3491a95e8f60939870a3a035aabac0d/soupsieve-2.8.tar.gz", hash = "sha256:e2dd4a40a628cb5f28f6d4b0db8800b8f581b65bb380b97de22ba5ca8d72572f", size = 103472, upload-time = "2025-08-27T15:39:51.78Z" }
-wheels = [
-    { url = "https://files.pythonhosted.org/packages/14/a0/bb38d3b76b8cae341dad93a2dd83ab7462e6dbcdd84d43f54ee60a8dc167/soupsieve-2.8-py3-none-any.whl", hash = "sha256:0cc76456a30e20f5d7f2e14a98a4ae2ee4e5abdc7c5ea0aafe795f344bc7984c", size = 36679, upload-time = "2025-08-27T15:39:50.179Z" },
-]
-
 [[package]]
 name = "sphinx"
 version = "8.2.3"