tablassert 7.4.9__tar.gz → 7.4.10__tar.gz

{tablassert-7.4.9 → tablassert-7.4.10}/CHANGELOG.md

@@ -2,6 +2,11 @@
 
 All notable changes to this project are documented in this file.
 
+## 7.4.10 - 2026-05-29
+
+### Changes
+- Enforced explicit `biolink:` namespace prefix on predicates and qualifiers emitted by `compile_subgraph()` in `lib.py`. Both `self.statement.predicate` and `x.qualifier` (in the qualifier loop) are now prefixed via `add("biolink:", ...)`, ensuring all output edges carry fully-qualified Biolink CURIEs rather than bare predicate/qualifier names.
+
 ## 7.4.9 - 2026-05-26
 
 ### Bug Fixes

{tablassert-7.4.9 → tablassert-7.4.10}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: tablassert
-Version: 7.4.9
+Version: 7.4.10
 Summary: Extract knowledge assertions from tabular data into NCATS Translator-compliant KGX NDJSON — declaratively, with entity resolution and quality control built in.
 Project-URL: Homepage, https://github.com/SkyeAv/Tablassert
 Project-URL: Source, https://github.com/SkyeAv/Tablassert

tablassert-7.4.10/docs/changelog.md

@@ -0,0 +1,11 @@
+# Changelog
+
+The canonical release history lives in the repository root at [`CHANGELOG.md`](https://github.com/SkyeAv/Tablassert/blob/main/CHANGELOG.md).
+
+## Current Release Notes
+
+## 7.4.10 - 2026-05-29
+
+### Changes
+
+- Enforced explicit `biolink:` namespace prefix on predicates and qualifiers emitted by `compile_subgraph()` in `lib.py`. Both `self.statement.predicate` and `x.qualifier` (in the qualifier loop) are now prefixed via `add("biolink:", ...)`, ensuring all output edges carry fully-qualified Biolink CURIEs rather than bare predicate/qualifier names.

{tablassert-7.4.9 → tablassert-7.4.10}/pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "tablassert"
-version = "7.4.9"
+version = "7.4.10"
 description = "Extract knowledge assertions from tabular data into NCATS Translator-compliant KGX NDJSON — declaratively, with entity resolution and quality control built in."
 authors = [
     { name = "Skye Lane Goetz", email = "sgoetz@isbscience.org" }

{tablassert-7.4.9 → tablassert-7.4.10}/src/tablassert/fullmap.py

@@ -150,15 +150,15 @@ def log_unmatched(
 ) -> None:
     # * Log Unmatched Entities
     level_one: pl.LazyFrame = terms.filter(pl.col("nlp level") == 1)
-    antimatches: pl.LazyFrame = level_one.join(matches.lazy().select("term"), left_on="term", right_on="term", how="anti")
+    antimatches: pl.LazyFrame = level_one.join(
+        matches.lazy().select("term"), left_on="term", right_on="term", how="anti"
+    )
 
     # ! Collection Point: Requires Eager
     unnmatched: pl.DataFrame = antimatches.select("term").unique().collect()
     if unnmatched.height > 0:
         for term in unnmatched.get_column("term").to_list():
-            logger.info(
-                f"FAILED | STORE: {section_hash} | CONFIG: {config_file} | COL: {col} | VALUE: {term!r}"
-            )
+            logger.info(f"FAILED | STORE: {section_hash} | CONFIG: {config_file} | COL: {col} | VALUE: {term!r}")
 
 
 def resolve(

{tablassert-7.4.9 → tablassert-7.4.10}/src/tablassert/lib.py

@@ -342,8 +342,8 @@ class Tcode(Section):
                 [op for x in self.annotations for op in self.encoding(x, x.annotation)] if self.annotations else None,
                 self.node(self.statement.subject, "subject", conns),
                 self.node(self.statement.object, "object", conns),
-                (value, ("predicate", self.statement.predicate)),
-                [op for x in self.statement.qualifiers for op in self.node(x, x.qualifier, conns)]
+                (value, ("predicate", add("biolink:", self.statement.predicate))),
+                [op for x in self.statement.qualifiers for op in self.node(x, add("biolink:", x.qualifier), conns)]
                 if self.statement.qualifiers
                 else None,
                 (value, ("syntax", self.syntax)),

{tablassert-7.4.9 → tablassert-7.4.10}/uv.lock

@@ -2360,7 +2360,7 @@ wheels = [
 
 [[package]]
 name = "tablassert"
-version = "7.4.9"
+version = "7.4.10"
 source = { editable = "." }
 dependencies = [
     { name = "cyclopts" },

tablassert-7.4.9/docs/changelog.md

@@ -1,11 +0,0 @@
-# Changelog
-
-The canonical release history lives in the repository root at [`CHANGELOG.md`](https://github.com/SkyeAv/Tablassert/blob/main/CHANGELOG.md).
-
-## Current Release Notes
-
-## 7.4.9 - 2026-05-26
-
-### Bug Fixes
-
-- Fixed `OSError: Too many open files` during subgraph build at large scales (700+ sections). `with_mesh()` and `with_captions()` in `lib.py` opened a `sqlite_utils.Database` per section but never closed the underlying SQLite connection, leaving FD release to GC. In the tight sequential `compile_subgraph` loop the leaked FDs accumulated past the OS soft limit, causing the next `to_store()` → `df.write_parquet()` (which polars 1.39 routes through `sink_parquet`) to fail opening its target `.storassert/*.parquet`. Both functions now wrap their query bodies in `try:` / `finally: db.conn.close()`.