Require gtfparse 3 with coordinated Topiary support

.github/workflows/tests.yml

@@ -26,7 +26,7 @@ jobs:
             gtfparse: "gtfparse>=3.0.2,<4"
           - python-version: "3.11"
             pandas: "pandas>=2.2.2,<3"
-            gtfparse: "gtfparse==2.9.1"
+            gtfparse: "gtfparse>=3.0.2,<4"
           - python-version: "3.11"
             pandas: "pandas>=3,<4"
             gtfparse: "gtfparse>=3.0.2,<4"

CHANGELOG.md

@@ -1,5 +1,10 @@
 # Change Log
 
+## [v10.11.9](https://github.com/openvax/varcode/tree/v10.11.9) (2026-10-06)
+
+- Require gtfparse 3.0.2+ across the supported Python/pandas matrix, coordinated
+  with Topiary 5.94.2's gtfparse 3 migration (openvax/topiary#484).
+
 ## [v10.11.8](https://github.com/openvax/varcode/tree/v10.11.8) (2026-10-06)
 
 - Require PyEnsembl 2.24.1+ and gtfparse 2.9.1+, with explicit coverage of

docs/getting_started.md

@@ -10,7 +10,7 @@ use Python 3.9 or later.
 pip install varcode
 ```
 
-Varcode requires PyEnsembl 2.24.1+ and gtfparse 2.9.1+, and supports pandas
+Varcode requires PyEnsembl 2.24.1+ and gtfparse 3.0.2+, and supports pandas
 2.2.2+ and 3.x. To upgrade an existing environment to pandas 3, use Python
 3.11 or later and run:
 
@@ -19,8 +19,8 @@ pip install --upgrade varcode pyensembl 'gtfparse>=3.0.2,<4' 'pandas>=3,<4'
 ```
 
 Python 3.9 and 3.10 remain supported with pandas 2.
-Environments shared with Topiary can keep gtfparse 2.9.1 until its
-[gtfparse 3 migration](https://github.com/openvax/topiary/issues/484) ships.
+Environments shared with Topiary require Topiary 5.94.2 or later for its
+gtfparse 3 support.
 
 ## Reference data
 

requirements.txt

@@ -1,7 +1,7 @@
 numpy>=2.0.0,<3.0.0
 pandas>=2.2.2,<4.0.0
 pyensembl>=2.24.1
-gtfparse>=2.9.1,<4.0.0
+gtfparse>=3.0.2,<4.0.0
 memoized_property>=1.0.2
 serializable>=1.1.0
 sercol>=1.0.3

tests/README.md

@@ -34,8 +34,7 @@ CI builds and unpacks the source distribution outside the checkout, installs
 that source with the `test-data` extra, and runs the full suite and parity
 checks from the unpacked directory on Python 3.9/3.10/3.11/3.12. Python 3.11
 tests both pandas 2 and 3; Python 3.12 and the parity gate use pandas 3.
-Python 3.9/3.10 use pandas 2. The Python 3.11/pandas 2 job also checks the
-gtfparse 2.9.1 compatibility floor; other jobs require gtfparse 3.0.2+.
+Python 3.9/3.10 use pandas 2. All jobs require gtfparse 3.0.2+.
 To reproduce this
 locally, first install the development tools and reference releases from
 [CONTRIBUTING.md](../CONTRIBUTING.md), then:

varcode/version.py

@@ -1 +1 @@
-__version__ = "10.11.8"
+__version__ = "10.11.9"