MNT bump to 3.0.4

.pre-commit-config.yaml

@@ -1,6 +1,6 @@
 repos:
   - repo: https://github.com/pre-commit/pre-commit-hooks
-    rev: v4.4.0
+    rev: v4.5.0
     hooks:
       - id: check-yaml
       - id: end-of-file-fixer
@@ -10,7 +10,7 @@ repos:
       - id: check-toml
 
   - repo: https://github.com/psf/black
-    rev: 23.3.0
+    rev: 23.12.1
     hooks:
       - id: black
       - id: black-jupyter
@@ -29,13 +29,13 @@ repos:
           - "prettier-plugin-toml"
 
   - repo: https://github.com/python-jsonschema/check-jsonschema
-    rev: 0.23.2
+    rev: 0.27.3
     hooks:
       - id: check-github-workflows
       - id: check-readthedocs
 
   - repo: https://github.com/pycqa/flake8
-    rev: "6.0.0"
+    rev: "6.1.0"
     hooks:
       - id: flake8
         args:

CHANGELOG.md

@@ -5,7 +5,13 @@ All notable changes to Rp-Bp will be documented in this file.
 The format is based on [Keep a Changelog](http://keepachangelog.com/),
 and this project adheres to [Semantic Versioning](http://semver.org/).
 
-## [Unreleased] - started 2023-09
+## [Unreleased] - started 2024-03
+
+## [3.0.4] 2024-03-14
+
+### Fixed
+
+- Pandas `str.split` API in `summarize_rpbp_predictions.py`
 
 ## [3.0.3] 2023-09-13
 

src/rpbp/__init__.py

@@ -1,2 +1,2 @@
-__version_info__ = ("3", "0", "3")
+__version_info__ = ("3", "0", "4")
 __version__ = ".".join(__version_info__)

src/rpbp/analysis/rpbp_predictions/summarize_rpbp_predictions.py

@@ -701,7 +701,7 @@ def main():
     orfs = pd.merge(orfs, labels_df, on="id", how="left")
     # pick assigned transcript to annotate ORF
     orfs[["transcript_id", "others"]] = orfs["transcripts"].str.split(
-        ",", 1, expand=True
+        ",", n=1, expand=True
     )
     orfs = pd.merge(orfs, bed_df, on="transcript_id", how="left")