Pierre Gruet pushed to branch upstream at Debian Med / pychopper
Commits: e8fe9efd by Pierre Gruet at 2023-06-18T14:19:43+02:00 New upstream version 2.7.3 - - - - - 3 changed files: - CHANGELOG.md - pychopper/__init__.py - pychopper/scripts/pychopper.py Changes: ===================================== CHANGELOG.md ===================================== @@ -4,6 +4,11 @@ All notable changes to this project will be documented in this file. The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/), and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0.html). +## [v2.7.3] +### Changed +- Fixes for pandas v2 concat api changes +- set default batchsize to 10,000 + ## [v2.7.2] ### Added - umi detection and extraction ===================================== pychopper/__init__.py ===================================== @@ -2,4 +2,4 @@ __author__ = 'ONT Applications Group' __email__ = '[email protected]' -__version__ = "2.7.2" +__version__ = "2.7.3" ===================================== pychopper/scripts/pychopper.py ===================================== @@ -289,8 +289,8 @@ def main(): '-t', metavar='threads', type=int, default=8, help="Number of threads to use (8).") parser.add_argument( - '-B', metavar='batch_size', type=int, default=1000000, - help="Maximum number of reads processed in each batch (1000000).") + '-B', metavar='batch_size', type=int, default=10000, + help="Maximum number of reads processed in each batch (10000).") parser.add_argument( '-D', metavar='read stats', type=str, default=None, help="Tab separated file with per-read stats (None).") @@ -539,7 +539,7 @@ def main(): if args.S is not None or args.r is not None: stdf = _process_stats(st) if tune_df is not None: - stdf = stdf.append(pd.DataFrame(tune_df)) + stdf = pd.concat([stdf, pd.DataFrame(tune_df)]) _detect_anomalies(st, config) View it on GitLab: https://salsa.debian.org/med-team/pychopper/-/commit/e8fe9efdd432b0afd2a16973a7b8c037fd626b6c -- View it on GitLab: https://salsa.debian.org/med-team/pychopper/-/commit/e8fe9efdd432b0afd2a16973a7b8c037fd626b6c You're receiving this email because of your account on salsa.debian.org.
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