Release v0.10.1

Author: althonos

CHANGELOG.md

@@ -5,7 +5,16 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/en/1.0.0/)
 and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.html).
 
 ## [Unreleased]
-[Unreleased]: https://github.com/zellerlab/GECCO/compare/v0.9.10...master
+[Unreleased]: https://github.com/zellerlab/GECCO/compare/v0.10.1...master
+
+## [v0.10.1] - 2025-11-26
+[v0.10.1]: https://github.com/zellerlab/GECCO/compare/v0.10.0...v0.10.1
+
+### Changed
+- Remove unneeded `psutil` package dependency.
+
+### Fixed
+- Missing `--output` flag in `gecco convert` command ([#19](https://github.com/zellerlab/GECCO/issues/19)).
 
 
 ## [v0.10.0] - 2025-10-17

galaxy/gecco.xml

@@ -1,8 +1,8 @@
 <?xml version='1.0' encoding='utf-8'?>
-<tool id="gecco" name="GECCO" version="0.10.0" python_template_version="3.5">
+<tool id="gecco" name="GECCO" version="0.10.1" python_template_version="3.5">
     <description>is a fast and scalable method for identifying putative novel Biosynthetic Gene Clusters (BGCs) in genomic and metagenomic data using Conditional Random Fields (CRFs).</description>
     <creator>
-        <organization name="Zeller Team" url="https://www.embl.org/groups/zeller/"/>
+        <organization name="Zeller Lab" url="https://zellerlab.org/"/>
     </creator>
     <edam_topics>
         <edam_topic>topic_0080</edam_topic>
@@ -11,7 +11,7 @@
         <edam_operation>operation_0415</edam_operation>
     </edam_operations>
     <requirements>
-        <requirement type="package" version="0.10.0">gecco</requirement>
+        <requirement type="package" version="0.10.1">gecco</requirement>
     </requirements>
     <version_command>gecco --version</version_command>
     <command detect_errors="aggressive"><![CDATA[

pkg/aur/PKGBUILD.in

@@ -9,10 +9,9 @@ pkgdesc="Gene Cluster prediction with Conditional random fields."
 url="https://gecco.embl.de"
 arch=('i686' 'pentium4' 'x86_64' 'arm' 'armv6h' 'armv7h' 'aarch64')
 license=("GPL-3.0-only")
-depends=('python' 'python-crfsuite' 'python-sklearn-crfsuite' 'python-pyrodigal' 'python-pyhmmer' 'python-biopython' 'python-docopt' 'python-numpy' 'python-polars' 'python-rich' 'python-scipy' 'python-scikit-learn')
+depends=('python' 'python-biopython' 'python-numpy' 'python-polars' 'python-pyhmmer' 'python-pyrodigal' 'python-rich' 'python-rich-argparse' 'python-scikit-learn' 'python-scipy' 'python-sklearn-crfsuite')
 makedepends=('python-setuptools' 'python-build' 'python-installer')
-optdepends=('python-fisher: variable selection with Fisher exact test'
-            'python-statsmodels: variable selection with Fisher exact test')
+optdepends=('python-statsmodels: variable selection with Fisher exact test')
 source=("https://files.pythonhosted.org/packages/source/${_pyname::1}/${_pyname}/${_pyname}-$pkgver.tar.gz")
 sha256sums=(%sha256sum)
 

pyproject.toml

@@ -4,7 +4,6 @@ requires = [
     'setuptools >=39.2', 
     'rich >=12.4.0', 
     'pyhmmer ~=0.11.0', 
-    'wheel >=0.30'
 ]
 
 [project]