v1.9.45: Scipy version

Author: annazhukova

Dockerfile

@@ -0,0 +1,9 @@
+FROM python:3.9-slim
+
+RUN mkdir /pasteur
+
+# Install pastml
+RUN cd /usr/local/ && pip3 install --no-cache-dir pastml==1.9.45
+
+# The entrypoint runs pastml with command line arguments
+ENTRYPOINT ["pastml"]

pastml/acr.py

@@ -34,7 +34,7 @@
 from pastml.visualisation.itol_manager import generate_itol_annotations
 from pastml.visualisation.tree_compressor import REASONABLE_NUMBER_OF_TIPS, VERTICAL, HORIZONTAL, TRIM
 
-PASTML_VERSION = '1.9.43'
+PASTML_VERSION = '1.9.45'
 
 model2class = {F81: F81Model, JC: JCModel, CUSTOM_RATES: CustomRatesModel, HKY: HKYModel, JTT: JTTModel, EFT: EFTModel}
 

setup.py

@@ -23,14 +23,14 @@
         'Programming Language :: Python :: 3.10',
         'Programming Language :: Python :: 3 :: Only',
     ],
-    version='1.9.44',
+    version='1.9.45',
     description='Ancestral character reconstruction and visualisation for rooted phylogenetic trees.',
     author='Anna Zhukova',
     author_email='anna.zhukova@pasteur.fr',
     url='https://github.com/evolbioinfo/pastml',
     keywords=['PASTML', 'visualisation', 'phylogeny', 'ancestral character reconstruction'],
     python_requires='>=3.9',
-    install_requires=['ete3>=3.1.1', 'pandas>=1.0.0', 'numpy>=1.22', 'jinja2>=2.11.0', 'scipy>=1.5.0', 'itolapi>=4.0.0', 'biopython>=1.70'],
+    install_requires=['ete3>=3.1.1', 'pandas>=1.0.0', 'numpy>=1.22', 'jinja2>=2.11.0', 'scipy==1.10.0-rc1', 'itolapi>=4.0.0', 'biopython>=1.70'],
     entry_points={
             'console_scripts': [
                 'pastml = pastml.acr:main',