Release version 0.8.1

README.md

@@ -7,7 +7,7 @@
 # Scoring Multiple Sequence Alignments with Python
 [![Build Status](https://img.shields.io/travis/benhid/pyMSA.svg?style=flat-square)](https://travis-ci.org/benhid/pyMSA)
 [![PyPI License](https://img.shields.io/pypi/l/pyMSA.svg?style=flat-square)]()
-[![PyPI Python version](https://img.shields.io/pypi/pyversions/pyMSA.svg?style=flat-square)]()
+[![PyPI Python version](https://img.shields.io/pypi/pyversions/pyMSA.svg?style=flat-square)](https://pypi.org/project/pyMSA/)
 
 pyMSA is an open source software tool aimed at providing a number of scores for
 multiple sequence alignment (MSA) problems. A [tutorial](resources/tutorial-pymsa.pdf) about pyMSA is available in the resources folder of the proyect.

examples/runner.py

@@ -1,6 +1,5 @@
-from pymsa import Entropy, PercentageOfNonGaps, PercentageOfTotallyConservedColumns, Star, SumOfPairs
+from pymsa import MSA, Entropy, PercentageOfNonGaps, PercentageOfTotallyConservedColumns, Star, SumOfPairs
 from pymsa import PAM250, Blosum62, FileMatrix
-from pymsa.core.msa import MSA
 from pymsa.util.fasta import print_alignment
 
 

pymsa/__init__.py

@@ -1,11 +1,11 @@
-from .core.score import Score, SumOfPairs, Star, Entropy, Strike, PercentageOfNonGaps, PercentageOfTotallyConservedColumns
+from .core.msa import MSA
+from .core.score import SumOfPairs, Star, Entropy, Strike, PercentageOfNonGaps, PercentageOfTotallyConservedColumns
 from .core.substitution_matrix import SubstitutionMatrix, FileMatrix, PAM250, Blosum62
 from .util.fasta import read_fasta_file_as_list_of_pairs, print_alignment
-from .util.tool import Tool, StrikeEx
 
 __all__ = [
-    'Score', 'SumOfPairs', 'Star', 'Strike', 'Entropy', 'PercentageOfNonGaps', 'PercentageOfTotallyConservedColumns',
+    'MSA',
+    'SumOfPairs', 'Star', 'Strike', 'Entropy', 'PercentageOfNonGaps', 'PercentageOfTotallyConservedColumns',
     'SubstitutionMatrix', 'FileMatrix', 'PAM250', 'Blosum62',
     'read_fasta_file_as_list_of_pairs', 'print_alignment',
-    'Tool', 'StrikeEx'
 ]

pymsa/util/fasta.py

@@ -1,5 +1,3 @@
-from typing import List
-
 from pymsa.core.msa import MSA
 
 

setup.py

@@ -1,26 +1,31 @@
-from setuptools import setup, find_packages
+from os.path import abspath, dirname, join
+
+from setuptools import find_packages, setup
+
+basedir = abspath(dirname(__file__))
+
+with open(join(basedir, 'README.md'), encoding='utf-8') as f:
+    README = f.read()
 
 setup(
     name='pyMSA',
-    version='0.8',
+    version='0.8.1',
     description='Scoring Multiple Sequence Alignments with Python',
+    long_description=README,
+    long_description_content_type='text/markdown',
     author='Antonio Benítez-Hidalgo, Antonio J. Nebro',
     author_email='[email protected]',
     maintainer='Antonio Benítez-Hidalgo',
-    maintainer_email='antonio.b@uma.es',
+    maintainer_email='antonio.benitez@lcc.uma.es',
     license='MIT',
     url='https://github.com/benhid/pyMSA',
-    long_description=open('README.md').read(),
     packages=find_packages(exclude=["test.*", "tests"]),
-    python_requires='>=3',
     classifiers=[
         'Development Status :: 3 - Alpha',
         'Intended Audience :: Science/Research',
         'License :: OSI Approved :: MIT License',
         'Topic :: Scientific/Engineering :: Artificial Intelligence',
         'Programming Language :: Python :: 3.6'
     ],
-    install_requires=[
-        'click'
-    ]
+    python_requires='>=3'
 )