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Merged
rkouakou06 merged 8 commits into from
Jun 16, 2026
Merged

Bump to v2.2.4 #47

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e6330ca
refactor: replace pkg_resources with importlib.resources for example …
Jun 5, 2026
365e3c2
refactor: update Python versions in tox.ini environment list
Jun 5, 2026
731546a
bump version to 2.2.4
Jun 5, 2026
7f9149b
use joinpath() to improve readability
Jun 8, 2026
2f67477
fix: update Python version format in tox.ini
Jun 8, 2026
3f2b7be
update Python version list in test configurations
Jun 11, 2026
5323259
add support for Python 3.13 and 3.14 in classifiers
Jun 11, 2026
20c1fac
update Python version requirement to 3.7 in documentation
Jun 11, 2026
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2 changes: 1 addition & 1 deletion .github/workflows/test_suite.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -16,7 +16,7 @@ jobs:
strategy:
matrix:
os: [ubuntu-latest, windows-latest]
python-version: [ '3.8', '3.9', '3.10', '3.11']
python-version: [ '3.8', '3.9', '3.10', '3.11','3.12', '3.13', '3.14' ]

steps:
- uses: actions/checkout@v4
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2 changes: 1 addition & 1 deletion doc/faq.rst
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Expand Up @@ -209,7 +209,7 @@ Please follow this simple procedure:
* If it is related to your system or your Python installation, you will need to ask some
help from your local system administrator or your IT department so they could
guide you toward a clean installation. Tell them that you wanted "to use the graphical
user interface of IsoCor, a Python 3.5 software" and what you did so far (installation),
user interface of IsoCor, a Python 3.7 software" and what you did so far (installation),
give them the traceback and a link toward the documentation. They should know what to do.
* If you believe the problem is in IsoCor or that your local system administrator
told you so, then you probably have found a bug! We would greatly appreciate
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2 changes: 1 addition & 1 deletion doc/quickstart.rst
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Expand Up @@ -7,7 +7,7 @@ Quick start
Installation
------------------------------------------------

IsoCor requires Python 3.5 or higher. If you do not have a Python environment
IsoCor requires Python 3.7 or higher. If you do not have a Python environment
configured on your computer, we recommend that you follow the instructions
from `Anaconda <https://www.anaconda.com/download/>`_.

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2 changes: 1 addition & 1 deletion isocor/__init__.py
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Expand Up @@ -5,7 +5,7 @@
"""

# Version number MUST be maintained here (x.y.z format)
__version__ = '2.2.3'
__version__ = '2.2.4'

from isocor.mscorrectors import MetaboliteCorrectorFactory
from isocor.mscorrectors import LowResMetaboliteCorrector, HighResMetaboliteCorrector
6 changes: 4 additions & 2 deletions isocor/ui/isocordb.py
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Expand Up @@ -5,7 +5,8 @@
from decimal import Decimal
import shutil
import numpy as np
import pkg_resources
# import pkg_resources
import importlib.resources


class EnvComputing(object):
Expand All @@ -18,7 +19,8 @@ def __init__(self, home=expanduser('~')):
self.home = Path(home)
self.default_db = Path(self.home, 'isocordb')
self.db_path = self.default_db
self.example_db = pkg_resources.resource_filename('isocor', 'data/')
# self.example_db = pkg_resources.resource_filename('isocor', 'data/')
self.example_db = importlib.resources.files('isocor').joinpath('data')

def initializeDB(self):
# if db files don't exist, copy the example folder
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2 changes: 2 additions & 0 deletions setup.cfg
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Expand Up @@ -14,6 +14,8 @@ classifiers =
Programming Language :: Python :: 3.10
Programming Language :: Python :: 3.11
Programming Language :: Python :: 3.12
Programming Language :: Python :: 3.13
Programming Language :: Python :: 3.14
License :: OSI Approved :: GNU General Public License v3 or later (GPLv3+)
Operating System :: OS Independent
Intended Audience :: Science/Research
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2 changes: 1 addition & 1 deletion tox.ini
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@gmat gmat Jun 5, 2026

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it's look like you miss the 3 on python versions upper to 3.10.
The documentation of tox tag the pyNM and pyN.M as legacy maybe prevert futur release by using N.M notations
https://tox.wiki/en/latest/tutorial/getting-started.html#environment-names-and-python-versions

Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
[tox]
env_list =
py36, py37, py38, py39, py310, py311
3.7, 3.8, 3.9, 3.10, 3.11, 3.12, 3.13, 3.14
minversion = 4.4.8

[testenv]
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