LocalPath' object has no attribute 'expandtabs' when using tox-conda
not-a-feature opened this issue · comments
Hey,
Tox / Tox-conda crashes with an ambiguous error.
I have a python package with a lot of requirements from conda-forge and bioconda.
Whenever i run tox -e py37
i get a
File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pyparsing/core.py", line 1129, in parse_string
instring = instring.expandtabs()
AttributeError: 'LocalPath' object has no attribute 'expandtabs'
The complete stacktrace is here:
Stacktrace
``` (g2p-test) jules@framework:~/path/to/package/$ tox -e py37 .package create: /path/to/package/.tox/.package .package installdeps: setuptools, wheel Traceback (most recent call last): File "/home/jules/miniconda3/envs/g2p-test/bin/tox", line 10, in sys.exit(cmdline()) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/session/__init__.py", line 44, in cmdline main(args) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/session/__init__.py", line 69, in main exit_code = session.runcommand() File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/session/__init__.py", line 197, in runcommand return self.subcommand_test() File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/session/__init__.py", line 213, in subcommand_test venv.package = self.hook.tox_package(session=self, venv=venv) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pluggy/_hooks.py", line 265, in __call__ return self._hookexec(self.name, self.get_hookimpls(), kwargs, firstresult) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pluggy/_manager.py", line 80, in _hookexec return self._inner_hookexec(hook_name, methods, kwargs, firstresult) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pluggy/_callers.py", line 60, in _multicall return outcome.get_result() File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pluggy/_result.py", line 60, in get_result raise ex[1].with_traceback(ex[2]) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pluggy/_callers.py", line 39, in _multicall res = hook_impl.function(*args) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/__init__.py", line 16, in tox_package session.package, session.dist = get_package(session) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/__init__.py", line 29, in get_package package = acquire_package(config, session) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/__init__.py", line 40, in acquire_package path = build_package(config, session) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/builder/__init__.py", line 9, in build_package return build(config, session) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/builder/isolated.py", line 40, in build canonicalize_name(Requirement(r.name).name) for r in package_venv.envconfig.deps File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/tox/package/builder/isolated.py", line 40, in canonicalize_name(Requirement(r.name).name) for r in package_venv.envconfig.deps File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/packaging/requirements.py", line 102, in __init__ req = REQUIREMENT.parseString(requirement_string) File "/home/jules/miniconda3/envs/g2p-test/lib/python3.7/site-packages/pyparsing/core.py", line 1129, in parse_string instring = instring.expandtabs() AttributeError: 'LocalPath' object has no attribute 'expandtabs' ```I have following tox.ini
configuration:
[tox]
envlist = py37, flake8, mypy
isolated_build = True
requires = tox-conda
[testenv]
description = Invoke pytest to run automated tests.
setenv =
TOXINIDIR = {toxinidir}
conda_env =
{toxinidir}/tests/g2p-test.yaml
passenv =
HOME
SETUPTOOLS_*
extras =
testing
commands =
python -m pytest {posargs}
And my environment (and the one i want to use with tox-conda) is here:
name: g2p-test
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- bwa=0.7.17
- gatk=3.8
- imbalanced-learn=0.8.1
- joblib=1.1.1
- mtbseq=1.0.4
- numpy=1.21.5
- numpy-base=1.21.5
- packaging=21.3
- pandas=0.25.3
- perl-base=2.23
- python=3.7.12
- pytest=7.2
- requests=2.28
- samtools=1.6
- scikit-learn=0.24.2
- scipy=1.7.3
- setuptools=65.5.0
- tox=3
- tox-conda=0.10
- tqdm=4.64
- importlib_metadata
As i'm now struggeling for several weeks i decided to ask if somebody has any idea.
Thanks a lot,
~Jules