8000 FIX: Address numpy and traits deprecations by effigies · Pull Request #3699 · nipy/nipype · GitHub
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FIX: Address numpy and traits deprecations #3699

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Merged
merged 14 commits into from
Nov 18, 2024
Merged

FIX: Address numpy and traits deprecations #3699

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73e47b5
MNT: Drop numpy 2.0 limit
effigies Nov 18, 2024
b41fb1c
fix: Numpy stopped accepting b-strings as savetxt args
effigies Nov 18, 2024
ea4164c
fix: Replace recfromcsv to genfromtxt
effigies Nov 18, 2024
b713b4d
fix(traits): Replace deprecated traits.List$Sub with traits.List($Sub)
effigies Nov 18, 2024
eb6ad74
MNT: Add tox config
effigies Nov 18, 2024
cb32982
test: Depend on pytest-xdist
effigies Nov 18, 2024
a150eeb
chore(ci): Run GHA with tox
effigies Nov 18, 2024
c51abf8
FIX: Set legacy printoptions in doctests
effigies Nov 18, 2024
1d324ad
chore: Configure pytest globally
effigies Nov 18, 2024
8abddf9
chore: Update minimum dependencies, test them
effigies Nov 18, 2024
ddfb69c
fix: Replace pkg_resources with acres
effigies Nov 18, 2024
d986f53
Update minimum networkx, nibabel
effigies Nov 18, 2024
8e27123
fix: Handle new/old networkx graph emissions
effigies Nov 18, 2024
ddb73ac
chore(ci): Replace contrib.yml with tox
effigies Nov 18, 2024
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FIX: Set legacy printoptions in doctests
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@effigies
effigies committed Nov 18, 2024
commit c51abf83af17595a448f3c09705db40779e78de4
9 changes: 7 additions & 2 deletions nipype/conftest.py
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Expand Up @@ -2,7 +2,7 @@
import shutil
from tempfile import mkdtemp
import pytest
import numpy
import numpy as np
import py.path as pp

NIPYPE_DATADIR = os.path.realpath(
Expand All @@ -15,12 +15,17 @@

@pytest.fixture(autouse=True)
def add_np(doctest_namespace):
doctest_namespace["np"] = numpy
doctest_namespace["np"] = np
doctest_namespace["os"] = os
doctest_namespace["pytest"] = pytest
doctest_namespace["datadir"] = data_dir


@pytest.fixture(scope='session', autouse=True)
def legacy_printoptions():
np.set_printoptions(legacy='1.21')


@pytest.fixture(autouse=True)
def _docdir(request):
"""Grabbed from https://stackoverflow.com/a/46991331"""
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