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Add pytest 8.x compatibility #92

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Feb 27, 2024
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Add pytest 8.x compatibility #92

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20 changes: 11 additions & 9 deletions lib/bx/binned_array_tests.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2,6 +2,7 @@
Tests for `bx.binned_array`.
"""

import pytest
from numpy import (
allclose,
concatenate,
Expand All @@ -22,12 +23,9 @@
# CHUNK_SIZE_RANDOM=9456
# CHUNK_SIZE_ZEROS=8972

source = target = None


def setup():
global source
global target
@pytest.fixture(scope="module")
def source_target():
source = []
for _ in range(13):
if random() < 0.5:
Expand All @@ -43,7 +41,8 @@ def setup():
return source, target


def test_simple():
def test_simple(source_target):
source, target = source_target
# Verify
for i in range(len(source)):
assert source[i] == target[i], "No match, index: %d, source: %f, target: %f, len( source ): %d" % (
Expand All @@ -66,7 +65,8 @@ def test_simple():
)


def test_file():
def test_file(source_target):
source, target = source_target
# With a file (zlib)
target.to_file(open("/tmp/foo", "wb"))
target2 = FileBinnedArray(open("/tmp/foo", "rb"))
Expand All @@ -87,7 +87,8 @@ def test_file():
)


def test_file_lzo():
def test_file_lzo(source_target):
source, target = source_target
# With a file (lzo)
target.to_file(open("/tmp/foo3", "wb"), comp_type="lzo")
target3 = FileBinnedArray(open("/tmp/foo3", "rb"))
Expand All @@ -109,7 +110,8 @@ def test_file_lzo():
)


def test_binned_array_writer():
def test_binned_array_writer(source_target):
source, target = source_target
# Test with ba writer
o = open("/tmp/foo4", "wb")
w = BinnedArrayWriter(o, 128, comp_type="lzo")
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