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|
Description: migrate from nose to pytest
Author: Étienne Mollier <emollier@debian.org>
Bug-Debian: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1018582
Forwarded: no
Last-Update: 2022-12-03
---
This patch header follows DEP-3: http://dep.debian.net/deps/dep3/
--- python-sqt.orig/setup.py
+++ python-sqt/setup.py
@@ -130,7 +130,7 @@
'xopen',
],
ext_modules = extensions,
- test_suite = 'nose.collector',
+ test_suite = 'pytest',
classifiers = [
"Development Status :: 4 - Beta",
#Development Status :: 5 - Production/Stable
--- python-sqt.orig/tests/testalign.py
+++ python-sqt/tests/testalign.py
@@ -1,7 +1,7 @@
from sqt.align import (edit_distance as ed, GlobalAlignment as GA, consensus,
hamming_distance)
from random import choice, seed, randint
-from nose.tools import raises
+import pytest
STRING_PAIRS = [
('', ''),
@@ -125,6 +125,6 @@
assert hamming_distance('ABC', 'DEF') == 3
-@raises(IndexError)
def test_hamming_distance_incorrect_length():
- hamming_distance('A', 'BC')
+ with pytest.raises(IndexError):
+ hamming_distance('A', 'BC')
--- python-sqt.orig/tests/testcigar.py
+++ python-sqt/tests/testcigar.py
@@ -1,5 +1,4 @@
-from nose.tools import raises
-
+import pytest
from sqt.cigar import parse, Cigar, reference_to_query_length
def test_parse():
@@ -20,19 +19,19 @@
assert Cigar('3M2S')._as_string(join_by=' ') == '3M 2S'
-@raises(ValueError)
def test_parse_error_1():
- Cigar("4S5")
+ with pytest.raises(ValueError):
+ Cigar("4S5")
-@raises(ValueError)
def test_parse_error_2():
- Cigar("4S-5M")
+ with pytest.raises(ValueError):
+ Cigar("4S-5M")
-@raises(ValueError)
def test_parse_error_3():
- Cigar("M")
+ with pytest.raises(ValueError):
+ Cigar("M")
def test_elements():
--- python-sqt.orig/tests/testfasta.py
+++ python-sqt/tests/testfasta.py
@@ -2,7 +2,7 @@
Tests for the sqt.io.fasta module
"""
from io import StringIO
-from nose.tools import raises
+import pytest
from sqt.io.fasta import (FastaReader, FastaWriter, Sequence, FastqWriter,
SequenceReader, fastq_header)
@@ -68,15 +68,15 @@
os.remove(tmp)
-@raises(ValueError)
def test_fastawriter_contextmanager():
- tmp = dpath("tmp.fasta")
- fr = FastaWriter(tmp)
- os.remove(tmp)
- with fr as frw:
- pass
- with fr as frw:
- pass
+ with pytest.raises(ValueError):
+ tmp = dpath("tmp.fasta")
+ fr = FastaWriter(tmp)
+ os.remove(tmp)
+ with fr as frw:
+ pass
+ with fr as frw:
+ pass
def test_fastareader():
@@ -140,13 +140,13 @@
assert sr.format == 'fastq'
-@raises(ValueError)
def test_fastareader_contextmanager():
- fr = FastaReader(dpath("seq.fa"))
- with fr as frw:
- pass
- with fr as frw:
- pass
+ with pytest.raises(ValueError):
+ fr = FastaReader(dpath("seq.fa"))
+ with fr as frw:
+ pass
+ with fr as frw:
+ pass
def test_fastq_header():
--- python-sqt.orig/tests/testindexedfasta.py
+++ python-sqt/tests/testindexedfasta.py
@@ -1,4 +1,4 @@
-from nose.tools import raises
+import pytest
from sqt.io.fasta import IndexedFasta, NonIndexedFasta, FastaReader
import os.path
@@ -6,13 +6,13 @@
return os.path.join(os.path.dirname(__file__), path)
-@raises(ValueError)
def test_indexedfasta_contextmanager():
- indfasta = IndexedFasta(dpath("seq.fa"))
- with indfasta as ifw:
- pass
- with indfasta as ifw:
- pass
+ with pytest.raises(ValueError):
+ indfasta = IndexedFasta(dpath("seq.fa"))
+ with indfasta as ifw:
+ pass
+ with indfasta as ifw:
+ pass
def test_indexedfasta():
--- python-sqt.orig/tests/testintervaltree.py
+++ python-sqt/tests/testintervaltree.py
@@ -1,7 +1,6 @@
"""
Tests for the sqt.intervaltree module
"""
-from nose.tools import raises
import sys
from sqt.intervaltree import IntervalTree
--- python-sqt.orig/tox.ini
+++ python-sqt/tox.ini
@@ -5,6 +5,6 @@
deps =
pip>=8.0.0
wheel
- nose
+ pytest
-commands = nosetests -P tests/
+commands = pytest-3 -v tests/*.py
--- /dev/null
+++ python-sqt/pytest.ini
@@ -0,0 +1,2 @@
+[pytest]
+python_files = test*.py
|
