def test_caching():
"""should cache calls prior to logging"""
LOGGER = CachingLogger(create_dir=True)
LOGGER.input_file(TEST_ROOTDIR / "sample-lf.fasta")
assert ("sample-lf.fasta" in LOGGER._messages[-2]
and "md5sum" in LOGGER._messages[-1])
LOGGER.log_versions(["numpy"])
assert "numpy==" in LOGGER._messages[-1]
LOGGER.log_file_path = LOGFILE_NAME
LOGGER.shutdown()
try:
shutil.rmtree(DIRNAME)
except OSError:
pass
def test_tracks_versions_module():
"""should track version if package is a module"""
LOGGER = CachingLogger(create_dir=True)
LOGGER.log_file_path = os.path.join(LOGFILE_NAME)
import numpy
expect = "numpy==%s" % numpy.__version__
LOGGER.log_versions(numpy)
LOGGER.shutdown()
del numpy
with open(LOGFILE_NAME, "r") as infile:
contents = "".join(infile.readlines())
for line in contents.splitlines():
if "version :" in line and "numpy" in line:
assert expect in line, line
try:
os.remove(LOGFILE_NAME)
except OSError:
pass
def test_tracks_versions_string():
"""should track version if package name is a string"""
LOGGER = CachingLogger(create_dir=True)
LOGGER.log_file_path = LOGFILE_NAME
LOGGER.log_versions("numpy")
LOGGER.shutdown()
import numpy
expect = "numpy==%s" % numpy.__version__
del numpy
with open(LOGFILE_NAME, "r") as infile:
contents = "".join(infile.readlines())
for line in contents.splitlines():
if "version :" in line and "numpy" in line:
assert expect in line, line
try:
shutil.rmtree(DIRNAME)
except OSError:
pass
def test_tracks_versions_empty():
"""should track version of scitrack"""
LOGGER = CachingLogger(create_dir=True)
LOGGER.log_file_path = LOGFILE_NAME
LOGGER.input_file(TEST_ROOTDIR / "sample-lf.fasta")
LOGGER.log_versions()
LOGGER.shutdown()
contents = LOGFILE_NAME.read_text()
for label in ["system_details", "python", "user", "command_string"]:
assert contents.count(f"\t{label}") == 1, (
label,
contents.count(label),
)
for line in contents.splitlines():
if "version :" in line:
assert "==%s" % __version__ in line, line
try:
shutil.rmtree(DIRNAME)
except OSError:
pass
def test_tracks_versions():
"""should track versions"""
LOGGER = CachingLogger(create_dir=True)
LOGGER.log_file_path = os.path.join(LOGFILE_NAME)
LOGGER.input_file("sample.fasta")
LOGGER.log_versions(["numpy"])
LOGGER.shutdown()
with open(LOGFILE_NAME, "r") as infile:
contents = "".join(infile.readlines())
for label in ["system_details", "python", "user", "command_string"]:
assert contents.count(label) == 1, (label, contents.count(label))
for line in contents.splitlines():
if "version :" in line:
if "numpy" not in line:
assert "==%s" % __version__ in line, line
else:
assert "numpy" in line, line
print("\n\n", contents)
try:
os.remove(LOGFILE_NAME)
except OSError:
pass
