Tidied modules in archive.py #151
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Sep 26, 2023 in 0s
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Check warning on line 0 in tests.CreateHDF5.test_CreateHDF5
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test_CreateHDF5 (tests.CreateHDF5.test_CreateHDF5) failed
junit/test-results.xml
Raw output
def test_CreateHDF5():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# Remove anything from previous tests
if (path / "BP_CreateHDF5").exists():
shutil.rmtree(path / "BP_CreateHDF5")
if (path / ".BP_CreateHDF5").exists():
os.remove(path / ".BP_CreateHDF5")
if (path / ".BP_CreateHDF5_BPL").exists():
os.remove(path / ".BP_CreateHDF5_BPL")
if (path / "BP_CreateHDF5.bpa").exists():
os.remove(path / "BP_CreateHDF5.bpa")
if (path / "BP_CreateHDF5.md5").exists():
os.remove(path / "BP_CreateHDF5.md5")
# Run vspace
print("Running vspace.")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running MultiPlanet.")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/CreateHDF5/test_CreateHDF5.py:42:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/CreateHDF5'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f188f10>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.ExtractArchive.test_ExtractArchive
github-actions / Unit Test Results
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junit/test-results.xml
Raw output
def test_ExtractArchive():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# Remove anything from previous tests
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / ".BP_Extract_BPL").exists():
os.remove(path / ".BP_Extract_BPL")
if (path / "BP_Extract.bpa").exists():
os.remove(path / "BP_Extract.bpa")
if (path / "BP_Extract.md5").exists():
os.remove(path / "BP_Extract.md5")
# Run vspace
print("Running vspace.")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running MultiPlanet.")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/ExtractArchive/test_ExtractArchive.py:42:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/ExtractArchive'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f120dc0>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.ExtractFilterArchive.test_ExtractFilterArchive
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test_ExtractFilterArchive (tests.ExtractFilterArchive.test_ExtractFilterArchive) failed
junit/test-results.xml
Raw output
def test_ExtractFilterArchive():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# Remove any old test files/dirs
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / ".BP_Extract_BPL").exists():
os.remove(path / ".BP_Extract_BPL")
if (path / "BP_Extract.bpa").exists():
os.remove(path / "BP_Extract.bpa")
if (path / "Test.bpf").exists():
os.remove(path / "Test.bpf")
if (path / "BP_Extract.md5").exists():
os.remove(path / "BP_Extract.md5")
# Run vspace
print("Running vspace.")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running MultiPlanet.")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/ExtractFilterArchive/test_ExtractFilterArchive.py:44:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/ExtractFilterArchive'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89efcf550>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.ExtractFilterRaw.test_ExtractFilterRaw
github-actions / Unit Test Results
test_ExtractFilterRaw (tests.ExtractFilterRaw.test_ExtractFilterRaw) failed
junit/test-results.xml
Raw output
def test_ExtractFilterRaw():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / "Test.bpf").exists():
os.remove(path / "Test.bpf")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multiplanet
print("Running multiplanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/ExtractFilterRaw/test_ExtractFilterRaw.py:40:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/ExtractFilterRaw'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89ef5fdc0>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.MD5CheckSum.test_MD5CheckSum
github-actions / Unit Test Results
test_MD5CheckSum (tests.MD5CheckSum.test_MD5CheckSum) failed
junit/test-results.xml
Raw output
def test_MD5CheckSum():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / "BP_Extract.bpa").exists():
os.remove(path / "BP_Extract.bpa")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / ".BP_Extract_BPL").exists():
os.remove(path / ".BP_Extract_BPL")
if (path / "BP_Extract.md5").exists():
os.remove(path / "BP_Extract.md5")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running multiplanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/MD5CheckSum/test_MD5CheckSum.py:40:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/MD5CheckSum'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f06e670>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.SingleSim.test_singlesim
github-actions / Unit Test Results
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junit/test-results.xml
Raw output
def test_SingleSim():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / "Test.bpf").exists():
os.remove(path / "Test.bpf")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running multiplanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/SingleSim/test_singlesim.py:37:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/SingleSim'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f17ec40>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.Stats.test_Stats
github-actions / Unit Test Results
test_Stats (tests.Stats.test_Stats) failed
junit/test-results.xml
Raw output
def test_Stats():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# up = os.path.normpath("../")
# if (up / "*.md5").exists:
# os.remove(path / "*.md5")
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Stats").exists():
shutil.rmtree(path / "BP_Stats")
if (path / ".BP_Stats").exists():
os.remove(path / ".BP_Stats")
if (path / ".BP_Stats_BPL").exists():
os.remove(path / ".BP_Stats_BPL")
if (path / "BP_Stats.bpa").exists():
os.remove(path / "BP_Stats.bpa")
if (path / "../BP_Stats.md5").exists():
os.remove(path / "../BP_Stats.md5")
if (path / "BP_Stats.md5").exists():
os.remove(path / "BP_Stats.md5")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running MultiPlanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/Stats/test_Stats.py:48:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/Stats'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f1885b0>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.Status.test_Status
github-actions / Unit Test Results
test_bpstatus (tests.Status.test_Status) failed
junit/test-results.xml
Raw output
def test_bpstatus():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
if (path / "BP_Status").exists():
shutil.rmtree(path / "BP_Status")
if (path / ".BP_Status").exists():
os.remove(path / ".BP_Status")
if (path / ".BP_Status_BPL").exists():
os.remove(path / ".BP_Status_BPL")
if (path / "BP_Status.bpa").exists():
os.remove(path / "BP_Status.bpa")
if (path / "../BP_Status.md5").exists():
os.remove(path / "../BP_Status.md5")
if (path / "BP_Status.md5").exists():
os.remove(path / "BP_Status.md5")
# Run vspace
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/Status/test_Status.py:38:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/Status'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f024d90>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.UlyssesAggregated.test_UlyssesAggregated
github-actions / Unit Test Results
test_UlyssesAggregated (tests.UlyssesAggregated.test_UlyssesAggregated) failed
junit/test-results.xml
Raw output
def test_UlyssesAggregated():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / "User.csv").exists():
os.remove(path / "User.csv")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running multiplanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/UlyssesAggregated/test_UlyssesAggregated.py:39:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/UlyssesAggregated'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89f18ef10>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
Check warning on line 0 in tests.UlyssesForward.test_UlyssesForward
github-actions / Unit Test Results
test_UlyssesForward (tests.UlyssesForward.test_UlyssesForward) failed
junit/test-results.xml
Raw output
def test_UlyssesForward():
# gets current path
path = pathlib.Path(__file__).parents[0].absolute()
sys.path.insert(1, str(path.parents[0]))
# gets the number of cores on the machine
cores = mp.cpu_count()
if cores == 1:
warnings.warn("There is only 1 core on the machine", stacklevel=3)
else:
# If present, remove files from previous run
if (path / "BP_Extract").exists():
shutil.rmtree(path / "BP_Extract")
if (path / ".BP_Extract").exists():
os.remove(path / ".BP_Extract")
if (path / "User.csv").exists():
os.remove(path / "User.csv")
# Run vspace
print("Running vspace")
sys.stdout.flush()
subprocess.check_output(["vspace", "vspace.in"], cwd=path)
# Run multi-planet
print("Running multiplanet")
sys.stdout.flush()
> subprocess.check_output(["multiplanet", "vspace.in"], cwd=path)
tests/UlyssesForward/test_UlyssesForward.py:37:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:415: in check_output
return run(*popenargs, stdout=PIPE, timeout=timeout, check=True,
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
input = None, capture_output = False, timeout = None, check = True
popenargs = (['multiplanet', 'vspace.in'],)
kwargs = {'cwd': PosixPath('/home/runner/work/bigplanet/bigplanet/tests/UlyssesForward'), 'stdout': -1}
process = <subprocess.Popen object at 0x7fb89ef5f490>, stdout = b''
stderr = None, retcode = 1
def run(*popenargs,
input=None, capture_output=False, timeout=None, check=False, **kwargs):
"""Run command with arguments and return a CompletedProcess instance.
The returned instance will have attributes args, returncode, stdout and
stderr. By default, stdout and stderr are not captured, and those attributes
will be None. Pass stdout=PIPE and/or stderr=PIPE in order to capture them.
If check is True and the exit code was non-zero, it raises a
CalledProcessError. The CalledProcessError object will have the return code
in the returncode attribute, and output & stderr attributes if those streams
were captured.
If timeout is given, and the process takes too long, a TimeoutExpired
exception will be raised.
There is an optional argument "input", allowing you to
pass bytes or a string to the subprocess's stdin. If you use this argument
you may not also use the Popen constructor's "stdin" argument, as
it will be used internally.
By default, all communication is in bytes, and therefore any "input" should
be bytes, and the stdout and stderr will be bytes. If in text mode, any
"input" should be a string, and stdout and stderr will be strings decoded
according to locale encoding, or by "encoding" if set. Text mode is
triggered by setting any of text, encoding, errors or universal_newlines.
The other arguments are the same as for the Popen constructor.
"""
if input is not None:
if kwargs.get('stdin') is not None:
raise ValueError('stdin and input arguments may not both be used.')
kwargs['stdin'] = PIPE
if capture_output:
if kwargs.get('stdout') is not None or kwargs.get('stderr') is not None:
raise ValueError('stdout and stderr arguments may not be used '
'with capture_output.')
kwargs['stdout'] = PIPE
kwargs['stderr'] = PIPE
with Popen(*popenargs, **kwargs) as process:
try:
stdout, stderr = process.communicate(input, timeout=timeout)
except TimeoutExpired as exc:
process.kill()
if _mswindows:
# Windows accumulates the output in a single blocking
# read() call run on child threads, with the timeout
# being done in a join() on those threads. communicate()
# _after_ kill() is required to collect that and add it
# to the exception.
exc.stdout, exc.stderr = process.communicate()
else:
# POSIX _communicate already populated the output so
# far into the TimeoutExpired exception.
process.wait()
raise
except: # Including KeyboardInterrupt, communicate handled that.
process.kill()
# We don't call process.wait() as .__exit__ does that for us.
raise
retcode = process.poll()
if check and retcode:
> raise CalledProcessError(retcode, process.args,
output=stdout, stderr=stderr)
E subprocess.CalledProcessError: Command '['multiplanet', 'vspace.in']' returned non-zero exit status 1.
/usr/share/miniconda/envs/vplanet/lib/python3.8/subprocess.py:516: CalledProcessError
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