[0KRunning with gitlab-runner 12.9.0 (4c96e5ad)
[0;m[0K on universal-tn4 d3cf9985
[0;msection_start:1611141550:prepare_executor
[0K[0K[36;1mPreparing the "docker" executor[0;m
[0;m[0KUsing Docker executor with image gitlab.kwant-project.org:5005/kwant/kwant ...
[0;m[0KAuthenticating with credentials from job payload (GitLab Registry)
[0;m[0KPulling docker image gitlab.kwant-project.org:5005/kwant/kwant ...
[0;m[0KUsing docker image sha256:3b0a14e5028f34c59abed300d492408bf827d6fe5523e89ea589cab97af9f9c8 for gitlab.kwant-project.org:5005/kwant/kwant ...
[0;msection_end:1611141550:prepare_executor
[0Ksection_start:1611141550:prepare_script
[0K[0K[36;1mPreparing environment[0;m
[0;m[0KAuthenticating with credentials from /root/.docker/config.json
[0;mRunning on runner-d3cf9985-project-1202-concurrent-3 via tnw-tn4.tudelft.net...
section_end:1611141556:prepare_script
[0Ksection_start:1611141556:get_sources
[0K[0K[36;1mGetting source from Git repository[0;m
[0;m[0KAuthenticating with credentials from /root/.docker/config.json
[0;m[32;1mFetching changes...[0;m
Reinitialized existing Git repository in /builds/quaeritis/kwant/.git/
[32;1mChecking out 888a0e6a as phi_matrix...[0;m
Removing build.conf
Removing build/
Removing kwant/__pycache__/
Removing kwant/_system.c
Removing kwant/_system.cpython-37m-x86_64-linux-gnu.so
Removing kwant/graph/core.c
Removing kwant/graph/core.cpython-37m-x86_64-linux-gnu.so
Removing kwant/graph/dijkstra.c
Removing kwant/graph/dijkstra.cpython-37m-x86_64-linux-gnu.so
Removing kwant/linalg/_mumps.c
Removing kwant/linalg/_mumps.cpython-37m-x86_64-linux-gnu.so
Removing kwant/linalg/lapack.c
Removing kwant/linalg/lapack.cpython-37m-x86_64-linux-gnu.so
Removing kwant/operator.c
Removing kwant/operator.cpython-37m-x86_64-linux-gnu.so
[32;1mSkipping Git submodules setup[0;m
section_end:1611141561:get_sources
[0Ksection_start:1611141561:restore_cache
[0K[0K[36;1mRestoring cache[0;m
[0;m[0KAuthenticating with credentials from /root/.docker/config.json
[0;msection_end:1611141567:restore_cache
[0Ksection_start:1611141567:download_artifacts
[0K[0K[36;1mDownloading artifacts[0;m
[0;m[0KAuthenticating with credentials from /root/.docker/config.json
[0;m[32;1mDownloading artifacts for build:latest (157898)...[0;m
Downloading artifacts from coordinator... ok [0;m id[0;m=157898 responseStatus[0;m=200 OK token[0;m=eikNcExA
section_end:1611141573:download_artifacts
[0Ksection_start:1611141573:build_script
[0K[0K[36;1mRunning before_script and script[0;m
[0;m[0KAuthenticating with credentials from job payload (GitLab Registry)
[0;m[32;1m$ source deactivate[0;m
DeprecationWarning: 'source deactivate' is deprecated. Use 'conda deactivate'.
[32;1m$ source activate kwant-latest[0;m
[32;1m$ py.test -r w --flakes kwant --junitxml=tests.xml --durations=10[0;m
/usr/local/envs/kwant-latest/lib/python3.9/site-packages/pep8.py:110: FutureWarning: Possible nested set at position 1
EXTRANEOUS_WHITESPACE_REGEX = re.compile(r'[[({] | []}),;:]')
============================= test session starts ==============================
platform linux -- Python 3.9.0, pytest-6.1.2, py-1.9.0, pluggy-0.13.1
rootdir: /builds/quaeritis/kwant, configfile: pytest.ini, testpaths: kwant
plugins: cov-2.10.1, flakes-4.0.2, pep8-1.0.6
collected 550 items
kwant/__init__.py . [ 0%]
kwant/_colormaps.py . [ 0%]
kwant/_common.py . [ 0%]
kwant/_kwant_version.py . [ 0%]
kwant/_plotter.py . [ 0%]
kwant/builder.py F [ 1%]
kwant/digest.py . [ 1%]
kwant/kpm.py . [ 1%]
kwant/lattice.py . [ 1%]
kwant/plotter.py . [ 1%]
kwant/qsymm.py . [ 2%]
kwant/rmt.py . [ 2%]
kwant/system.py . [ 2%]
kwant/version.py . [ 2%]
kwant/wraparound.py . [ 2%]
kwant/continuum/__init__.py . [ 2%]
kwant/continuum/_common.py . [ 3%]
kwant/continuum/discretizer.py . [ 3%]
kwant/continuum/landau_levels.py . [ 3%]
kwant/continuum/tests/__init__.py . [ 3%]
kwant/continuum/tests/test_common.py ................................... [ 10%]
..... [ 10%]
kwant/continuum/tests/test_discretizer.py .............................. [ 16%]
.............................. [ 21%]
kwant/continuum/tests/test_landau_levels.py ....... [ 23%]
kwant/graph/__init__.py . [ 23%]
kwant/graph/defs.py . [ 23%]
kwant/graph/tests/__init__.py . [ 23%]
kwant/graph/tests/test_core.py ......... [ 25%]
kwant/graph/tests/test_scotch.py . [ 25%]
kwant/linalg/__init__.py . [ 25%]
kwant/linalg/cmumps.py . [ 25%]
kwant/linalg/decomp_ev.py . [ 26%]
kwant/linalg/decomp_lu.py . [ 26%]
kwant/linalg/decomp_schur.py . [ 26%]
kwant/linalg/fortran_helpers.py . [ 26%]
kwant/linalg/lll.py . [ 26%]
kwant/linalg/mumps.py . [ 26%]
kwant/linalg/tests/__init__.py . [ 27%]
kwant/linalg/tests/_test_utils.py . [ 27%]
kwant/linalg/tests/test_linalg.py ............ [ 29%]
kwant/linalg/tests/test_lll.py ... [ 30%]
kwant/linalg/tests/test_mumps.py ..... [ 30%]
kwant/physics/__init__.py . [ 31%]
kwant/physics/dispersion.py . [ 31%]
kwant/physics/gauge.py . [ 31%]
kwant/physics/leads.py . [ 31%]
kwant/physics/noise.py . [ 31%]
kwant/physics/symmetry.py . [ 32%]
kwant/physics/tests/__init__.py . [ 32%]
kwant/physics/tests/test_dispersion.py ........ [ 33%]
kwant/physics/tests/test_gauge.py ...................................... [ 40%]
............... [ 43%]
kwant/physics/tests/test_leads.py ......................... [ 47%]
kwant/physics/tests/test_noise.py ... [ 48%]
kwant/physics/tests/test_symmetry.py ...... [ 49%]
kwant/solvers/__init__.py . [ 49%]
kwant/solvers/common.py . [ 49%]
kwant/solvers/default.py . [ 50%]
kwant/solvers/mumps.py . [ 50%]
kwant/solvers/sparse.py . [ 50%]
kwant/solvers/tests/__init__.py . [ 50%]
kwant/solvers/tests/test_solvers.py .................................... [ 57%]
........................................................................ [ 70%]
..... [ 71%]
kwant/tests/__init__.py . [ 71%]
kwant/tests/test_builder.py .......................................F [ 78%]
kwant/tests/test_comprehensive.py .. [ 78%]
kwant/tests/test_kpm.py ........................... [ 83%]
kwant/tests/test_lattice.py .................... [ 87%]
kwant/tests/test_operator.py ................. [ 90%]
kwant/tests/test_plotter.py ................... [ 94%]
kwant/tests/test_qsymm.py ............ [ 96%]
kwant/tests/test_rmt.py .... [ 96%]
kwant/tests/test_system.py ..... [ 97%]
kwant/tests/test_wraparound.py ............ [100%]
=================================== FAILURES ===================================
________________________________ pyflakes-check ________________________________
/builds/quaeritis/kwant/kwant/builder.py:1565: UndefinedName
undefined name 'args'
/builds/quaeritis/kwant/kwant/builder.py:1567: UndefinedName
undefined name 'args'
____________________________ test_add_peierls_phase ____________________________
self = <kwant.builder.InfiniteSystem object at 0x7fd33e7460d0>, i = 1, j = 0
params = {'phi': functools.partial(<function _finite_wrapper at 0x7fd3470c1790>, <kwant.builder.FiniteSystem object at 0x7fd33e...r.InfiniteSystem object at 0x7fd33ec10490>, {(1, 6): (1+0j), (2, 7): (1+0j), (3, 8): (1+0j), (4, 9): (1+0j)}), 't': -1}
args = <map object at 0x7fd33eacf490>
value = <function _add_peierls_phase.<locals>.const_hopping at 0x7fd33ec16af0>
param_names = ('phi_lead0',)
def hamiltonian(self, i, j, *args, params=None):
if args and params:
raise TypeError("'args' and 'params' are mutually exclusive.")
if i == j:
value, param_names = self.onsites[i]
if param_names is not None: # 'value' is callable
site = self.symmetry.to_fd(self.sites[i])
if params:
# See body of _value_params_pair_cache().
if isinstance(param_names, Exception):
raise param_names
args = map(params.__getitem__, param_names)
try:
value = value(site, *args)
except Exception as exc:
if isinstance(exc, KeyError) and params:
missing = [p for p in param_names if p not in params]
if missing:
msg = ('System is missing required arguments: ',
', '.join(map('"{}"'.format, missing)))
raise TypeError(''.join(msg))
_raise_user_error(exc, value)
else:
edge_id = self.graph.first_edge_id(i, j)
value, param_names = self.hoppings[edge_id]
conj = value is Other
if conj:
i, j = j, i
edge_id = self.graph.first_edge_id(i, j)
value, param_names = self.hoppings[edge_id]
if param_names is not None: # 'value' is callable
sites = self.sites
site_i, site_j = self.symmetry.to_fd(sites[i], sites[j])
if params:
# See body of _value_params_pair_cache().
if isinstance(param_names, Exception):
raise param_names
args = map(params.__getitem__, param_names)
try:
> value = value(site_i, site_j, *args)
kwant/builder.py:1817:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
a = Site(kwant.lattice.Monatomic([[1.0, 0.0], [0.0, 1.0]], [0.0, 0.0], '', 1), array([0, 1]))
b = Site(kwant.lattice.Monatomic([[1.0, 0.0], [0.0, 1.0]], [0.0, 0.0], '', 1), array([0, 0]))
phi = functools.partial(<function _infinite_wrapper at 0x7fd3470c1820>, <kwant.builder.InfiniteSystem object at 0x7fd33e7460d0>, {(1, 6): (1+0j), (2, 7): (1+0j), (3, 8): (1+0j), (4, 9): (1+0j)})
def const_hopping(a, b, phi):
if signs is not None:
return np.dot(hop(a, b, *args), phi_matrix(phi(a, b), signs))
else:
> return hop(a, b, *args) * phi(a, b)
E NameError: name 'args' is not defined
kwant/builder.py:1567: NameError
The above exception was the direct cause of the following exception:
def test_add_peierls_phase():
lat = kwant.lattice.square(norbs=1)
syst = kwant.Builder()
syst[(lat(i, j) for i in range(5) for j in range(5))] = 4
syst[lat.neighbors()] = lambda a, b, t: -t
lead = kwant.Builder(kwant.TranslationalSymmetry((-1, 0)))
lead[(lat(0, j) for j in range(5))] = 4
lead[lat.neighbors()] = -1
# System without leads
syst_without_lead, phase_without_lead = builder.add_peierls_phase(syst)
assert isinstance(syst_without_lead, builder.FiniteSystem)
params_without_lead = phase_without_lead(1)
assert all(p in params_without_lead for p in ('phi',))
# System with leads
syst.attach_lead(lead)
syst.attach_lead(lead.reversed())
syst, phase = builder.add_peierls_phase(syst)
assert isinstance(syst, builder.FiniteSystem)
params = phase(1, 0, 0)
assert all(p in params for p in ('phi', 'phi_lead0', 'phi_lead1'))
> kwant.smatrix(syst, energy=0.1, params=dict(t=-1, **params))
kwant/tests/test_builder.py:1776:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
kwant/_common.py:73: in inner
return f(*args, **kwargs)
kwant/solvers/common.py:381: in smatrix
linsys, lead_info = self._make_linear_sys(syst, in_leads, energy, args,
kwant/solvers/common.py:204: in _make_linear_sys
prop, stab = lead.modes(energy, args, params=params)
kwant/_common.py:73: in inner
return f(*args, **kwargs)
kwant/system.py:788: in modes
ham = self.cell_hamiltonian(args, params=params)
kwant/_common.py:73: in inner
return f(*args, **kwargs)
kwant/system.py:904: in cell_hamiltonian
return self.hamiltonian_submatrix(args, cell_sites, cell_sites,
kwant/_common.py:73: in inner
return f(*args, **kwargs)
kwant/_system.pyx:340: in kwant._system.hamiltonian_submatrix
mat = func(ham, args, params, self.graph, diag, from_sites,
kwant/_system.pyx:190: in kwant._system.make_dense
h = matrix(ham(ts, fs, *args, params=params), complex)
kwant/builder.py:2798: in hamiltonian
return super().hamiltonian(i, j, *args, params=params)
kwant/builder.py:1825: in hamiltonian
_raise_user_error(exc, value)
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
exc = NameError("name 'args' is not defined")
func = <function _add_peierls_phase.<locals>.const_hopping at 0x7fd33ec16af0>
def _raise_user_error(exc, func):
msg = ('Error occurred in user-supplied value function "{0}".\n'
'See the upper part of the above backtrace for more information.')
> raise UserCodeError(msg.format(func.__name__)) from exc
E kwant._common.UserCodeError: Error occurred in user-supplied value function "const_hopping".
E See the upper part of the above backtrace for more information.
kwant/builder.py:1721: UserCodeError
=============================== warnings summary ===============================
../../../usr/local/envs/kwant-latest/lib/python3.9/site-packages/setuptools/lib2to3_ex.py:13
/usr/local/envs/kwant-latest/lib/python3.9/site-packages/setuptools/lib2to3_ex.py:13: PendingDeprecationWarning: lib2to3 package is deprecated and may not be able to parse Python 3.10+
from lib2to3.refactor import RefactoringTool, get_fixers_from_package
-- Docs: https://docs.pytest.org/en/stable/warnings.html
------------ generated xml file: /builds/quaeritis/kwant/tests.xml -------------
============================= slowest 10 durations =============================
5.60s call kwant/tests/test_qsymm.py::test_find_builder_discrete_symmetries
3.72s call kwant/tests/test_plotter.py::test_density_interpolation
2.63s call kwant/tests/test_plotter.py::test_current
2.55s call kwant/tests/test_plotter.py::test_plotly_plot
2.21s call kwant/tests/test_plotter.py::test_matplotlib_plot
2.00s call kwant/tests/test_qsymm.py::test_inverse_transform
2.00s call kwant/tests/test_plotter.py::test_current_interpolation
1.82s call kwant/tests/test_plotter.py::test_spectrum[matplotlib]
1.66s call kwant/physics/tests/test_gauge.py::test_minimal_cycle_basis[2-honeycomb-half-ring]
1.55s call kwant/tests/test_kpm.py::test_check_convergence_decreasing_values
============= 2 failed, 548 passed, 1 warning in 81.57s (0:01:21) ==============
section_end:1611141661:build_script
[0Ksection_start:1611141661:after_script
[0K[0K[36;1mRunning after_script[0;m
[0;msection_end:1611141663:after_script
[0Ksection_start:1611141663:upload_artifacts_on_failure
[0K[0K[36;1mUploading artifacts for failed job[0;m
[0;m[0KAuthenticating with credentials from /root/.docker/config.json
[0;m[32;1mUploading artifacts...[0;m
tests.xml: found 1 matching files [0;m
Uploading artifacts to coordinator... ok [0;m id[0;m=157905 responseStatus[0;m=201 Created token[0;m=K_uXrWRA
section_end:1611141666:upload_artifacts_on_failure
[0K[31;1mERROR: Job failed: exit code 1
[0;m