build:no-extras

Passed Started 4 years ago by
1Running with gitlab-runner 12.8.0 (1b659122)
2  on universal-tn3 a9da50a7
 3  Using Docker executor with image gitlab.kwant-project.org:5005/kwant/kwant ...  
  00:01
4Authenticating with credentials from job payload (GitLab Registry)
5Pulling docker image gitlab.kwant-project.org:5005/kwant/kwant ...
6Using docker image sha256:3b0a14e5028f34c59abed300d492408bf827d6fe5523e89ea589cab97af9f9c8 for gitlab.kwant-project.org:5005/kwant/kwant ...
 7  Authenticating with credentials from /root/.docker/config.json  
  00:02
8Running on runner-a9da50a7-project-1202-concurrent-2 via tnw-tn3.tudelft.net...
 9  Authenticating with credentials from /root/.docker/config.json  
  00:02
10Fetching changes...
11Reinitialized existing Git repository in /builds/quaeritis/kwant/.git/
12From https://gitlab.kwant-project.org/quaeritis/kwant
13 * [new ref]         refs/pipelines/49772 -> refs/pipelines/49772
14 * [new branch]      phi_matrix           -> origin/phi_matrix
15Checking out 888a0e6a as phi_matrix...
16Removing .pytest_cache/
17Removing __pycache__/
18Removing build.conf
19Removing build/
20Removing kwant/__pycache__/
21Removing kwant/_system.c
22Removing kwant/_system.cpython-37m-x86_64-linux-gnu.so
23Removing kwant/continuum/__pycache__/
24Removing kwant/continuum/tests/__pycache__/
25Removing kwant/graph/__pycache__/
26Removing kwant/graph/core.c
27Removing kwant/graph/core.cpython-37m-x86_64-linux-gnu.so
28Removing kwant/graph/dijkstra.c
29Removing kwant/graph/dijkstra.cpython-37m-x86_64-linux-gnu.so
30Removing kwant/graph/tests/__pycache__/
31Removing kwant/linalg/__pycache__/
32Removing kwant/linalg/_mumps.c
33Removing kwant/linalg/_mumps.cpython-37m-x86_64-linux-gnu.so
34Removing kwant/linalg/lapack.c
35Removing kwant/linalg/lapack.cpython-37m-x86_64-linux-gnu.so
36Removing kwant/linalg/tests/__pycache__/
37Removing kwant/operator.c
38Removing kwant/operator.cpython-37m-x86_64-linux-gnu.so
39Removing kwant/physics/__pycache__/
40Removing kwant/physics/tests/__pycache__/
41Removing kwant/solvers/__pycache__/
42Removing kwant/solvers/tests/__pycache__/
43Removing kwant/tests/__pycache__/
44Removing tests.xml
45Skipping Git submodules setup
 46  Authenticating with credentials from /root/.docker/config.json  
  00:03
 47  Authenticating with credentials from /root/.docker/config.json  
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 48  Authenticating with credentials from job payload (GitLab Registry)  
  02:01
49$ source deactivate
50DeprecationWarning: 'source deactivate' is deprecated. Use 'conda deactivate'.
51$ source activate kwant-stable-no-extras
52$ echo -e "[DEFAULT]\ndefine_macros = CYTHON_TRACE=1" >build.conf
53$ ./setup.py build
54Compiling kwant/_system.pyx because it changed.
55Compiling kwant/operator.pyx because it changed.
56Compiling kwant/graph/core.pyx because it changed.
57Compiling kwant/graph/dijkstra.pyx because it changed.
58Compiling kwant/linalg/lapack.pyx because it changed.
59[1/5] Cythonizing kwant/_system.pyx
60[2/5] Cythonizing kwant/graph/core.pyx
61[3/5] Cythonizing kwant/graph/dijkstra.pyx
62[4/5] Cythonizing kwant/linalg/lapack.pyx
63[5/5] Cythonizing kwant/operator.pyx
64running build
65running build_py
66creating build
67creating build/lib.linux-x86_64-3.7
68creating build/lib.linux-x86_64-3.7/kwant
69copying kwant/wraparound.py -> build/lib.linux-x86_64-3.7/kwant
70copying kwant/_kwant_version.py -> build/lib.linux-x86_64-3.7/kwant
71copying kwant/rmt.py -> build/lib.linux-x86_64-3.7/kwant
72copying kwant/system.py -> build/lib.linux-x86_64-3.7/kwant
73copying kwant/plotter.py -> build/lib.linux-x86_64-3.7/kwant
74copying kwant/qsymm.py -> build/lib.linux-x86_64-3.7/kwant
75copying kwant/builder.py -> build/lib.linux-x86_64-3.7/kwant
76copying kwant/kpm.py -> build/lib.linux-x86_64-3.7/kwant
77copying kwant/digest.py -> build/lib.linux-x86_64-3.7/kwant
78copying kwant/_common.py -> build/lib.linux-x86_64-3.7/kwant
79copying kwant/version.py -> build/lib.linux-x86_64-3.7/kwant
80copying kwant/lattice.py -> build/lib.linux-x86_64-3.7/kwant
81copying kwant/__init__.py -> build/lib.linux-x86_64-3.7/kwant
82copying kwant/_plotter.py -> build/lib.linux-x86_64-3.7/kwant
83copying kwant/_colormaps.py -> build/lib.linux-x86_64-3.7/kwant
84creating build/lib.linux-x86_64-3.7/kwant/graph
85copying kwant/graph/defs.py -> build/lib.linux-x86_64-3.7/kwant/graph
86copying kwant/graph/__init__.py -> build/lib.linux-x86_64-3.7/kwant/graph
87creating build/lib.linux-x86_64-3.7/kwant/physics
88copying kwant/physics/gauge.py -> build/lib.linux-x86_64-3.7/kwant/physics
89copying kwant/physics/dispersion.py -> build/lib.linux-x86_64-3.7/kwant/physics
90copying kwant/physics/leads.py -> build/lib.linux-x86_64-3.7/kwant/physics
91copying kwant/physics/noise.py -> build/lib.linux-x86_64-3.7/kwant/physics
92copying kwant/physics/symmetry.py -> build/lib.linux-x86_64-3.7/kwant/physics
93copying kwant/physics/__init__.py -> build/lib.linux-x86_64-3.7/kwant/physics
94creating build/lib.linux-x86_64-3.7/kwant/solvers
95copying kwant/solvers/common.py -> build/lib.linux-x86_64-3.7/kwant/solvers
96copying kwant/solvers/mumps.py -> build/lib.linux-x86_64-3.7/kwant/solvers
97copying kwant/solvers/sparse.py -> build/lib.linux-x86_64-3.7/kwant/solvers
98copying kwant/solvers/default.py -> build/lib.linux-x86_64-3.7/kwant/solvers
99copying kwant/solvers/__init__.py -> build/lib.linux-x86_64-3.7/kwant/solvers
100creating build/lib.linux-x86_64-3.7/kwant/linalg
101copying kwant/linalg/decomp_lu.py -> build/lib.linux-x86_64-3.7/kwant/linalg
102copying kwant/linalg/mumps.py -> build/lib.linux-x86_64-3.7/kwant/linalg
103copying kwant/linalg/lll.py -> build/lib.linux-x86_64-3.7/kwant/linalg
104copying kwant/linalg/cmumps.py -> build/lib.linux-x86_64-3.7/kwant/linalg
105copying kwant/linalg/fortran_helpers.py -> build/lib.linux-x86_64-3.7/kwant/linalg
106copying kwant/linalg/__init__.py -> build/lib.linux-x86_64-3.7/kwant/linalg
107copying kwant/linalg/decomp_ev.py -> build/lib.linux-x86_64-3.7/kwant/linalg
108copying kwant/linalg/decomp_schur.py -> build/lib.linux-x86_64-3.7/kwant/linalg
109creating build/lib.linux-x86_64-3.7/kwant/tests
110copying kwant/tests/test_comprehensive.py -> build/lib.linux-x86_64-3.7/kwant/tests
111copying kwant/tests/test_kpm.py -> build/lib.linux-x86_64-3.7/kwant/tests
112copying kwant/tests/test_plotter.py -> build/lib.linux-x86_64-3.7/kwant/tests
113copying kwant/tests/test_system.py -> build/lib.linux-x86_64-3.7/kwant/tests
114copying kwant/tests/test_rmt.py -> build/lib.linux-x86_64-3.7/kwant/tests
115copying kwant/tests/test_wraparound.py -> build/lib.linux-x86_64-3.7/kwant/tests
116copying kwant/tests/test_builder.py -> build/lib.linux-x86_64-3.7/kwant/tests
117copying kwant/tests/test_lattice.py -> build/lib.linux-x86_64-3.7/kwant/tests
118copying kwant/tests/test_qsymm.py -> build/lib.linux-x86_64-3.7/kwant/tests
119copying kwant/tests/test_operator.py -> build/lib.linux-x86_64-3.7/kwant/tests
120copying kwant/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/tests
121creating build/lib.linux-x86_64-3.7/kwant/continuum
122copying kwant/continuum/_common.py -> build/lib.linux-x86_64-3.7/kwant/continuum
123copying kwant/continuum/landau_levels.py -> build/lib.linux-x86_64-3.7/kwant/continuum
124copying kwant/continuum/__init__.py -> build/lib.linux-x86_64-3.7/kwant/continuum
125copying kwant/continuum/discretizer.py -> build/lib.linux-x86_64-3.7/kwant/continuum
126creating build/lib.linux-x86_64-3.7/kwant/graph/tests
127copying kwant/graph/tests/test_scotch.py -> build/lib.linux-x86_64-3.7/kwant/graph/tests
128copying kwant/graph/tests/test_core.py -> build/lib.linux-x86_64-3.7/kwant/graph/tests
129copying kwant/graph/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/graph/tests
130creating build/lib.linux-x86_64-3.7/kwant/physics/tests
131copying kwant/physics/tests/test_leads.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
132copying kwant/physics/tests/test_noise.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
133copying kwant/physics/tests/test_dispersion.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
134copying kwant/physics/tests/test_symmetry.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
135copying kwant/physics/tests/test_gauge.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
136copying kwant/physics/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/physics/tests
137creating build/lib.linux-x86_64-3.7/kwant/solvers/tests
138copying kwant/solvers/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/solvers/tests
139copying kwant/solvers/tests/test_solvers.py -> build/lib.linux-x86_64-3.7/kwant/solvers/tests
140creating build/lib.linux-x86_64-3.7/kwant/linalg/tests
141copying kwant/linalg/tests/test_mumps.py -> build/lib.linux-x86_64-3.7/kwant/linalg/tests
142copying kwant/linalg/tests/_test_utils.py -> build/lib.linux-x86_64-3.7/kwant/linalg/tests
143copying kwant/linalg/tests/test_linalg.py -> build/lib.linux-x86_64-3.7/kwant/linalg/tests
144copying kwant/linalg/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/linalg/tests
145copying kwant/linalg/tests/test_lll.py -> build/lib.linux-x86_64-3.7/kwant/linalg/tests
146creating build/lib.linux-x86_64-3.7/kwant/continuum/tests
147copying kwant/continuum/tests/test_common.py -> build/lib.linux-x86_64-3.7/kwant/continuum/tests
148copying kwant/continuum/tests/test_landau_levels.py -> build/lib.linux-x86_64-3.7/kwant/continuum/tests
149copying kwant/continuum/tests/test_discretizer.py -> build/lib.linux-x86_64-3.7/kwant/continuum/tests
150copying kwant/continuum/tests/__init__.py -> build/lib.linux-x86_64-3.7/kwant/continuum/tests
151copying kwant/operator.pxd -> build/lib.linux-x86_64-3.7/kwant
152copying kwant/graph/core.pxd -> build/lib.linux-x86_64-3.7/kwant/graph
153copying kwant/graph/defs.pxd -> build/lib.linux-x86_64-3.7/kwant/graph
154copying kwant/graph/c_scotch.pxd -> build/lib.linux-x86_64-3.7/kwant/graph
155copying kwant/graph/defs.h -> build/lib.linux-x86_64-3.7/kwant/graph
156copying kwant/linalg/cmumps.pxd -> build/lib.linux-x86_64-3.7/kwant/linalg
157running build_ext
158building 'kwant._system' extension
159creating build/temp.linux-x86_64-3.7
160creating build/temp.linux-x86_64-3.7/kwant
161gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DCYTHON_TRACE=1 -I./kwant/graph -Ikwant/graph -I/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include -I/usr/local/envs/kwant-stable-no-extras/include -I/usr/local/envs/kwant-stable-no-extras/include/python3.7m -c kwant/_system.c -o build/temp.linux-x86_64-3.7/kwant/_system.o
162In file included from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0,
163                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
164                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
165                 from kwant/_system.c:643:
166/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
167 #warning "Using deprecated NumPy API, disable it with " \
168  ^~~~~~~
169gcc -pthread -shared -B /usr/local/envs/kwant-stable-no-extras/compiler_compat -L/usr/local/envs/kwant-stable-no-extras/lib -Wl,-rpath=/usr/local/envs/kwant-stable-no-extras/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.7/kwant/_system.o -L/usr/local/envs/kwant-stable-no-extras/lib -o build/lib.linux-x86_64-3.7/kwant/_system.cpython-37m-x86_64-linux-gnu.so
170building 'kwant.operator' extension
171gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DCYTHON_TRACE=1 -I./kwant/graph -Ikwant/graph -I/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include -I/usr/local/envs/kwant-stable-no-extras/include -I/usr/local/envs/kwant-stable-no-extras/include/python3.7m -c kwant/operator.c -o build/temp.linux-x86_64-3.7/kwant/operator.o
172In file included from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0,
173                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
174                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
175                 from kwant/operator.c:646:
176/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
177 #warning "Using deprecated NumPy API, disable it with " \
178  ^~~~~~~
179gcc -pthread -shared -B /usr/local/envs/kwant-stable-no-extras/compiler_compat -L/usr/local/envs/kwant-stable-no-extras/lib -Wl,-rpath=/usr/local/envs/kwant-stable-no-extras/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.7/kwant/operator.o -L/usr/local/envs/kwant-stable-no-extras/lib -o build/lib.linux-x86_64-3.7/kwant/operator.cpython-37m-x86_64-linux-gnu.so
180building 'kwant.graph.core' extension
181creating build/temp.linux-x86_64-3.7/kwant/graph
182gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DCYTHON_TRACE=1 -I./kwant/graph -I/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include -I/usr/local/envs/kwant-stable-no-extras/include -I/usr/local/envs/kwant-stable-no-extras/include/python3.7m -c kwant/graph/core.c -o build/temp.linux-x86_64-3.7/kwant/graph/core.o
183In file included from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0,
184                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
185                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
186                 from kwant/graph/core.c:644:
187/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
188 #warning "Using deprecated NumPy API, disable it with " \
189  ^~~~~~~
190gcc -pthread -shared -B /usr/local/envs/kwant-stable-no-extras/compiler_compat -L/usr/local/envs/kwant-stable-no-extras/lib -Wl,-rpath=/usr/local/envs/kwant-stable-no-extras/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.7/kwant/graph/core.o -L/usr/local/envs/kwant-stable-no-extras/lib -o build/lib.linux-x86_64-3.7/kwant/graph/core.cpython-37m-x86_64-linux-gnu.so
191building 'kwant.graph.dijkstra' extension
192gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DCYTHON_TRACE=1 -I/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include -I/usr/local/envs/kwant-stable-no-extras/include -I/usr/local/envs/kwant-stable-no-extras/include/python3.7m -c kwant/graph/dijkstra.c -o build/temp.linux-x86_64-3.7/kwant/graph/dijkstra.o
193In file included from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0,
194                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
195                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
196                 from kwant/graph/dijkstra.c:641:
197/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
198 #warning "Using deprecated NumPy API, disable it with " \
199  ^~~~~~~
200gcc -pthread -shared -B /usr/local/envs/kwant-stable-no-extras/compiler_compat -L/usr/local/envs/kwant-stable-no-extras/lib -Wl,-rpath=/usr/local/envs/kwant-stable-no-extras/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.7/kwant/graph/dijkstra.o -L/usr/local/envs/kwant-stable-no-extras/lib -o build/lib.linux-x86_64-3.7/kwant/graph/dijkstra.cpython-37m-x86_64-linux-gnu.so
201building 'kwant.linalg.lapack' extension
202creating build/temp.linux-x86_64-3.7/kwant/linalg
203gcc -Wsign-compare -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -fPIC -DCYTHON_TRACE=1 -I/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include -I/usr/local/envs/kwant-stable-no-extras/include -I/usr/local/envs/kwant-stable-no-extras/include/python3.7m -c kwant/linalg/lapack.c -o build/temp.linux-x86_64-3.7/kwant/linalg/lapack.o
204In file included from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1822:0,
205                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:12,
206                 from /usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
207                 from kwant/linalg/lapack.c:640:
208/usr/local/envs/kwant-stable-no-extras/lib/python3.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
209 #warning "Using deprecated NumPy API, disable it with " \
210  ^~~~~~~
211gcc -pthread -shared -B /usr/local/envs/kwant-stable-no-extras/compiler_compat -L/usr/local/envs/kwant-stable-no-extras/lib -Wl,-rpath=/usr/local/envs/kwant-stable-no-extras/lib -Wl,--no-as-needed -Wl,--sysroot=/ build/temp.linux-x86_64-3.7/kwant/linalg/lapack.o -L/usr/local/envs/kwant-stable-no-extras/lib -o build/lib.linux-x86_64-3.7/kwant/linalg/lapack.cpython-37m-x86_64-linux-gnu.so
212******************************** Build summary ********************************
213No MUMPS support
214*******************************************************************************
215$ ./setup.py build_ext -i
216running build_ext
217copying build/lib.linux-x86_64-3.7/kwant/_system.cpython-37m-x86_64-linux-gnu.so -> kwant
218copying build/lib.linux-x86_64-3.7/kwant/operator.cpython-37m-x86_64-linux-gnu.so -> kwant
219copying build/lib.linux-x86_64-3.7/kwant/graph/core.cpython-37m-x86_64-linux-gnu.so -> kwant/graph
220copying build/lib.linux-x86_64-3.7/kwant/graph/dijkstra.cpython-37m-x86_64-linux-gnu.so -> kwant/graph
221copying build/lib.linux-x86_64-3.7/kwant/linalg/lapack.cpython-37m-x86_64-linux-gnu.so -> kwant/linalg
222******************************** Build summary ********************************
223No MUMPS support
224*******************************************************************************
 225  Authenticating with credentials from /root/.docker/config.json  
  00:02
 226  Authenticating with credentials from /root/.docker/config.json  
  00:09
227Uploading artifacts...
228untracked: found 99 files                          
229Uploading artifacts to coordinator... ok            id=157897 responseStatus=201 Created token=8BDmxxFS
230Job succeeded