[Espressomd-maintainer] Build failed in Jenkins: master-python-interface #199

[Jenkins Demon]

See <http://espressomd.org/jenkins/job/master-python-interface/199/changes>

Changes:

[Olaf Lenz] Incorporated cellsystem into system.pyx.

------------------------------------------
[...truncated 344 lines...]
Tcl version             = none
Tk version              = none

Python
------
python                  = /usr/bin/python
build python interface  = yes
preprocessor flags      = -I/usr/include/python2.7 -I/usr/include/python2.7 
-fno-strict-aliasing -fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 
-fstack-protector -funwind-tables -fasynchronous-unwind-tables -g -DNDEBUG 
-fmessage-length=0 -O2 -Wall -D_FORTIFY_SOURCE=2 -fstack-protector 
-funwind-tables -fasynchronous-unwind-tables -g 
-I/usr/lib64/python2.7/site-packages/numpy/core/include
linker flags            = -lpthread -ldl -lutil -lm -lpython2.7 -Xlinker 
-export-dynamic
extra flags             = -lpthread -ldl -lutil -lm -lpython2.7
extra linker flags      = 

Other settings
--------------
config                  = myconfig.hpp
installation prefix     = /home/jenkins/Espresso
number of test tasks    = 8
mympiexec               = 
<http://espressomd.org/jenkins/job/master-python-interface/ws/mympiexec.sh>
mpiexec                 = /usr/lib64/mpi/gcc/openmpi/bin/mpiexec
pdflatex                = /usr/bin/pdflatex
makeindex               = /usr/bin/makeindex
bibtex                  = /usr/bin/bibtex
doxygen                 = /usr/bin/doxygen
dot                     = /usr/bin/dot

END CONFIGURE
<http://espressomd.org/jenkins/job/master-python-interface/ws/>
+ maintainer/jenkins/build.sh
  srcdir=<http://espressomd.org/jenkins/job/master-python-interface/ws/>
  builddir=<http://espressomd.org/jenkins/job/master-python-interface/ws/>
  insource=true
START BUILD
  myconfig=default
  build_procs=1
<http://espressomd.org/jenkins/job/master-python-interface/ws/> 
<http://espressomd.org/jenkins/job/master-python-interface/ws/>
Using default myconfig.
>make -j 1
Making all in config
make[1]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/config'>
make[1]: Nothing to be done for `all'.
make[1]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/config'>
Making all in src
make[1]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src'>
make  all-recursive
make[2]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src'>
Making all in core
make[3]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/core'>
  GEN      myconfig-final.hpp <= ./myconfig-default.hpp
  GEN      config-features.hpp
make  all-am
make[4]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/core'>
  CXX      config-features.lo
  CXX      cells.lo
  CXX      collision.lo
  CXX      communication.lo
  CXX      comfixed.lo
  CXX      comforce.lo
  CXX      constraint.lo
  CXX      cuda_interface.lo
  CXX      debug.lo
  CXX      domain_decomposition.lo
  CXX      electrokinetics_pdb_parse.lo
  CXX      energy.lo
energy.cpp: In function 'void calc_long_range_energies()':
energy.cpp:170:11: warning: unused variable 'errtxt' [-Wunused-variable]
  CXX      external_potential.lo
external_potential.cpp: In function 'int write_local_lattice_to_file(const 
char*, Lattice*)':
external_potential.cpp:227:62: warning: format '%d' expects argument of type 
'int', but argument 3 has type 'size_t {aka long unsigned int}' [-Wformat]
  CXX      errorhandling.lo
  CXX      fft.lo
  CXX      fft-common.lo
  CXX      fft-dipolar.lo
  CXX      forcecap.lo
  CXX      forces.lo
forces.cpp: In function 'void calc_long_range_forces()':
forces.cpp:154:11: warning: unused variable 'errtxt' [-Wunused-variable]
  CXX      galilei.lo
  CXX      ghosts.lo
ghosts.cpp: In function 'void prepare_send_buffer(GhostCommunication*, int)':
ghosts.cpp:220:53: warning: format '%d' expects argument of type 'int', but 
argument 5 has type 'long int' [-Wformat]
ghosts.cpp: In function 'void put_recv_buffer(GhostCommunication*, int)':
ghosts.cpp:349:55: warning: format '%d' expects argument of type 'int', but 
argument 5 has type 'long int' [-Wformat]
ghosts.cpp:354:59: warning: format '%d' expects argument of type 'int', but 
argument 4 has type '__gnu_cxx::__normal_iterator<int*, std::vector<int> 
>::difference_type {aka long int}' [-Wformat]
ghosts.cpp: In function 'void add_forces_from_recv_buffer(GhostCommunication*)':
ghosts.cpp:380:55: warning: format '%d' expects argument of type 'int', but 
argument 5 has type 'long int' [-Wformat]
  CXX      global.lo
  CXX      grid.lo
  CXX      halo.lo
  CXX      iccp3m.lo
  CXX      imd.lo
  CXX      initialize.lo
  CXX      integrate.lo
  CXX      interaction_data.lo
  CXX      lattice.lo
  CXX      layered.lo
  CXX      lb.lo
  CXX      lb-boundaries.lo
  CXX      lbgpu.lo
  CXX      metadynamics.lo
  CXX      modes.lo
  CXX      molforces.lo
  CXX      mol_cut.lo
  CXX      nemd.lo
  CXX      nsquare.lo
  CXX      particle_data.lo
  CXX      polymer.lo
polymer.cpp: In function 'int constraint_collision(double*, double*)':
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_NONE' not handled in 
switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_ROD' not handled in 
switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_EXT_MAGN_FIELD' not 
handled in switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_PLANE' not handled 
in switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_STOMATOCYTE' not 
handled in switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_SLITPORE' not 
handled in switch [-Wswitch]
polymer.cpp:146:11: warning: enumeration value 'CONSTRAINT_HOLLOW_CONE' not 
handled in switch [-Wswitch]
  CXX      pressure.lo
  CXX      random.lo
  CXX      rattle.lo
  CXX      reaction.lo
  CXX      rotation.lo
  CXX      specfunc.lo
  CXX      statistics.lo
  CXX      statistics_chain.lo
  CXX      statistics_cluster.lo
  CXX      statistics_correlation.lo
  CXX      statistics_fluid.lo
  CXX      statistics_molecule.lo
  CXX      statistics_observable.lo
  CXX      statistics_wallstuff.lo
  CXX      thermostat.lo
  CXX      topology.lo
  CXX      tuning.lo
  CXX      uwerr.lo
  CXX      verlet.lo
  CXX      virtual_sites.lo
  CXX      virtual_sites_com.lo
  CXX      virtual_sites_relative.lo
  CXX      vmdsock.lo
  CXX      ghmc.lo
  CXX      EspressoSystemInterface.lo
  CXX      bmhtf-nacl.lo
  CXX      buckingham.lo
  CXX      dpd.lo
  CXX      gaussian.lo
  CXX      gb.lo
  CXX      hat.lo
  CXX      hertzian.lo
  CXX      lj.lo
  CXX      ljangle.lo
  CXX      ljcos.lo
  CXX      ljcos2.lo
  CXX      ljgen.lo
  CXX      morse.lo
  CXX      soft_sphere.lo
  CXX      steppot.lo
  CXX      tab.lo
  CXX      tunable_slip.lo
  CXX      angle.lo
  CXX      angle_harmonic.lo
  CXX      angle_cosine.lo
  CXX      angle_cossquare.lo
  CXX      angledist.lo
  CXX      dihedral.lo
  CXX      endangledist.lo
  CXX      fene.lo
  CXX      harmonic.lo
  CXX      quartic.lo
  CXX      overlap.lo
  CXX      bonded_coulomb.lo
  CXX      subt_lj.lo
  CXX      object-in-fluid/area_force_local.lo
  CXX      object-in-fluid/area_force_global.lo
  CXX      object-in-fluid/bending_force.lo
  CXX      object-in-fluid/stretching_force.lo
  CXX      object-in-fluid/stretchlin_force.lo
  CXX      object-in-fluid/volume_force.lo
  CXX      debye_hueckel.lo
  CXX      elc.lo
  CXX      magnetic_non_p3m_methods.lo
  CXX      mdlc_correction.lo
  CXX      maggs.lo
  CXX      mmm1d.lo
  CXX      mmm2d.lo
  CXX      mmm-common.lo
  CXX      p3m.lo
  CXX      p3m-common.lo
  CXX      p3m-dipolar.lo
  CXX      reaction_field.lo
  CXX      actor/ActorList.lo
  CXX      actor/HarmonicWell.lo
  CXX      actor/Mmm1dgpuForce.lo
  GEN      config-version.cpp
  CXX      config-version.lo
  NVCC     cuda_init_cuda.lo
  NVCC     cuda_common_cuda.lo
  NVCC     electrokinetics_cuda.lo
  NVCC     lbgpu_cuda.lo
  NVCC     p3m_gpu_cuda.lo
  NVCC     EspressoSystemInterface_cuda.lo
  NVCC     actor/Mmm1dgpuForce_cuda.lo
  NVCC     actor/HarmonicWell_cuda.lo
  CXXLD    libEspresso.la
make[4]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/core'>
make[3]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/core'>
Making all in python/espressomd
make[3]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/python/espressomd'>
  GEN      gen_pxiconfig.cpp
Reading definitions from ../../../src/features.def...
Done.
Writing gen_pxiconfig.cpp...
Done.
  CXXLD    gen_pxiconfig
  GEN      myconfig.pxi
make  all-am
make[4]: Entering directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/python/espressomd'>
  CXX      dummy.o
  CXXLD    dummy
  GEN      python-all
  CYTHON   _init.cpp
  CXX      _init.lo
  CXXLD    _init.la
  GEN      _init.so
  CYTHON   _system.cpp

Error compiling Cython file:
------------------------------------------------------------
...
# You should have received a copy of the GNU General Public License
# along with this program.  If not, see <http://www.gnu.org/licenses/>. 
#  
include "myconfig.pxi"

cimport _espresso
       ^
------------------------------------------------------------

_system.pyx:21:8: '_espresso.pxd' not found
make[4]: *** [_system.cpp] Error 1
make[4]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/python/espressomd'>
make[3]: *** [all] Error 2
make[3]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src/python/espressomd'>
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src'>
make[1]: *** [all] Error 2
make[1]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-python-interface/ws/src'>
make: *** [all-recursive] Error 1
+ exit 1
Build step 'Execute shell' marked build as failure
[WARNINGS] Skipping publisher since build result is FAILURE
Archiving artifacts