[Espressomd-maintainer] Build failed in Jenkins: master-nightly-distchec

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[Espressomd-maintainer] Build failed in Jenkins: master-nightly-distchec

From:	Jenkins Demon
Subject:	[Espressomd-maintainer] Build failed in Jenkins: master-nightly-distcheck #209
Date:	Wed, 20 May 2015 00:55:03 +0200 (CEST)
See <http://espressomd.org/jenkins/job/master-nightly-distcheck/209/changes>

Changes:

[Florian Weik] improved documentation

------------------------------------------
[...truncated 1195 lines...]
  CXX      twist_stack_tcl.lo
  CXX      hydrogen_bond_tcl.lo
  CXX      minimize_energy_tcl.lo
  CXX      integrate_sd_tcl.lo
  CXX      bmhtf-nacl_tcl.lo
  CXX      buckingham_tcl.lo
  CXX      cos2_tcl.lo
  CXX      dpd_tcl.lo
  CXX      forcecap_tcl.lo
  CXX      gaussian_tcl.lo
  CXX      gb_tcl.lo
  CXX      hat_tcl.lo
  CXX      hertzian_tcl.lo
  CXX      lj_tcl.lo
  CXX      ljangle_tcl.lo
  CXX      ljcos2_tcl.lo
  CXX      ljcos_tcl.lo
  CXX      ljgen_tcl.lo
  CXX      morse_tcl.lo
  CXX      soft_sphere_tcl.lo
  CXX      steppot_tcl.lo
  CXX      tab_tcl.lo
  CXX      tunable_slip_tcl.lo
  CXX      angle_tcl.lo
  CXX      angle_harmonic_tcl.lo
  CXX      angle_cosine_tcl.lo
  CXX      angle_cossquare_tcl.lo
  CXX      angledist_tcl.lo
  CXX      dihedral_tcl.lo
  CXX      endangledist_tcl.lo
  CXX      fene_tcl.lo
  CXX      harmonic_dumbbell_tcl.lo
  CXX      harmonic_tcl.lo
  CXX      quartic_tcl.lo
  CXX      bonded_coulomb_tcl.lo
  CXX      overlap_tcl.lo
  CXX      subt_lj_tcl.lo
  CXX      umbrella_tcl.lo
  CXX      object-in-fluid/area_force_local_tcl.lo
  CXX      object-in-fluid/area_force_global_tcl.lo
  CXX      object-in-fluid/bending_force_tcl.lo
  CXX      object-in-fluid/stretching_force_tcl.lo
  CXX      object-in-fluid/stretchlin_force_tcl.lo
  CXX      object-in-fluid/volume_force_tcl.lo
  CXX      immersed_boundary/ibm_triel_tcl.lo
  CXX      immersed_boundary/ibm_volume_conservation_tcl.lo
  CXX      immersed_boundary/ibm_tribend_tcl.lo
  CXX      debye_hueckel_tcl.lo
  CXX      elc_tcl.lo
  CXX      magnetic_non_p3m_methods_tcl.lo
  CXX      maggs_tcl.lo
  CXX      mmm1d_tcl.lo
  CXX      mmm2d_tcl.lo
  CXX      p3m-dipolar_tcl.lo
  CXX      p3m_tcl.lo
  CXX      reaction_field_tcl.lo
  CXX      mdlc_correction_tcl.lo
  CXX      actor/Mmm1dgpu_tcl.lo
  CXX      actor/Ewaldgpu_tcl.lo
  CXX      actor/HarmonicWell_tcl.lo
  CXX      actor/HarmonicOrientationWell_tcl.lo
  CXX      cuda_init_tcl.lo
  CXXLD    libEspressoTcl.la
  CXX      libEspressoTcl4Py_la-scriptsdir.lo
  CXXLD    libEspressoTcl4Py.la
  CXX      Espresso_install-scriptsdir.o
  CXX      Espresso_install-main.o
  NVCC     cuda_workaround.o
  CXXLD    Espresso.install
  CXX      Espresso-scriptsdir.o
  CXX      Espresso-main.o
  CXXLD    Espresso
make[4]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/src/tcl'>
Making all in python/espressomd
make[4]: Entering directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/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[5]: Entering directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/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
  CXX      _system.lo
  CXXLD    _system.la
  GEN      _system.so
  CYTHON   particle_data.cpp
warning: 
<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/particle_data.pyx>:164:47:
 local variable 'x' referenced before assignment
warning: 
<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/particle_data.pyx>:165:16:
 local variable 'x' referenced before assignment
warning: 
<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/particle_data.pyx>:279:43:
 local variable 'x' referenced before assignment
warning: 
<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/particle_data.pyx>:280:16:
 local variable 'x' referenced before assignment
  CXX      particle_data.lo
In file included from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1804:0,
                 from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17,
                 from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from particle_data.cpp:250:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2:
 warning: #warning "Using deprecated NumPy API, disable it by " "#defining 
NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
 #warning "Using deprecated NumPy API, disable it by " \
  ^
In file included from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:26:0,
                 from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/arrayobject.h:4,
                 from particle_data.cpp:250:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__multiarray_api.h:1629:1:
 warning: 'int _import_array()' defined but not used [-Wunused-function]
 _import_array(void)
 ^
In file included from 
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/ufuncobject.h:317:0,
                 from particle_data.cpp:251:
/usr/lib64/python2.7/site-packages/numpy/core/include/numpy/__ufunc_api.h:241:1:
 warning: 'int _import_umath()' defined but not used [-Wunused-function]
 _import_umath(void)
 ^
  CXXLD    particle_data.la
  GEN      particle_data.so
  CYTHON   analyze.cpp

Error compiling Cython file:
------------------------------------------------------------
...

#
# Pressure analysis
#
def pressure(self, pressure_type = 'all', id1 = 'default', id2 = 'default', 
v_comp=False):
  cdef vector[string] pressure_labels
      ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:129:7:
 'vector' is not a type identifier

Error compiling Cython file:
------------------------------------------------------------
...
#
# Pressure analysis
#
def pressure(self, pressure_type = 'all', id1 = 'default', id2 = 'default', 
v_comp=False):
  cdef vector[string] pressure_labels
  cdef vector[double] pressures
      ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:130:7:
 'vector' is not a type identifier

Error compiling Cython file:
------------------------------------------------------------
...
    checkTypeOrExcept(id2, 1, int, "id2 must be an int")
    pressure = c_analyze.analyze_pressure_pair(pressure_type, id1, id2, v_comp)
    return pressure

def stress_tensor(self, stress_type = 'all', id1 = 'default', id2 = 'default', 
v_comp=False):
  cdef vector[string] stress_labels
      ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:151:7:
 'vector' is not a type identifier

Error compiling Cython file:
------------------------------------------------------------
...
    pressure = c_analyze.analyze_pressure_pair(pressure_type, id1, id2, v_comp)
    return pressure

def stress_tensor(self, stress_type = 'all', id1 = 'default', id2 = 'default', 
v_comp=False):
  cdef vector[string] stress_labels
  cdef vector[double] stresses
      ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:152:7:
 'vector' is not a type identifier

Error compiling Cython file:
------------------------------------------------------------
...
    c_pos[i] = pos[i]

  il = <IntList*> malloc(sizeof(IntList))
  c_analyze.nbhood(c_pos, r_catch, il, planedims)

  result = create_nparray_from_IntList(il)
                                     ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:120:38:
 undeclared name not builtin: create_nparray_from_IntList

Error compiling Cython file:
------------------------------------------------------------
...
    c_pos[i] = pos[i]

  il = <IntList*> malloc(sizeof(IntList))
  c_analyze.nbhood(c_pos, r_catch, il, planedims)

  result = create_nparray_from_IntList(il)
                                        ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:120:41:
 Cannot convert 'IntList *' to Python object

Error compiling Cython file:
------------------------------------------------------------
...
    c_range_start[i]=range_start[i]
    c_stress_range[i]=stress_range[i]
  
  if c_analyze.analyze_local_stress_tensor(c_periodicity, c_range_start, 
c_stress_range, c_bins, local_stress_tensor):
    raise Exception("Error while calculating local stress tensor")
  stress_tensor =  create_nparray_from_DoubleList(local_stress_tensor)
                                                ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:188:49:
 undeclared name not builtin: create_nparray_from_DoubleList

Error compiling Cython file:
------------------------------------------------------------
...
    c_range_start[i]=range_start[i]
    c_stress_range[i]=stress_range[i]
  
  if c_analyze.analyze_local_stress_tensor(c_periodicity, c_range_start, 
c_stress_range, c_bins, local_stress_tensor):
    raise Exception("Error while calculating local stress tensor")
  stress_tensor =  create_nparray_from_DoubleList(local_stress_tensor)
                                                                    ^
------------------------------------------------------------

<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/src/python/espressomd/analyze.pyx>:188:69:
 Cannot convert 'DoubleList *' to Python object
make[5]: *** [analyze.cpp] Error 1
make[5]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/src/python/espressomd'>
make[4]: *** [all] Error 2
make[4]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/src/python/espressomd'>
make[3]: *** [all-recursive] Error 1
make[3]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/src'>
make[2]: *** [all] Error 2
make[2]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build/src'>
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory 
`<http://espressomd.org/jenkins/job/master-nightly-distcheck/ws/espresso-3.4-dev-787-g2155c05/_build'>
make: *** [distcheck] Error 1
+ exit 1
Build step 'Execute shell' marked build as failure
[WARNINGS] Skipping publisher since build result is FAILURE
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