[deal.II] dealii installation issue on NERSC Cori

[Aaditya Lakshmanan]

Hi Everyone,
   I have been trying to install deal.ii on the NERSC Cori System and after 
a seemingly successful cmake and make install, make test yields failure for 
all the tests setup. I briefly detail the procedure I followed and the 
outputs and errors obtained.

As a pre-requisite I installed p4est using the setup script(with some 
modifications) and petsc manually with the configure.py script and 
appropriate settings. The following modules were loaded :

Currently Loaded Modulefiles:
  1) modules/3.2.11.4              5) craype-network-aries          9) 
PrgEnv-intel/6.0.5           13) valgrind/3.15.0
  2) altd/2.0                      6) craype/2.6.2                 10) 
craype-mic-knl               14) zlib/1.2.11
  3) darshan/3.1.7                 7) pmi/5.0.14                   11) 
cray-mpich/7.7.14            15) cmake/3.14.4
  4) intel/19.0.3.199              8) atp/2.1.3                    12) 
craype-hugepages2M           16) cray-hdf5-parallel/1.10.5.2


After setting the environment variables P4EST_DIR, PETSC_DIR and 
PETSC_ARCH, I compiled dealii-9.1.1 as follows :


*cmake -DCMAKE_SYSTEM_NAME=CrayLinuxEnvironment -DCMAKE_C_COMPILER=cc 
-DCMAKE_CXX_COMPILER=CC -DCMAKE_Fortran_COMPILER=ftn -DDEAL_II_WITH_MPI=ON 
-DDEAL_II_WITH_PETSC=ON -DDEAL_II_WITH_P4EST=ON -DDEAL_II_WITH_LAPACK=ON  
-DCMAKE_INSTALL_PREFIX=$CPFE_PACKAGES/dealii_install  ../dealii*

which ran successfully. I have attached the file *detailed.log*. Then 
installing via

*make -j8 install *

ran without issues. I have attached the output from the above command in 
the file *make_output.txt*. Then running the tests as 

*make -j4 test *

reports failure for all the tests. I have attached the entire output from 
the above command in the file test_output.txt and an example error below :

 2/11 Test  #2: step.release .....................***Failed    0.69 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10861: 
tests/quick_tests/CMakeFiles/step.release.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3713: step.release.run] Error 2
Test step.release: BUILD
===============================   OUTPUT BEGIN  
===============================
step.release: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_release


step.release: ******    BUILD failed    *******

===============================    OUTPUT END  
 ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 
(MESSAGE):
  *** abort

I  am unable to understand what the issue might. Any insight on this will 
be appreciated. Thank you.

Best,
Aaditya

-- 
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###
#
#  deal.II configuration:
#        CMAKE_BUILD_TYPE:       DebugRelease
#        BUILD_SHARED_LIBS:      ON
#        CMAKE_INSTALL_PREFIX:   
/global/project/projectdirs/m2360/packagesCPFE/dealii_install
#        CMAKE_SOURCE_DIR:       
/global/project/projectdirs/m2360/packagesCPFE/dealii
#                                (version 9.1.1, shortrev 777cf92a41)
#        CMAKE_BINARY_DIR:       
/global/project/projectdirs/m2360/packagesCPFE/build
#        CMAKE_CXX_COMPILER:     Intel 19.0.0.20190206 on platform 
CrayLinuxEnvironment x86_64
#                                /opt/cray/pe/craype/2.6.2/bin/CC
#        CMAKE_C_COMPILER:       /opt/cray/pe/craype/2.6.2/bin/cc
#        CMAKE_Fortran_COMPILER: /opt/cray/pe/craype/2.6.2/bin/ftn
#        CMAKE_GENERATOR:        Unix Makefiles
#
#        CROSSCOMPILING!
#
#  Base configuration (prior to feature configuration):
#        DEAL_II_CXX_FLAGS:            -fpic -ansi -w2 -diag-disable=remark 
-wd21 -wd68 -wd135 -wd175 -wd177 -wd191 -wd193 -wd279 -wd327 -wd383 -wd981 
-wd1418 -wd1478 -wd1572 -wd2259 -wd2536 -wd2651 -wd3415 -wd15531 -wd111 -wd128 
-wd185 -wd186 -wd280 -std=c++17
#        DEAL_II_CXX_FLAGS_RELEASE:    -O2 -no-ansi-alias -ip -funroll-loops
#        DEAL_II_CXX_FLAGS_DEBUG:      -O0 -g -gdwarf-2 -grecord-gcc-switches
#        DEAL_II_LINKER_FLAGS:         -Wl,--as-needed -shared-intel -rdynamic
#        DEAL_II_LINKER_FLAGS_RELEASE: 
#        DEAL_II_LINKER_FLAGS_DEBUG:   
#        DEAL_II_DEFINITIONS:          
#        DEAL_II_DEFINITIONS_RELEASE:  
#        DEAL_II_DEFINITIONS_DEBUG:    DEBUG
#        DEAL_II_USER_DEFINITIONS:     
#        DEAL_II_USER_DEFINITIONS_REL: 
#        DEAL_II_USER_DEFINITIONS_DEB: DEBUG
#        DEAL_II_INCLUDE_DIRS          
#        DEAL_II_USER_INCLUDE_DIRS:    
#        DEAL_II_BUNDLED_INCLUDE_DIRS: 
#        DEAL_II_LIBRARIES:            
#        DEAL_II_LIBRARIES_RELEASE:    
#        DEAL_II_LIBRARIES_DEBUG:      
#        DEAL_II_COMPILER_VECTORIZATION_LEVEL: 0
#
#  Configured Features (DEAL_II_ALLOW_BUNDLED = ON, DEAL_II_ALLOW_AUTODETECTION 
= ON):
#      ( DEAL_II_WITH_64BIT_INDICES = OFF )
#      ( DEAL_II_WITH_ADOLC = OFF )
#      ( DEAL_II_WITH_ARPACK = OFF )
#      ( DEAL_II_WITH_ASSIMP = OFF )
#        DEAL_II_WITH_BOOST set up with bundled packages
#            BOOST_BUNDLED_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/dealii/bundled/boost-1.62.0/include
#            BOOST_LIBRARIES = rt
#        DEAL_II_WITH_COMPLEX_VALUES = ON
#      ( DEAL_II_WITH_CUDA = OFF )
#        DEAL_II_WITH_CXX14 = ON
#        DEAL_II_WITH_CXX17 = ON
#      ( DEAL_II_WITH_GINKGO = OFF )
#      ( DEAL_II_WITH_GMSH = OFF )
#      ( DEAL_II_WITH_GSL = OFF )
#        DEAL_II_WITH_HDF5 set up with external dependencies
#            HDF5_DIR = /opt/cray/pe/hdf5-parallel/1.10.5.2/INTEL/19.0
#            HDF5_INCLUDE_DIRS = 
/opt/cray/pe/hdf5-parallel/1.10.5.2/INTEL/19.0/include
#            HDF5_USER_INCLUDE_DIRS = 
/opt/cray/pe/hdf5-parallel/1.10.5.2/INTEL/19.0/include
#            HDF5_LIBRARIES = 
/opt/cray/pe/hdf5-parallel/1.10.5.2/INTEL/19.0/lib/libhdf5_hl.so;/opt/cray/pe/hdf5-parallel/1.10.5.2/INTEL/19.0/lib/libhdf5.so
#        DEAL_II_WITH_LAPACK set up with external dependencies
#            LAPACK_WITH_64BIT_BLAS_INDICES = OFF
#            LAPACK_LINKER_FLAGS = 
#            LAPACK_INCLUDE_DIRS = 
#            LAPACK_USER_INCLUDE_DIRS = 
#            LAPACK_LIBRARIES = 
/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_intel_lp64.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_intel_thread.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_core.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64/libiomp5.so;-lm;-ldl;hugetlbfs;AtpSigHandler;AtpSigHCommData;z;hdf5_hl_parallel;hdf5_parallel;hdf5hl_fortran_parallel;hdf5_fortran_parallel;mpich_intel;mpichf90_intel;ifport;ifcoremt;imf;m;ipgo;irc;pthread;svml;gcc;gcc_s;irc_s;dl;c
#      ( DEAL_II_WITH_METIS = OFF )
#        DEAL_II_WITH_MPI set up with external dependencies
#            MPI_VERSION = 3.1
#            MPI_C_COMPILER = /opt/cray/pe/craype/2.6.2/bin/cc
#            MPI_CXX_COMPILER = /opt/cray/pe/craype/2.6.2/bin/CC
#            MPI_Fortran_COMPILER = /opt/cray/pe/craype/2.6.2/bin/ftn
#            MPI_CXX_FLAGS = 
#            MPI_LINKER_FLAGS = 
#            MPI_INCLUDE_DIRS = 
#            MPI_USER_INCLUDE_DIRS = 
#            MPI_LIBRARIES = 
#        DEAL_II_WITH_MUPARSER set up with bundled packages
#            MUPARSER_BUNDLED_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/dealii/bundled/muparser_v2_2_4//include
#      ( DEAL_II_WITH_NANOFLANN = OFF )
#      ( DEAL_II_WITH_NETCDF = OFF )
#      ( DEAL_II_WITH_OPENCASCADE = OFF )
#        DEAL_II_WITH_P4EST set up with external dependencies
#            P4EST_VERSION = 2.2
#            P4EST_DIR = 
/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial
#            P4EST_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/FAST/include
#            P4EST_USER_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/FAST/include
#            P4EST_LIBRARIES = 
optimized;/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/FAST/lib/libp4est.a;/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/FAST/lib/libsc.a;debug;/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/DEBUG/lib/libp4est.a;/global/project/projectdirs/m2360/packagesCPFE/p4est_install_trial/DEBUG/lib/libsc.a;general;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_intel_lp64.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_intel_thread.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_core.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/compiler/lib/intel64/libiomp5.so;-lm;-ldl;hugetlbfs;AtpSigHandler;AtpSigHCommData;z;hdf5_hl_parallel;hdf5_parallel;hdf5hl_fortran_parallel;hdf5_fortran_parallel;mpich_intel;mpichf90_intel;ifport;ifcoremt;imf;m;ipgo;irc;pthread;svml;gcc;gcc_s;irc_s;dl;c
#        DEAL_II_WITH_PETSC set up with external dependencies
#            PETSC_VERSION = 3.12.1.0
#            PETSC_DIR = 
/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1
#            PETSC_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1/include;/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1/arch-linux2-c-debug/include
#            PETSC_USER_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1/include;/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1/arch-linux2-c-debug/include
#            PETSC_LIBRARIES = 
/global/project/projectdirs/m2360/packagesCPFE/petsc-3.12.1/arch-linux2-c-debug/lib/libpetsc.so;/usr/lib64/liblapack.so;/usr/lib64/libblas.so;dl
#      ( DEAL_II_WITH_SCALAPACK = OFF )
#      ( DEAL_II_WITH_SLEPC = OFF )
#      ( DEAL_II_WITH_SUNDIALS = OFF )
#      ( DEAL_II_WITH_SYMENGINE = OFF )
#        DEAL_II_WITH_THREADS set up with bundled packages
#            TBB_VERSION = bundled
#            THREADS_CXX_FLAGS = -Wno-parentheses
#            THREADS_DEFINITIONS_DEBUG = TBB_USE_DEBUG;TBB_DO_ASSERT=1
#            THREADS_USER_DEFINITIONS_DEBUG = TBB_USE_DEBUG;TBB_DO_ASSERT=1
#            THREADS_BUNDLED_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/dealii/bundled/tbb-2018_U2/include
#            THREADS_LIBRARIES = dl
#      ( DEAL_II_WITH_TRILINOS = OFF )
#        DEAL_II_WITH_UMFPACK set up with bundled packages
#            UMFPACK_BUNDLED_INCLUDE_DIRS = 
/global/project/projectdirs/m2360/packagesCPFE/dealii/bundled/umfpack/UMFPACK/Include;/global/project/projectdirs/m2360/packagesCPFE/dealii/bundled/umfpack/AMD/Include
#        DEAL_II_WITH_ZLIB set up with external dependencies
#            ZLIB_VERSION = 1.2.11
#            ZLIB_INCLUDE_DIRS = /usr/include
#            ZLIB_LIBRARIES = /usr/lib64/libz.so
#
#  Component configuration:
#      ( DEAL_II_COMPONENT_DOCUMENTATION = OFF )
#        DEAL_II_COMPONENT_EXAMPLES
#      ( DEAL_II_COMPONENT_PACKAGE = OFF )
#      ( DEAL_II_COMPONENT_PYTHON_BINDINGS = OFF )
#
###
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[100%] Built target obj_fe_debug
[100%] Built target obj_numerics_debug
[100%] Linking CXX shared library ../lib/libdeal_II.g.so
[100%] Built target deal_II.g
Install the project...
-- Install configuration: "DebugRelease"
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/include/deal.II/base/config.h
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/./summary.log
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/./detailed.log
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/lib/libdeal_II.g.so
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/lib/libdeal_II.so
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/lib/cmake/deal.II/deal.IITargets-debugrelease.cmake
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/lib/cmake/deal.II/deal.IIConfig.cmake
-- Installing: 
/global/project/projectdirs/m2360/packagesCPFE/dealii_install/lib/cmake/deal.II/deal.IIFeatureConfig.cmake

Running quicktests...
Test project 
/global/project/projectdirs/m2360/packagesCPFE/build/tests/quick_tests
      Start  1: step.debug
      Start  2: step.release
      Start  3: affinity.debug
      Start  4: mpi.debug
      Start  5: tbb.debug
      Start  6: p4est.debug
      Start  7: step-petsc.debug
      Start  8: lapack.debug
      Start  9: umfpack.debug
      Start 10: hdf5.debug
      Start 11: boost_zlib.debug
 1/11 Test  #5: tbb.debug ........................***Failed    0.68 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10700: 
tests/quick_tests/CMakeFiles/tbb.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3648: tbb.debug.run] Error 2
Test tbb.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
tbb.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


tbb.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 2/11 Test  #2: step.release .....................***Failed    0.69 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10861: 
tests/quick_tests/CMakeFiles/step.release.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3713: step.release.run] Error 2
Test step.release: BUILD
===============================   OUTPUT BEGIN  ===============================
step.release: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_release


step.release: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 3/11 Test  #7: step-petsc.debug .................***Failed    0.69 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:11217: 
tests/quick_tests/CMakeFiles/step-petsc.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3856: step-petsc.debug.run] Error 2
Test step-petsc.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
step-petsc.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


step-petsc.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 4/11 Test #10: hdf5.debug .......................***Failed    0.69 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:11249: 
tests/quick_tests/CMakeFiles/hdf5.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3869: hdf5.debug.run] Error 2
Test hdf5.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
hdf5.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


hdf5.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 5/11 Test  #4: mpi.debug ........................***Failed    0.71 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10926: 
tests/quick_tests/CMakeFiles/mpi.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3739: mpi.debug.run] Error 2
Test mpi.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
mpi.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


mpi.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 6/11 Test #11: boost_zlib.debug .................***Failed    0.70 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10311: 
tests/quick_tests/CMakeFiles/boost_zlib.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3492: boost_zlib.debug.run] Error 2
Test boost_zlib.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
boost_zlib.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


boost_zlib.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 7/11 Test  #8: lapack.debug .....................***Failed    0.76 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10732: 
tests/quick_tests/CMakeFiles/lapack.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3661: lapack.debug.run] Error 2
Test lapack.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
lapack.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


lapack.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 8/11 Test  #3: affinity.debug ...................***Failed    1.03 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10764: 
tests/quick_tests/CMakeFiles/affinity.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3674: affinity.debug.run] Error 2
Test affinity.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
affinity.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


affinity.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



 9/11 Test  #6: p4est.debug ......................***Failed    1.04 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:11120: 
tests/quick_tests/CMakeFiles/p4est.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3817: p4est.debug.run] Error 2
Test p4est.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
p4est.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


p4est.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



10/11 Test  #9: umfpack.debug ....................***Failed    1.10 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10441: 
tests/quick_tests/CMakeFiles/umfpack.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3544: umfpack.debug.run] Error 2
Test umfpack.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
umfpack.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


umfpack.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort



11/11 Test  #1: step.debug .......................***Failed    1.12 sec
gmake[6]: *** read jobs pipe: Bad file descriptor.  Stop.
gmake[6]: *** Waiting for unfinished jobs....
gmake[5]: *** [CMakeFiles/Makefile2:10829: 
tests/quick_tests/CMakeFiles/step.debug.run.dir/rule] Error 2
gmake[4]: *** [Makefile:3700: step.debug.run] Error 2
Test step.debug: BUILD
===============================   OUTPUT BEGIN  ===============================
step.debug: BUILD failed. Output:
[  1%] Built target obj_boost_iostreams_debug


step.debug: ******    BUILD failed    *******

===============================    OUTPUT END   ===============================
Expected stage PASSED - aborting
CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/cmake/scripts/run_test.cmake:140
 (MESSAGE):
  *** abort




0% tests passed, 11 tests failed out of 11

Total Test time (real) =   1.13 sec

The following tests FAILED:
          1 - step.debug (Failed)
          2 - step.release (Failed)
          3 - affinity.debug (Failed)
          4 - mpi.debug (Failed)
          5 - tbb.debug (Failed)
          6 - p4est.debug (Failed)
          7 - step-petsc.debug (Failed)
          8 - lapack.debug (Failed)
          9 - umfpack.debug (Failed)
         10 - hdf5.debug (Failed)
         11 - boost_zlib.debug (Failed)
Errors while running CTest

***************************************************************************
**                 Error: Some of the quick tests failed.                **
***************************************************************************

Please scroll up or check the file tests/quick_tests/quicktests.log for the
error messages. If you are unable to fix the problems, see the FAQ or write
to the mailing list linked at http://www.dealii.org


The affinity test can fail when you are linking in a library like BLAS
which uses OpenMP. Even without calling any BLAS functions, OpenMP messes
with the thread affinity which causes TBB to run single-threaded only. You
can fix this by exporting OMP_NUM_THREADS=1. Also see GOMP_CPU_AFFINITY 
and OMP_PROC_BIND.


The p4est test can fail if you are running an OpenMPI version before 1.5.
This is a known problem and the only work around is to update to a more
recent version or use a different MPI library like MPICH.


Additional information about PETSc issues is available
at:
http://www.dealii.org/developer/external-libs/petsc.html

CMake Error at 
/global/project/projectdirs/m2360/packagesCPFE/dealii/tests/quick_tests/run.cmake:78
 (MESSAGE):


make[3]: *** [tests/quick_tests/CMakeFiles/test.dir/build.make:58: 
tests/quick_tests/CMakeFiles/test] Error 1
make[2]: *** [CMakeFiles/Makefile2:10240: 
tests/quick_tests/CMakeFiles/test.dir/all] Error 2
make[1]: *** [CMakeFiles/Makefile2:10247: 
tests/quick_tests/CMakeFiles/test.dir/rule] Error 2
make: *** [Makefile:3466: test] Error 2