Hi Matthias,
I have attached the 'detailed.log' file here. I will attempt what you
suggested. Thank you.
Best,
Aaditya
On Tuesday, August 25, 2020 at 5:10:30 PM UTC-4 Matthias Maier wrote:
>
> On Tue, Aug 25, 2020, at 00:07 CDT, Johannes Blaschke <jpbla...@lbl.gov>
> wrote:
>
> > But I am available to work with you directly -- however I cannot debug
> this
> > on my own (as the cmake setup is pretty huge!).
>
> Please have a look at the file `detailed.log` found in the build
> directory. It spells out the compiler, all compile flags and the full
> configured link interface. Do you see anything odd there?
>
> Aaditya, Johannes: Another point to check quickly is whether CMake
> itself does the right thing. Would you mind adding the following three
> lines to the main CMakeLists.txt file and examining the output?
>
> diff --git a/CMakeLists.txt b/CMakeLists.txt
> index ab24b8f477..dce1dcac08 100644
> --- a/CMakeLists.txt
> +++ b/CMakeLists.txt
> @@ -95,6 +95,10 @@
> VERBOSE_INCLUDE(${CMAKE_SOURCE_DIR}/cmake/setup_cached_variables.cmake)
> PROJECT(deal.II CXX C)
> ENABLE_LANGUAGE_OPTIONAL(Fortran)
>
> +message("Link directories: ${CMAKE_CXX_IMPLICIT_LINK_DIRECTORIES}")
> +message("Link libraries: ${CMAKE_CXX_IMPLICIT_LINK_LIBRARIES}")
> +message(FATAL_ERROR "exit")
> +
> VERBOSE_INCLUDE(${CMAKE_SOURCE_DIR}/cmake/setup_deal_ii.cmake)
>
> VERBOSE_INCLUDE(${CMAKE_SOURCE_DIR}/cmake/setup_compiler_flags.cmake)
>
>
> I expect that the AtpSigHandler library should be listed there.
>
> Best,
> Matthias
>
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###
#
# deal.II configuration:
# CMAKE_BUILD_TYPE: DebugRelease
# BUILD_SHARED_LIBS: ON
# CMAKE_INSTALL_PREFIX:
/global/project/projectdirs/m2360/packagesCPFE/dealii_trial
# 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 = OFF )
# 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;hdf5;hdf5hl_fortran;hdf5_fortran;mpich_intel;mpichf90_intel;ifport;ifcoremt;imf;m;ipgo;irc;pthread;svml;gcc;gcc_s;irc_s;dl;c
# DEAL_II_WITH_METIS set up with external dependencies
# METIS_VERSION = 5.1.0
# METIS_DIR =
/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj
# METIS_INCLUDE_DIRS =
/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/include
# METIS_USER_INCLUDE_DIRS =
/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/include
# METIS_LIBRARIES =
/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/lib/libmetis.a
# 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
# P4EST_INCLUDE_DIRS =
/global/project/projectdirs/m2360/packagesCPFE/p4est/include
# P4EST_USER_INCLUDE_DIRS =
/global/project/projectdirs/m2360/packagesCPFE/p4est/include
# P4EST_LIBRARIES =
/global/project/projectdirs/m2360/packagesCPFE/p4est/lib/libp4est.a;/global/project/projectdirs/m2360/packagesCPFE/p4est/lib/libsc.a;/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;hdf5;hdf5hl_fortran;hdf5_fortran;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 = 3.11.2.0
# PETSC_DIR =
/global/common/sw/cray/cnl7/haswell/petsc/3.11.2/intel/19.0.3.199/hocbntp
# PETSC_INCLUDE_DIRS =
/global/common/sw/cray/cnl7/haswell/petsc/3.11.2/intel/19.0.3.199/hocbntp/include;/global/common/sw/cray/cnl7/haswell/hypre/2.15.1/intel/19.0.3.199/2jbygqt/include;/global/common/sw/cray/cnl7/haswell/superlu-dist/6.1.1/intel/19.0.3.199/vnkv5xn/include;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/include;/global/common/sw/cray/cnl7/haswell/parmetis/4.0.3/intel/19.0.3.199/koc2n7v/include;/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/include;/global/common/sw/cray/cnl7/haswell/zlib/1.2.11/intel/19.0.3.199/si6pos6/include
# PETSC_USER_INCLUDE_DIRS =
/global/common/sw/cray/cnl7/haswell/petsc/3.11.2/intel/19.0.3.199/hocbntp/include;/global/common/sw/cray/cnl7/haswell/hypre/2.15.1/intel/19.0.3.199/2jbygqt/include;/global/common/sw/cray/cnl7/haswell/superlu-dist/6.1.1/intel/19.0.3.199/vnkv5xn/include;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/include;/global/common/sw/cray/cnl7/haswell/parmetis/4.0.3/intel/19.0.3.199/koc2n7v/include;/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/include;/global/common/sw/cray/cnl7/haswell/zlib/1.2.11/intel/19.0.3.199/si6pos6/include
# PETSC_LIBRARIES =
/global/common/sw/cray/cnl7/haswell/petsc/3.11.2/intel/19.0.3.199/hocbntp/lib/libpetsc.a;/global/common/sw/cray/cnl7/haswell/hypre/2.15.1/intel/19.0.3.199/2jbygqt/lib/libHYPRE.so;/global/common/sw/cray/cnl7/haswell/superlu-dist/6.1.1/intel/19.0.3.199/vnkv5xn/lib/libsuperlu_dist.a;/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_sequential.so;/opt/intel/compilers_and_libraries_2019.3.199/linux/mkl/lib/intel64/libmkl_core.so;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/lib/libhdf5hl_fortran.so;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/lib/libhdf5_fortran.so;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/lib/libhdf5_hl.so;/opt/cray/pe/hdf5/1.10.2.0/INTEL/16.0/lib/libhdf5.so;/global/common/sw/cray/cnl7/haswell/parmetis/4.0.3/intel/19.0.3.199/koc2n7v/lib/libparmetis.a;/global/common/sw/cray/cnl7/haswell/metis/5.1.0/intel/19.0.3.199/fpy6uzj/lib/libmetis.a;/global/common/sw/cray/cnl7/haswell/zlib/1.2.11/intel/19.0.3.199/si6pos6/lib/libz.a;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 )
#
###
