Hi folks,
For debugging purposes, I need to use the `distribute_local_to_global`
function which can distribute vectors and matrices separately (this guy in
the docs
<https://dealii.org/current/doxygen/deal.II/classAffineConstraints.html#ae02ed5ba9f1be9c34cf448a01b44abdb>).
However, when I try to use this one instead of the function which
simultaneously distributes a vector and a matrix (this guy in the docs
<https://dealii.org/current/doxygen/deal.II/classAffineConstraints.html#abe83a7964b516856f5acb8046ec63a15>)
it throws an `error while loading shared libraries: libpetsc.so.3.16:
cannot open shared object file: No such file or directory` error.
For an example of the behavior, I just replaced the following on line 416
of step-40:
// constraints.distribute_local_to_global(cell_matrix,
//
cell_rhs,
//
local_dof_indices,
//
system_matrix,
//
system_rhs);
constraints.distribute_local_to_global(cell_matrix,
local_dof_indices,
system_matrix);
constraints.distribute_local_to_global(cell_rhs,
local_dof_indices,
system_rhs);
This is sort of bizarre to me because (1) it doesn't throw the error in the
original tutorial case and (2) CMake ought to take care of the PETSc
dependency through the deal.II target. I've attached my detailed.log file
in case it's relevant.
Any help figuring out the problem is appreciated!
- Lucas
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###
#
# deal.II configuration:
# CMAKE_BUILD_TYPE: DebugRelease
# BUILD_SHARED_LIBS: ON
# CMAKE_INSTALL_PREFIX: /usr/local
# CMAKE_SOURCE_DIR: /home/lucas/Application-Data/dealii
# (version 10.0.0-pre, shortrev 24e77b90af)
# CMAKE_BINARY_DIR: /home/lucas/Application-Data/dealii/build
# CMAKE_CXX_COMPILER: GNU 9.3.0 on platform Linux x86_64
# /usr/bin/c++
# C++ language standard: C++14
# CMAKE_C_COMPILER: /usr/bin/cc
# CMAKE_GENERATOR: Unix Makefiles
#
# Base configuration (prior to feature configuration):
# DEAL_II_CXX_FLAGS: -fPIC -Wall -Wextra -Wmissing-braces -Woverloaded-virtual -Wpointer-arith -Wsign-compare -Wsuggest-override -Wswitch -Wsynth -Wwrite-strings -Wno-placement-new -Wno-deprecated-declarations -Wno-literal-suffix -Wno-psabi -Wno-class-memaccess -fopenmp-simd
# DEAL_II_CXX_FLAGS_RELEASE: -O2 -funroll-loops -funroll-all-loops -fstrict-aliasing -Wno-unused-local-typedefs
# DEAL_II_CXX_FLAGS_DEBUG: -O0 -ggdb -Wa,--compress-debug-sections
# DEAL_II_LINKER_FLAGS: -Wl,--as-needed -rdynamic -fuse-ld=gold -lpthread -fopenmp
# DEAL_II_LINKER_FLAGS_RELEASE:
# DEAL_II_LINKER_FLAGS_DEBUG: -ggdb
# DEAL_II_DEFINITIONS:
# DEAL_II_DEFINITIONS_RELEASE: NDEBUG
# DEAL_II_DEFINITIONS_DEBUG: DEBUG
# DEAL_II_USER_DEFINITIONS:
# DEAL_II_USER_DEFINITIONS_REL: NDEBUG
# 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_VECTORIZATION_WIDTH_IN_BITS: 0
# DEAL_II_HAVE_CXX14
#
# 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_ARBORX = OFF )
# ( DEAL_II_WITH_ARPACK = OFF )
# ( DEAL_II_WITH_ASSIMP = OFF )
# DEAL_II_WITH_BOOST set up with external dependencies
# BOOST_VERSION = 1.76.0
# BOOST_CXX_FLAGS = -Wno-unused-local-typedefs
# BOOST_DEFINITIONS = BOOST_NO_AUTO_PTR
# BOOST_USER_DEFINITIONS = BOOST_NO_AUTO_PTR
# BOOST_INCLUDE_DIRS = /usr/local/include
# BOOST_USER_INCLUDE_DIRS = /usr/local/include
# BOOST_LIBRARIES = /usr/local/lib/libboost_iostreams.so;/usr/local/lib/libboost_serialization.so;/usr/local/lib/libboost_system.so;/usr/local/lib/libboost_thread.so;/usr/local/lib/libboost_regex.so;/usr/local/lib/libboost_chrono.so;/usr/local/lib/libboost_date_time.so;/usr/local/lib/libboost_atomic.so
# DEAL_II_WITH_COMPLEX_VALUES = ON
# DEAL_II_WITH_CUDA set up with external dependencies
# CUDA_VERSION = 11.4
# CMAKE_CUDA_COMPILER = /usr/local/cuda-11.4/bin/nvcc
# CUDA_COMPUTE_CAPABILITY = 7.5
# DEAL_II_CUDA_FLAGS = -arch=sm_75
# DEAL_II_CUDA_FLAGS_RELEASE =
# DEAL_II_CUDA_FLAGS_DEBUG = -G
# CUDA_INCLUDE_DIRS = /usr/local/cuda-11.4/include
# CUDA_USER_INCLUDE_DIRS = /usr/local/cuda-11.4/include
# CUDA_LIBRARIES = /usr/local/cuda-11.4/lib64/libcudart.so;/usr/local/cuda-11.4/lib64/libcusparse.so;/usr/local/cuda-11.4/lib64/libcusolver.so
# ( DEAL_II_WITH_GINKGO = OFF )
# ( DEAL_II_WITH_GMSH = OFF )
# ( DEAL_II_WITH_GSL = OFF )
# ( DEAL_II_WITH_HDF5 = OFF )
# ( DEAL_II_WITH_KOKKOS = 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 = /usr/lib/x86_64-linux-gnu/liblapack.so;/usr/lib/x86_64-linux-gnu/libblas.so
# ( DEAL_II_WITH_METIS = OFF )
# DEAL_II_WITH_MPI set up with external dependencies
# MPI_VERSION = 3.1
# MPI_C_COMPILER = /usr/bin/mpicc
# MPI_CXX_COMPILER = /usr/bin/mpicxx
# MPI_CXX_FLAGS = -pthread
# MPI_LINKER_FLAGS = -pthread
# MPI_INCLUDE_DIRS = /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include
# MPI_USER_INCLUDE_DIRS = /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi;/usr/lib/x86_64-linux-gnu/openmpi/include
# MPI_LIBRARIES = /usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_cxx.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libopen-pal.so
# DEAL_II_WITH_MUPARSER set up with bundled packages
# MUPARSER_BUNDLED_INCLUDE_DIRS = /home/lucas/Application-Data/dealii/bundled/muparser_v2_2_4//include
# ( DEAL_II_WITH_OPENCASCADE = OFF )
# DEAL_II_WITH_P4EST set up with external dependencies
# P4EST_VERSION = 2.8
# P4EST_DIR = /home/lucas/Application-Data/p4est
# P4EST_INCLUDE_DIRS = /home/lucas/Application-Data/p4est/FAST/include
# P4EST_USER_INCLUDE_DIRS = /home/lucas/Application-Data/p4est/FAST/include
# P4EST_LIBRARIES = optimized;/home/lucas/Application-Data/p4est/FAST/lib/libp4est.so;/home/lucas/Application-Data/p4est/FAST/lib/libsc.so;debug;/home/lucas/Application-Data/p4est/DEBUG/lib/libp4est.so;/home/lucas/Application-Data/p4est/DEBUG/lib/libsc.so;general;/usr/lib/x86_64-linux-gnu/liblapack.so;/usr/lib/x86_64-linux-gnu/libblas.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so
# DEAL_II_WITH_PETSC set up with external dependencies
# PETSC_VERSION = 3.16.3.0
# PETSC_DIR = /home/lucas/Application-Data/petsc
# PETSC_INCLUDE_DIRS = /home/lucas/Application-Data/petsc/include;/home/lucas/Application-Data/petsc/x86_64/include
# PETSC_USER_INCLUDE_DIRS = /home/lucas/Application-Data/petsc/include;/home/lucas/Application-Data/petsc/x86_64/include
# PETSC_LIBRARIES = /home/lucas/Application-Data/petsc/x86_64/lib/libpetsc.so;/home/lucas/Application-Data/petsc/x86_64/lib/libHYPRE.so;/usr/lib/x86_64-linux-gnu/liblapack.so;/usr/lib/x86_64-linux-gnu/libblas.so;/usr/lib/x86_64-linux-gnu/libX11.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_usempif08.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_usempi_ignore_tkr.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi_mpifh.so;/usr/lib/x86_64-linux-gnu/openmpi/lib/libmpi.so;gfortran;m;quadmath;dl
# ( DEAL_II_WITH_SCALAPACK = OFF )
# ( DEAL_II_WITH_SLEPC = OFF )
# ( DEAL_II_WITH_SUNDIALS = OFF )
# ( DEAL_II_WITH_SYMENGINE = OFF )
# DEAL_II_WITH_TASKFLOW set up with bundled packages
# TASKFLOW_BUNDLED_INCLUDE_DIRS = /home/lucas/Application-Data/dealii/bundled/taskflow-2.5.0/include
# DEAL_II_WITH_TBB set up with bundled packages
# TBB_CXX_FLAGS = -Wno-parentheses
# TBB_BUNDLED_INCLUDE_DIRS = /home/lucas/Application-Data/dealii/bundled/tbb-2018_U2/include
# TBB_LIBRARIES = dl
# ( DEAL_II_WITH_TRILINOS = OFF )
# DEAL_II_WITH_UMFPACK set up with bundled packages
# UMFPACK_BUNDLED_INCLUDE_DIRS = /home/lucas/Application-Data/dealii/bundled/umfpack/UMFPACK/Include;/home/lucas/Application-Data/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/lib/x86_64-linux-gnu/libz.so
#
# Component configuration:
# ( DEAL_II_COMPONENT_DOCUMENTATION = OFF )
# DEAL_II_COMPONENT_EXAMPLES
# ( DEAL_II_COMPONENT_PACKAGE = OFF )
# ( DEAL_II_COMPONENT_PYTHON_BINDINGS = OFF )
#
###
