Help Needed with GEOS (geos-1.2.0) Installation – Compilation Error

[Razie-Sheikhansari]

Hi,
I’m trying to install GEOS (version 1.2.0), but I’m running into an issue during the compilation of the main GEOS code.

When I run make -j4, the build process stops at 66%. After checking the output, I noticed that the first error appears around 50%. All the previous steps completed successfully, so I’m not sure what’s causing the problem.

Has anyone encountered this issue or could help me troubleshoot it?

Thanks in advance!

[ 50%] Building CXX object coreComponents/physicsSolvers/solidMechanics/CMakeFiles/solidMechanicsSolvers.dir/__/__/__/generatedSrc/coreComponents/physicsSolvers/solidMechanics/kernels/SolidMechanicsKernels_CellElementSubRegion_DruckerPragerExtended_H1_Wedge_Lagrange1_Gauss6.cpp.o
In file included from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/LvArray/src/ArrayView.hpp:21,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/LvArray/src/Array.hpp:17,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/common/DataLayouts.hpp:25,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/common/DataTypes.hpp:30,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/common/format/StringUtilities.hpp:23,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/codingUtilities/Utilities.hpp:23,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/physicsSolvers/fluidFlow/wells/kernels/CompositionalMultiphaseWellKernels.hpp:23,
                 from /home/razieh/geos-1.2.0/GEOS/src/coreComponents/physicsSolvers/fluidFlow/wells/kernels/CompositionalMultiphaseWellKernels.cpp:20:
In function ‘void LvArray::bufferManipulation::copyInto(DST_BUFFER&, std::ptrdiff_t, const SRC_BUFFER&, std::ptrdiff_t)[with DST_BUFFER = LvArray::StackBuffer<double, 9>; SRC_BUFFER = LvArray::StackBuffer<double, 9>]’,
    inlined from ‘LvArray::Array<T, NDIM, PERMUTATION, INDEX_TYPE, BUFFER_TYPE>& LvArray::Array<T, NDIM, PERMUTATION, INDEX_TYPE, BUFFER_TYPE>::operator=(const LvArray::Array<T, NDIM, PERMUTATION, INDEX_TYPE, BUFFER_TYPE>&) [with T = double; int NDIM = 1; PERMUTATION = camp::int_seq<long int, 0>; INDEX_TYPE = int; BUFFER_TYPE = LvArray::internal::StackArrayHelper<double, 1, camp::int_seq<long int, 0>, int, 9>::BufferType]’ at /home/razieh/geos-1.2.0/GEOS/src/coreComponents/LvArray/src/Array.hpp:175:33,
    inlined from ‘LvArray::Array<T, NDIM, PERMUTATION, INDEX_TYPE, BUFFER_TYPE>::Array(const LvArray::Array<T, NDIM, PERMUTATION, INDEX_TYPE, BUFFER_TYPE>&) [with T = double; int NDIM = 1; PERMUTATION = camp::int_seq<long int, 0>; INDEX_TYPE = int; BUFFER_TYPE = LvArray::internal::StackArrayHelper<double, 1, camp::int_seq<long int, 0>, int, 9>::BufferType]’ at /home/razieh/geos-1.2.0/GEOS/src/coreComponents/LvArray/src/Array.hpp:140:11,
    inlined from ‘static void geos::compositionalMultiphaseWellKernels::PresTempCompFracInitializationKernel::launch(geos::localIndex, geos::localIndex, geos::integer, geos::integer, geos::localIndex, const geos::WellControls&, const geos::real64&, ElementViewConst<LvArray::ArrayView<const double, 1, 0, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 1, 0, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 2, 1, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 2, 1, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 3, 2, int, LvArray::ChaiBuffer> >&, geos::arrayView1d<const int>&, geos::arrayView1d<const int>&, geos::arrayView1d<const int>&, geos::arrayView1d<const double>&, geos::arrayView1d<const double>&, geos::arrayView1d<double>&, geos::arrayView1d<double>&, geos::arrayView2d<double>&)’ at /home/razieh/geos-1.2.0/GEOS/src/coreComponents/physicsSolvers/fluidFlow/wells/kernels/CompositionalMultiphaseWellKernels.cpp:637:52:
/home/razieh/geos-1.2.0/GEOS/src/coreComponents/LvArray/src/bufferManipulation.hpp:409:18: error: ‘void* __builtin_memcpy(void*, const void*, long unsigned int)’ forming offset [80, 87] is out of the bounds [0, 80] of object ‘avgCompFrac’ with type ‘geos::stackArray1d<double, 9>’ {aka ‘LvArray::Array<double, 1, camp::int_seq<long int, 0>, int, LvArray::internal::StackArrayHelper<double, 1, camp::int_seq<long int, 0>, int, 9>::BufferType>’} [-Werror=array-bounds=]
  409 |     dstData[ i ] = srcData[ i ];
      |     ~~~~~~~~~~~~~^~~~~~~~~~
/home/razieh/geos-1.2.0/GEOS/src/coreComponents/physicsSolvers/fluidFlow/wells/kernels/CompositionalMultiphaseWellKernels.cpp: In static member function ‘static void geos::compositionalMultiphaseWellKernels::PresTempCompFracInitializationKernel::launch(geos::localIndex, geos::localIndex, geos::integer, geos::integer, geos::localIndex, const geos::WellControls&, const geos::real64&, ElementViewConst<LvArray::ArrayView<const double, 1, 0, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 1, 0, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 2, 1, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 2, 1, int, LvArray::ChaiBuffer> >&, ElementViewConst<LvArray::ArrayView<const double, 3, 2, int, LvArray::ChaiBuffer> >&, geos::arrayView1d<const int>&, geos::arrayView1d<const int>&, geos::arrayView1d<const int>&, geos::arrayView1d<const double>&, geos::arrayView1d<const double>&, geos::arrayView1d<double>&, geos::arrayView1d<double>&, geos::arrayView2d<double>&)’:
/home/razieh/geos-1.2.0/GEOS/src/coreComponents/physicsSolvers/fluidFlow/wells/kernels/CompositionalMultiphaseWellKernels.cpp:562:39: note: ‘avgCompFrac’ declared here
  562 |  stackArray1d< real64, MAX_NUM_COMP > avgCompFrac;
      |                                       ^~~~~~~~~~~
cc1plus: all warnings being treated as errors
make[2]: *** [coreComponents/physicsSolvers/fluidFlow/CMakeFiles/fluidFlowSolvers.dir/build.make:342: coreComponents/physicsSolvers/fluidFlow/CMakeFiles/fluidFlowSolvers.dir/wells/kernels/CompositionalMultiphaseWellKernels.cpp.o] Error 1
make[2]: *** Waiting for unfinished jobs....

[av-novikov]

Dear @Razie-Sheikhansari,
The compilation error looks very similar to the problem discussed here. It is addressed in PR3640. So please pull the recent version of GEOS from develop branch and try to re-build.

[Razie-Sheikhansari]

Dear Aleks, Thank you for your help. I pulled the latest version of GEOS from the develop branch as suggested, and I’m happy to report that the compilation completed successfully. However, when running the test suite using ctest -V, I encountered the following results: 99% tests passed, 3 tests failed out of 230 Total Test time (real) = 1991.51 sec The following tests FAILED: 202 - testVTKImport_mpi (Failed) 209 - testFlowStatistics (Timeout) 230 - testDoxygenCheck (Failed) Errors while running CTest Output from these tests are in: /home/razieh/geos-1.2.0/GEOS/build-wsl-ubuntu-gcc-release/Testing/Temporary/LastTest.log Use "--rerun-failed --output-on-failure" to re-run the failed cases verbosely. Please let me know if there's anything specific I should check or adjust to resolve these failures. Best regards, Razieh Sheikh Ansari