Fwd: Re: Large memory usage by gdb

[Alex Lindsay <alexlindsay239 at gmail dot com>]

Thanks for your suggestion Philippe. I hope to try that this weekend.

Yao,
> What is your executable?
My project is here: github.com/arfc/moltres
>   Can you give us some characteristics of your
> executable to help us to reproduce this problem?  Is it multi-threaded
> program?
It can be parallelized with threads or MPI, but when running with gdb I
run single thread, single process.
>    Is it a C or C++ program?
C++
> Does it load many shared library?
Yes it does load *a lot* of shared libraries, so I do expect a fairly
large memory footprint, but I don't expect it to grow by large chunks
with time. In case it's of use here's the output from `ldd moltres-dbg`:

    linux-vdso.so.1 =>  (0x00007ffdaf953000)
    libmoltres-dbg.so.0 =>
/home/lindsayad/projects/moltres/lib/libmoltres-dbg.so.0
(0x00007f4fa02de000)
    libsquirrel-dbg.so.0 =>
/home/lindsayad/projects/moltres/squirrel/lib/libsquirrel-dbg.so.0
(0x00007f4f9ff4a000)
    libmodule_loader_with_fp_rdg_ns_tm_pf-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/module_loader/lib/libmodule_loader_with_fp_rdg_ns_tm_pf-dbg.so.0
(0x00007f4f9fd0b000)
    libphase_field-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/phase_field/lib/libphase_field-dbg.so.0
(0x00007f4f9f124000)
    libtensor_mechanics-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/tensor_mechanics/lib/libtensor_mechanics-dbg.so.0
(0x00007f4f9e733000)
    libnavier_stokes-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/navier_stokes/lib/libnavier_stokes-dbg.so.0
(0x00007f4f9e0d4000)
    librdg-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/rdg/lib/librdg-dbg.so.0
(0x00007f4f9dd9e000)
    libfluid_properties-dbg.so.0 =>
/home/lindsayad/projects/moose/modules/fluid_properties/lib/libfluid_properties-dbg.so.0
(0x00007f4f9da48000)
    libmoose-dbg.so.0 =>
/home/lindsayad/projects/moose/framework/libmoose-dbg.so.0
(0x00007f4f9b79c000)
    libpcre-dbg.so.0 =>
/home/lindsayad/projects/moose/framework/contrib/pcre/libpcre-dbg.so.0
(0x00007f4f9b567000)
    libgcc_s.so.1 => /opt/moose/gcc-6.2.0/lib64/libgcc_s.so.1
(0x00007f4f9b351000)
    libmesh_dbg.so.0 =>
/home/lindsayad/projects/moose/scripts/../libmesh/installed/lib/libmesh_dbg.so.0
(0x00007f4f98f16000)
    libnetcdf.so.11 => /usr/lib/x86_64-linux-gnu/libnetcdf.so.11
(0x00007f4f95bb0000)
    libvtkIOCore-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOCore-7.1.so.1
(0x00007f4f958e4000)
    libvtkCommonCore-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonCore-7.1.so.1
(0x00007f4f95052000)
    libvtkCommonDataModel-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonDataModel-7.1.so.1
(0x00007f4f948a0000)
    libvtkFiltersCore-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkFiltersCore-7.1.so.1
(0x00007f4f9404b000)
    libvtkIOXML-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOXML-7.1.so.1 (0x00007f4f93ce4000)
    libvtkImagingCore-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkImagingCore-7.1.so.1
(0x00007f4f9389a000)
    libvtkIOImage-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOImage-7.1.so.1
(0x00007f4f93452000)
    libvtkImagingMath-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkImagingMath-7.1.so.1
(0x00007f4f931fd000)
    libvtkIOParallelXML-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOParallelXML-7.1.so.1
(0x00007f4f92fb6000)
    libvtkParallelMPI-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkParallelMPI-7.1.so.1
(0x00007f4f92d98000)
    libvtkParallelCore-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkParallelCore-7.1.so.1
(0x00007f4f92aee000)
    libz.so.1 => /lib/x86_64-linux-gnu/libz.so.1 (0x00007f4f928d2000)
    libtbb.so.2 =>
/home/lindsayad/embree-2.15.0.x86_64.linux/lib/libtbb.so.2
(0x00007f4f92679000)
    libtbbmalloc.so.2 =>
/home/lindsayad/embree-2.15.0.x86_64.linux/lib/libtbbmalloc.so.2
(0x00007f4f92425000)
    libslepc.so.3.7 =>
/opt/moose/slepc/slepc-3.7.3-mpich-clang/lib/libslepc.so.3.7
(0x00007f4f91ff4000)
    libpetsc.so.3.7 =>
/opt/moose/petsc/mpich_petsc-3.7.5/clang-opt-superlu/lib/libpetsc.so.3.7
(0x00007f4f90c66000)
    libsuperlu_dist.so.5 =>
/opt/moose/petsc/mpich_petsc-3.7.5/clang-opt-superlu/lib/libsuperlu_dist.so.5
(0x00007f4f909b8000)
    libparmetis.so =>
/opt/moose/petsc/mpich_petsc-3.7.5/clang-opt-superlu/lib/libparmetis.so
(0x00007f4f9076d000)
    libmetis.so =>
/opt/moose/petsc/mpich_petsc-3.7.5/clang-opt-superlu/lib/libmetis.so
(0x00007f4f904ec000)
    libX11.so.6 => /usr/lib/x86_64-linux-gnu/libX11.so.6
(0x00007f4f901b3000)
    libhwloc.so.5 => /usr/lib/x86_64-linux-gnu/libhwloc.so.5
(0x00007f4f8ff78000)
    libmpifort.so.12 =>
/opt/moose/mpich/mpich-3.2/clang-opt/lib/libmpifort.so.12
(0x00007f4f8fd3c000)
    libgfortran.so.3 => /opt/moose/gcc-6.2.0/lib64/libgfortran.so.3
(0x00007f4f8fa16000)
    libgomp.so.1 => /opt/moose/gcc-6.2.0/lib64/libgomp.so.1
(0x00007f4f8f7e9000)
    libquadmath.so.0 => /opt/moose/gcc-6.2.0/lib64/libquadmath.so.0
(0x00007f4f8f5a8000)
    libmpicxx.so.12 =>
/opt/moose/mpich/mpich-3.2/clang-opt/lib/libmpicxx.so.12
(0x00007f4f8f37e000)
    libmpi.so.12 =>
/opt/moose/mpich/mpich-3.2/clang-opt/lib/libmpi.so.12 (0x00007f4f8ee09000)
    librt.so.1 => /lib/x86_64-linux-gnu/librt.so.1 (0x00007f4f8ec01000)
    libomp.so => /opt/moose/llvm-3.9.0/lib/libomp.so (0x00007f4f8e944000)
    libpthread.so.0 => /lib/x86_64-linux-gnu/libpthread.so.0
(0x00007f4f8e726000)
    libdl.so.2 => /lib/x86_64-linux-gnu/libdl.so.2 (0x00007f4f8e520000)
    libstdc++.so.6 => /opt/moose/gcc-6.2.0/lib64/libstdc++.so.6
(0x00007f4f8e1a0000)
    libm.so.6 => /lib/x86_64-linux-gnu/libm.so.6 (0x00007f4f8de97000)
    libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f4f8dad0000)
    libhdf5_serial_hl.so.100 =>
/usr/lib/x86_64-linux-gnu/libhdf5_serial_hl.so.100 (0x00007f4f8d882000)
    libhdf5_serial.so.100 =>
/usr/lib/x86_64-linux-gnu/libhdf5_serial.so.100 (0x00007f4f8d32b000)
    libcurl-gnutls.so.4 =>
/usr/lib/x86_64-linux-gnu/libcurl-gnutls.so.4 (0x00007f4f8d0b9000)
    libvtkCommonExecutionModel-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonExecutionModel-7.1.so.1
(0x00007f4f8cd89000)
    libvtkCommonMisc-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonMisc-7.1.so.1
(0x00007f4f8cb41000)
    libvtkzlib-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkzlib-7.1.so.1 (0x00007f4f8c922000)
    libvtkCommonTransforms-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonTransforms-7.1.so.1
(0x00007f4f8c6e4000)
    libvtkCommonMath-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonMath-7.1.so.1
(0x00007f4f8c4b7000)
    libvtksys-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtksys-7.1.so.1 (0x00007f4f8c227000)
    libvtkCommonSystem-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkCommonSystem-7.1.so.1
(0x00007f4f8c009000)
    libvtkIOXMLParser-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOXMLParser-7.1.so.1
(0x00007f4f8bde0000)
    libvtkDICOMParser-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkDICOMParser-7.1.so.1
(0x00007f4f8bb8a000)
    libvtkmetaio-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkmetaio-7.1.so.1
(0x00007f4f8b86a000)
    libvtkpng-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkpng-7.1.so.1 (0x00007f4f8b633000)
    libvtktiff-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtktiff-7.1.so.1 (0x00007f4f8b3a3000)
    libvtkjpeg-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkjpeg-7.1.so.1 (0x00007f4f8b173000)
    libvtkIOLegacy-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkIOLegacy-7.1.so.1
(0x00007f4f8ae6e000)
    libxcb.so.1 => /usr/lib/x86_64-linux-gnu/libxcb.so.1
(0x00007f4f8ac4c000)
    libnuma.so.1 => /usr/lib/x86_64-linux-gnu/libnuma.so.1
(0x00007f4f8aa41000)
    libltdl.so.7 => /usr/lib/x86_64-linux-gnu/libltdl.so.7
(0x00007f4f8a837000)
    /lib64/ld-linux-x86-64.so.2 (0x000056155f77e000)
    libsz.so.2 => /usr/lib/x86_64-linux-gnu/libsz.so.2 (0x00007f4f8a632000)
    libidn2.so.0 => /usr/lib/x86_64-linux-gnu/libidn2.so.0
(0x00007f4f8a410000)
    librtmp.so.1 => /usr/lib/x86_64-linux-gnu/librtmp.so.1
(0x00007f4f8a1f4000)
    libpsl.so.5 => /usr/lib/x86_64-linux-gnu/libpsl.so.5
(0x00007f4f89fe6000)
    libnettle.so.6 => /usr/lib/x86_64-linux-gnu/libnettle.so.6
(0x00007f4f89db0000)
    libgnutls.so.30 => /usr/lib/x86_64-linux-gnu/libgnutls.so.30
(0x00007f4f89a50000)
    libgssapi_krb5.so.2 =>
/usr/lib/x86_64-linux-gnu/libgssapi_krb5.so.2 (0x00007f4f89804000)
    liblber-2.4.so.2 => /usr/lib/x86_64-linux-gnu/liblber-2.4.so.2
(0x00007f4f895f6000)
    libldap_r-2.4.so.2 => /usr/lib/x86_64-linux-gnu/libldap_r-2.4.so.2
(0x00007f4f893a4000)
    libvtkexpat-7.1.so.1 =>
/opt/moose/VTK-7.1.0/clang-opt/lib/libvtkexpat-7.1.so.1 (0x00007f4f8916f000)
    libXau.so.6 => /usr/lib/x86_64-linux-gnu/libXau.so.6
(0x00007f4f88f69000)
    libXdmcp.so.6 => /usr/lib/x86_64-linux-gnu/libXdmcp.so.6
(0x00007f4f88d63000)
    libaec.so.0 => /usr/lib/x86_64-linux-gnu/libaec.so.0
(0x00007f4f88b5b000)
    libunistring.so.0 => /usr/lib/x86_64-linux-gnu/libunistring.so.0
(0x00007f4f88845000)
    libhogweed.so.4 => /usr/lib/x86_64-linux-gnu/libhogweed.so.4
(0x00007f4f88612000)
    libgmp.so.10 => /usr/lib/x86_64-linux-gnu/libgmp.so.10
(0x00007f4f88392000)
    libp11-kit.so.0 => /usr/lib/x86_64-linux-gnu/libp11-kit.so.0
(0x00007f4f8812b000)
    libidn.so.11 => /lib/x86_64-linux-gnu/libidn.so.11 (0x00007f4f87ef8000)
    libtasn1.so.6 => /usr/lib/x86_64-linux-gnu/libtasn1.so.6
(0x00007f4f87ce5000)
    libkrb5.so.3 => /usr/lib/x86_64-linux-gnu/libkrb5.so.3
(0x00007f4f87a10000)
    libk5crypto.so.3 => /usr/lib/x86_64-linux-gnu/libk5crypto.so.3
(0x00007f4f877de000)
    libcom_err.so.2 => /lib/x86_64-linux-gnu/libcom_err.so.2
(0x00007f4f875da000)
    libkrb5support.so.0 =>
/usr/lib/x86_64-linux-gnu/libkrb5support.so.0 (0x00007f4f873cd000)
    libresolv.so.2 => /lib/x86_64-linux-gnu/libresolv.so.2
(0x00007f4f871b2000)
    libsasl2.so.2 => /usr/lib/x86_64-linux-gnu/libsasl2.so.2
(0x00007f4f86f97000)
    libgssapi.so.3 => /usr/lib/x86_64-linux-gnu/libgssapi.so.3
(0x00007f4f86d55000)
    libffi.so.6 => /usr/lib/x86_64-linux-gnu/libffi.so.6
(0x00007f4f86b4d000)
    libkeyutils.so.1 => /lib/x86_64-linux-gnu/libkeyutils.so.1
(0x00007f4f86947000)
    libheimntlm.so.0 => /usr/lib/x86_64-linux-gnu/libheimntlm.so.0
(0x00007f4f8673e000)
    libkrb5.so.26 => /usr/lib/x86_64-linux-gnu/libkrb5.so.26
(0x00007f4f864b1000)
    libasn1.so.8 => /usr/lib/x86_64-linux-gnu/libasn1.so.8
(0x00007f4f8620e000)
    libhcrypto.so.4 => /usr/lib/x86_64-linux-gnu/libhcrypto.so.4
(0x00007f4f85fd7000)
    libroken.so.18 => /usr/lib/x86_64-linux-gnu/libroken.so.18
(0x00007f4f85dc1000)
    libwind.so.0 => /usr/lib/x86_64-linux-gnu/libwind.so.0
(0x00007f4f85b96000)
    libheimbase.so.1 => /usr/lib/x86_64-linux-gnu/libheimbase.so.1
(0x00007f4f85987000)
    libhx509.so.5 => /usr/lib/x86_64-linux-gnu/libhx509.so.5
(0x00007f4f8573c000)
    libsqlite3.so.0 => /usr/lib/x86_64-linux-gnu/libsqlite3.so.0
(0x00007f4f85435000)
    libcrypt.so.1 => /lib/x86_64-linux-gnu/libcrypt.so.1
(0x00007f4f851fd000)