chaste-legacy.supp

#############################################################
# Suppressions of library errors in Ubuntu versions prior   #
# to our current memory testing base (Ubuntu 22.04).        #
#                                                           #
# New suppressions should NOT BE ADDED HERE but rather to   #
# the current suppression file "chaste.supp".               #
#                                                           #
# Some of these are very old but have been updated to use   #
# the "..." syntax which is available to modern versions    #
# of Valgrind.  If you spot suppressions of upsupported     #
# library versions then please feel free to remove them.    #
#############################################################



# Miscellaneous (PETSc or Boost)
################################
{
    Leak in nss_lookup_function
    Memcheck:Leak
    ...
    fun:PetscGetUserName
}
{
   Unset filename in HYPRE_BoomerAMG todo: should this be set?
   Memcheck:Cond
   ...
   fun:hypre_BoomerAMGSetPlotFileName
   ...
   fun:PCSetFromOptions
}
{
   leak due to boost bug (1)
   Memcheck:Leak
   fun:_Znwj
   ...
   fun:*WntConcentration*
}
{
   leak due to boost bug (2)
   Memcheck:Leak
   fun:_Znwj
   ...
   fun:_ZN13ArchiveOpener*
}
{
   leak due to boost bug (3)
   Memcheck:Leak
   fun:_Znwj
   ...
   fun:_ZN20OdeSystemInformation*Initialise*
}
{
   leak due to boost bug (4)
   Memcheck:Leak
   fun:_Znwj
   ...
   fun:_ZN27CellBasedSimulationArchiver*
}
{
   leak due to boost bug (5)
   Memcheck:Leak
   fun:_Znwj
   ...
   fun:_dl_init
}
{
   keyval create (malloc)
   Memcheck:Leak
   fun:malloc
   ...
   fun:PMPI_Keyval_create
}
{
   get-user-name-leak-generic
   Memcheck:Leak
   fun:malloc
   ...
   fun:_Z16PetscGetUserNamePc?
}
# OpenMPI https://github.com/cpmech/test-openmpi-valgrind
{
   OpenMPI/start_thread
   Memcheck:Leak
   match-leak-kinds: definite
   fun:malloc
   ...
   fun:clone
}
{
   leak due to boost bug (6)
   Memcheck:Leak
   fun:malloc
   fun:backtrace_symbols
   ...
   fun:_dl_fini
}
{
   dlopen-addr2
   Memcheck:Addr8
   obj:/lib/ld-*.so
   ...
   fun:dlopen
}
{
   dlsym-addr
   Memcheck:Addr8
   obj:/lib/ld-*.so
   ...
   fun:dlsym
}
# CVODE
#######
{
   CVODE    CVode stopping event todo - check this
   Memcheck:Cond
   fun:CVode
   fun:_ZN12CvodeAdaptor5SolveEP17AbstractOdeSystemRSt6vectorIdSaIdEEdddd
   fun:_ZN16TestCvodeAdaptor*
}
# HDF5
######
{
   H5F HDF5 file create
   Memcheck:Leak
   fun:malloc
   ...
   fun:H5F_open
}
# Obsolete syntax
#{
#   H5F: HDF5 write on closure
#   Memcheck:Param
#   pwritev(vector[...])
#   ...
#   fun:H5Fclose
#}
{
   H5F: HDF5-free-lists-variant2
   Memcheck:Param
   write(buf)
   ...
   fun:H5Fclose
}
# PETSc/OpenMPI
###############
{
   PetscFinalize    petsc finalize (malloc)
   Memcheck:Leak
   fun:malloc
   ...
   fun:*PetscFinalize*
}
{
   PetscInitialize    OpenMPI PETSc init (invalid read 8)
   Memcheck:Addr8
   ...
   fun:*PetscInitialize*
}
{
   PetscInitialize    mpi_init (calloc)
   Memcheck:Leak
   fun:calloc
   ...
   fun:*PetscInitialize*
}
{
   OpenMPI/PetscInitialize
   Memcheck:Leak
   match-leak-kinds: definite
   fun:calloc
   ...
   fun:PetscInitialize
}
{
   PetscInitialize    mpi_init (malloc)
   Memcheck:Leak
   fun:malloc
   ...
   fun:*PetscInitialize*
}
{
   PetscInitialize    get-user-name-4
   Memcheck:Leak
   fun:malloc
   ...
   fun:_Z15PetscInitializePiPPPcPKcS4_
}
{
   PetscInitialize    OpenMPI PETSc init (invalid read 4)
   Memcheck:Addr4
   fun:opal_os_dirpath_create
   ...
   fun:*PetscInitialize*
}
{
   PetscInitialize    mpi_init (realloc)
   Memcheck:Leak
   fun:realloc
   ...
   fun:*PetscInitialize*
}
{
   PetscInitialize    get-user-name-2
   Memcheck:Addr8
   obj:/lib/ld-2.6.1.so
   ...
   fun:_Z15PetscInitializePiPPPcPKcS4_
}
{
   PetscInitialize    get-user-name-6
   Memcheck:Addr8
   obj:/lib/ld-2.7.so
   ...
   fun:_Z15PetscInitializePiPPPcPKcS4_
}
{
   PetscInitialize    mpi_init (sched)
   Memcheck:Param
   sched_setaffinity(mask)
   ...
   fun:*PetscInitialize*
}
{
   PetscInitialize    mpi_init (writev)
   Memcheck:Param
   writev(vector[...])
   ...
   fun:*PetscInitialize*
}
# Boost
#######
{
   boost-archive-reset-object-address-cond-v34-doubles
   Memcheck:Cond
   fun:_ZN5boost7archive6detail14basic_iarchive20reset_object_addressEPKvS4_
   ...
   fun:_ZN5boost7archive6detail21load_non_pointer_typeINS0_13text_iarchiveESt6vectorIdSaIdEEE13load_standard6invokeERS3_RS6_
}
{
   boost-archive-reset-object-address-cond-v34-ints
   Memcheck:Cond
   fun:_ZN5boost7archive6detail14basic_iarchive20reset_object_addressEPKvS4_
   ...
   fun:_ZN5boost7archive6detail21load_non_pointer_typeINS0_13text_iarchiveESt6vectorIiSaIiEEE13load_standard6invokeERS3_RS6_
}
# Bug in Boost 1.44 - 1.46
{
   boost terminate bug
   Memcheck:Addr4
   fun:_ZNK5boost13serialization13typeid_system27extended_type_info_typeid_012is_less_thanERKNS0_18extended_type_infoE
   ...
   fun:__cxa_finalize
}
{
   boost serialization error
   Memcheck:Leak
   fun:_Znw*
   fun:_ZNK5boost13serialization16void_cast_detail11void_caster18recursive_registerEb
}
# Tetgen
########
{
   tetgen    Memory problem in Tetgen with quadratic meshes
   Memcheck:Cond
   fun:_ZN6tetgen10tetgenmesh13pointtraverseEv
   fun:_ZN6tetgen10tetgenmesh8outnodesEPNS_8tetgenioE
   fun:_ZN6tetgen14tetrahedralizeEPNS_14tetgenbehaviorEPNS_8tetgenioES3_S3_S3_
   fun:_ZN6tetgen14tetrahedralizeEPcPNS_8tetgenioES2_S2_S2_
   fun:_ZN13QuadraticMeshILj3EE15ConstructCuboidEjjj
   fun:_ZN23AbstractTetrahedralMeshILj3ELj3EE24ConstructRegularSlabMeshEdddd
}
{
   tetgen    Memory problem in Tetgen with quadratic meshes - different entry point
   Memcheck:Cond
   fun:_ZN6tetgen10tetgenmesh13pointtraverseEv
   fun:_ZN6tetgen10tetgenmesh8outnodesEPNS_8tetgenioE
   fun:_ZN6tetgen14tetrahedralizeEPNS_14tetgenbehaviorEPNS_8tetgenioES3_S3_S3_
   fun:_ZN6tetgen14tetrahedralizeEPcPNS_8tetgenioES2_S2_S2_
   fun:_ZN13QuadraticMeshILj3EE29ConstructFromLinearMeshReaderER18AbstractMeshReaderILj3ELj3EE
}
# VTK
#####
{
   vtk: VTK ExpandTable Writer UnRegister
   Memcheck:Cond
   fun:_ZN14vtkInformation11ExpandTableEv
   ...
      fun:_ZN16VertexMeshWriter*
}
{
   vtk: VTK ExpandTable Writer
   Memcheck:Cond
   fun:_ZN14vtkInformation11ExpandTableEv
   ...
   fun:*MeshWriter*
}
{
   vtk    VTK ExpandTable Reader
   Memcheck:Cond
   fun:_ZN14vtkInformation11ExpandTableEv
   ...
   fun:_ZN13VtkMeshReader*
}
{
   vtk: VTK-information leak
   Memcheck:Addr8
   fun:_ZN14vtkInformation15SetAsObjectBaseEP17vtkInformationKeyP13vtkObjectBase
   ...
   fun:_ZN12vtkXMLWriter5WriteEv
}
{
   vtk: VTK-information-copy
   Memcheck:Cond
   fun:_ZN14vtkInformation4CopyEPS_i
   ...
   fun:_ZN13VtkMeshReader*
}
{
   vtk: VTK-information delete
   Memcheck:Cond
   fun:_ZN14vtkInformationD*Ev
   ...
   fun:*V*Mesh*er*
}
{
   vtk: VTK ZLib
   Memcheck:Cond
   fun:inflateReset2
   ...
   fun:_ZN17vtkDataCompressor10UncompressEPKhmPhm
}
{
   vtk: VTK ZLib with fewer inits
   Memcheck:Cond
   fun:inflateReset2
   ...
   fun:_ZN21vtkZLibDataCompressor16UncompressBufferEPKhmPhm
}
#
# Xerces memory error
#
{
   xerces-reader
   Memcheck:Cond
   fun:_ZN11xercesc_2_717XMLUTF8Transcoder13transcodeFromEPKhjPtjRjPh
   fun:_ZN11xercesc_2_79XMLReader14xcodeMoreCharsEPtPhj
   fun:_ZN11xercesc_2_79XMLReader17refreshCharBufferEv
}