[MOAB-dev] crash with clang compiler
Rajeev Jain
jain at mcs.anl.gov
Mon Jun 3 14:55:02 CDT 2013
I use clang compilers. Haven't seen the error that you see.
==> gcc -v
Using built-in specs.
Target: i686-apple-darwin11
Configured with: /private/var/tmp/llvmgcc42/llvmgcc42-2336.11~182/src/configure --disable-checking --enable-werror --prefix=/Applications/Xcode.app/Contents/Developer/usr/llvm-gcc-4.2 --mandir=/share/man --enable-languages=c,objc,c++,obj-c++ --program-prefix=llvm- --program-transform-name=/^[cg][^.-]*$/s/$/-4.2/ --with-slibdir=/usr/lib --build=i686-apple-darwin11 --enable-llvm=/private/var/tmp/llvmgcc42/llvmgcc42-2336.11~182/dst-llvmCore/Developer/usr/local --program-prefix=i686-apple-darwin11- --host=x86_64-apple-darwin11 --target=i686-apple-darwin11 --with-gxx-include-dir=/usr/include/c++/4.2.1
Thread model: posix
gcc version 4.2.1 (Based on Apple Inc. build 5658) (LLVM build 2336.11.00)
==> mpiexec -Version
mpiexec (OpenRTE) 1.6.4
Rajeev
>________________________________
> From: Barry Smith <bsmith at mcs.anl.gov>
>To: "moab-dev at mcs.anl.gov" <moab-dev at mcs.anl.gov>
>Sent: Monday, June 3, 2013 2:06 PM
>Subject: [MOAB-dev] crash with clang compiler
>
>
>
> This is with the nightly version of moab.
>
> Do any of you guys build on the Mac with the clang compilers?
>
> Barry
>
>=============================================================================== Running make on MOAB; this may take several minutes ===============================================================================
*******************************************************************************
> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):
>-------------------------------------------------------------------------------
>Error running make; make install on MOAB: Could not execute "cd /Users/barrysmith/Src/PETSc/externalpackages/moab-4.7.0pre && make && make install":
>make all-recursive
>Making all in src
>make all-recursive
>Making all in parallel
>make all-am
>/bin/sh ../../libtool --tag=CXX --mode=compile /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelComm.lo -MD -MP -MF .deps/ParallelComm.Tpo -c -o ParallelComm.lo ParallelComm.cpp
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelComm.lo -MD -MP -MF .deps/ParallelComm.Tpo -c ParallelComm.cpp -fno-common -DPIC -o .libs/ParallelComm.o
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelComm.lo -MD -MP -MF .deps/ParallelComm.Tpo -c ParallelComm.cpp -o ParallelComm.o >/dev/null 2>&1
>mv -f .deps/ParallelComm.Tpo .deps/ParallelComm.Plo
>/bin/sh ../../libtool --tag=CXX --mode=compile /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ProcConfig.lo -MD -MP -MF .deps/ProcConfig.Tpo -c -o ProcConfig.lo ProcConfig.cpp
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ProcConfig.lo -MD -MP -MF .deps/ProcConfig.Tpo -c ProcConfig.cpp -fno-common -DPIC -o .libs/ProcConfig.o
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ProcConfig.lo -MD -MP -MF .deps/ProcConfig.Tpo -c ProcConfig.cpp -o ProcConfig.o >/dev/null 2>&1
>mv -f .deps/ProcConfig.Tpo .deps/ProcConfig.Plo
>/bin/sh ../../libtool --tag=CXX --mode=compile /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelData.lo -MD -MP -MF .deps/ParallelData.Tpo -c -o ParallelData.lo ParallelData.cpp
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelData.lo -MD -MP -MF .deps/ParallelData.Tpo -c ParallelData.cpp -fno-common -DPIC -o .libs/ParallelData.o
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelData.lo -MD -MP -MF .deps/ParallelData.Tpo -c ParallelData.cpp -o ParallelData.o >/dev/null 2>&1
>mv -f .deps/ParallelData.Tpo .deps/ParallelData.Plo
>/bin/sh ../../libtool --tag=CXX --mode=compile /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelMergeMesh.lo -MD -MP -MF .deps/ParallelMergeMesh.Tpo -c -o ParallelMergeMesh.lo
ParallelMergeMesh.cpp
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelMergeMesh.lo -MD -MP -MF .deps/ParallelMergeMesh.Tpo -c ParallelMergeMesh.cpp -fno-common -DPIC -o .libs/ParallelMergeMesh.o
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ParallelMergeMesh.lo -MD -MP -MF .deps/ParallelMergeMesh.Tpo -c ParallelMergeMesh.cpp -o ParallelMergeMesh.o >/dev/null 2>&1
>mv -f .deps/ParallelMergeMesh.Tpo .deps/ParallelMergeMesh.Plo
>/bin/sh ../../libtool --tag=CXX --mode=compile /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ReadParallel.lo -MD -MP -MF .deps/ReadParallel.Tpo -c -o ReadParallel.lo ReadParallel.cpp
>libtool: compile: /Users/barrysmith/Src/PETSc/arch-xolotl/bin/mpicxx -DHAVE_CONFIG_H -I. -I../.. -I../../src/moab -I../../src -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -I/Users/barrysmith/Src/PETSc/arch-xolotl/include -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -DTEMPLATE_SPECIALIZATION -DTEMPLATE_FUNC_SPECIALIZATION -DHAVE_VSNPRINTF -D_FILE_OFFSET_BITS=64 -DUSE_MPI -DHDF5_FILE -DHDF5_PARALLEL -DNETCDF_FILE -DIS_BUILDING_MB -DSRCDIR=. -I./.. -I.. -I./../io -I./../io/mhdf/include -DUNORDERED_MAP_NS=std::tr1 -DHAVE_UNORDERED_MAP=tr1/unordered_map -DHAVE_UNORDERED_SET=tr1/unordered_set -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -g -fPIC -Wall -pipe -pedantic -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -MT ReadParallel.lo -MD -MP -MF .deps/ReadParallel.Tpo -c ReadParallel.cpp -fno-common -DPIC -o .libs/ReadParallel.o
>In file included from ParallelComm.cpp:2:
>./moab/ParallelComm.hpp:737:33: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> void set_stored_size() {*((int*)mem_ptr) = (int)(buff_ptr - mem_ptr);}
> ^~~~~~~~~~~~~
>./moab/ParallelComm.hpp:738:39: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int get_stored_size() {return *((int*)mem_ptr);}
> ^~~~~~~~~~~~~
>ParallelComm.cpp:605:11: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> *((int*)(buff.mem_ptr + prev_size)) = buff_size;
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:692:26: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> (int*)(remoteOwnedBuffs[ind]->mem_ptr),
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:1137:30: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> (int*)(localOwnedBuffs[ind2/2]->mem_ptr),
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:3734:53: warning: cast from 'int *' to 'long *' increases required alignment from 4 to 8 [-Wcast-align]
> result = gsd->initialize(skin_ents[0].size(), (long*)&gid_data[0],
> ^~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:5469:27: warning: argument type 'int *' doesn't match specified 'MPI' type tag that requires 'unsigned char *' [-Wtype-safety]
> success = MPI_Irecv(ack_buff, sizeof(int),
> ^~~~~~~~
>ParallelComm.cpp:5561:16: warning: cast from 'unsigned char *' to 'size_t *' (aka 'unsigned long *') increases required alignment from 1 to 8 [-Wcast-align]
> assert(*((size_t*)send_buff->mem_ptr) > INITIAL_BUFF_SIZE);
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~
>/usr/include/assert.h:93:25: note: expanded from macro 'assert'
> (__builtin_expect(!(e), 0) ? __assert_rtn(__func__, __FILE__, __LINE__, #e) : (void)0)
> ^
>ParallelComm.cpp:8183:25: warning: argument type 'moab::ParallelComm::SharedEntityData *' doesn't match specified 'MPI' type tag that requires 'unsigned char *' [-Wtype-safety]
> ierr = MPI_Irecv( &result[i][0],
> ^~~~~~~~~~~~~
>ParallelComm.cpp:8193:25: warning: argument type 'moab::ParallelComm::SharedEntityData *' doesn't match specified 'MPI' type tag that requires 'unsigned char *' [-Wtype-safety]
> ierr = MPI_Isend( &send_data[i][0],
> ^~~~~~~~~~~~~~~~
>ParallelComm.cpp:8588:17: warning: cast from 'char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int numents = *(int*)(((char*)recvbuf)+displs[i]);
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:8589:16: warning: cast from 'char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int* id_ptr = (int*)(((char*)recvbuf)+displs[i]+sizeof(int));
> ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>ParallelComm.cpp:8715:70: warning: cast from 'unsigned char *' to 'double *' increases required alignment from 1 to 8 [-Wcast-align]
> result = mbImpl->get_coords(&intx_nodes[0], intx_nodes.size(), (double*)buff->buff_ptr);
> ^~~~~~~~~~~~~~~~~~~~~~~
>13 warnings generated.
>In file included from ParallelData.cpp:2:
>./moab/ParallelComm.hpp:737:33: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> void set_stored_size() {*((int*)mem_ptr) = (int)(buff_ptr - mem_ptr);}
> ^~~~~~~~~~~~~
>./moab/ParallelComm.hpp:738:39: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int get_stored_size() {return *((int*)mem_ptr);}
> ^~~~~~~~~~~~~
>2 warnings generated.
>In file included from ParallelMergeMesh.cpp:1:
>In file included from ./moab/ParallelMergeMesh.hpp:7:
>./moab/ParallelComm.hpp:737:33: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> void set_stored_size() {*((int*)mem_ptr) = (int)(buff_ptr - mem_ptr);}
> ^~~~~~~~~~~~~
>./moab/ParallelComm.hpp:738:39: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int get_stored_size() {return *((int*)mem_ptr);}
> ^~~~~~~~~~~~~
>2 warnings generated.
>In file included from ReadParallel.cpp:8:
>./moab/ParallelComm.hpp:737:33: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> void set_stored_size() {*((int*)mem_ptr) = (int)(buff_ptr - mem_ptr);}
> ^~~~~~~~~~~~~
>./moab/ParallelComm.hpp:738:39: warning: cast from 'unsigned char *' to 'int *' increases required alignment from 1 to 4 [-Wcast-align]
> int get_stored_size() {return *((int*)mem_ptr);}
> ^~~~~~~~~~~~~
>0 clang 0x0000000100c57bb2 main + 12932498
>Stack dump:
>0. Program arguments: /usr/bin/clang -cc1 -triple x86_64-apple-macosx10.8.0 -emit-obj -mrelax-all -disable-free -disable-llvm-verifier -main-file-name ReadParallel.cpp -pic-level 2 -mdisable-fp-elim -masm-verbose -munwind-tables -target-cpu core2 -target-linker-version 136 -g -coverage-file /Users/barrysmith/Src/PETSc/externalpackages/moab-4.7.0pre/src/parallel/.libs/ReadParallel.o -resource-dir /usr/bin/../lib/clang/4.2 -dependency-file .deps/ReadParallel.Tpo -sys-header-deps -MP -MT ReadParallel.lo -isystem /Users/barrysmith/Src/PETSc/arch-xolotl/include -D HAVE_CONFIG_H -D TEMPLATE_SPECIALIZATION -D TEMPLATE_FUNC_SPECIALIZATION -D HAVE_VSNPRINTF -D _FILE_OFFSET_BITS=64 -D USE_MPI -D HDF5_FILE -D HDF5_PARALLEL -D NETCDF_FILE -D IS_BUILDING_MB -D SRCDIR=. -D UNORDERED_MAP_NS=std::tr1 -D HAVE_UNORDERED_MAP=tr1/unordered_map -D HAVE_UNORDERED_SET=tr1/unordered_set -D PIC -I . -I ../.. -I ../../src/moab -I ../../src -I
/Users/barrysmith/Src/PETSc/arch-xolotl/include -I /Users/barrysmith/Src/PETSc/arch-xolotl/include -I ./.. -I .. -I ./../io -I ./../io/mhdf/include -I /Users/barrysmith/Src/PETSc/arch-xolotl/include -fmodule-cache-path /var/folders/c1/ldz_dt8n2r3dtwv_chp5pfr40000gq/T/clang-module-cache -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas -Wall -Wno-long-long -Wextra -Wcast-align -Wpointer-arith -Wformat -Wformat-security -Wshadow -Wunused-parameter -pedantic -fconst-strings -fdeprecated-macro -fdebug-compilation-dir /Users/barrysmith/Src/PETSc/externalpackages/moab-4.7.0pre/src/parallel -ferror-limit 19 -fmessage-length 0 -stack-protector 1 -mstackrealign -fblocks -fobjc-runtime=macosx-10.8.0 -fobjc-dispatch-method=mixed -fobjc-default-synthesize-properties -fcxx-exceptions -fexceptions -fno-common -fdiagnostics-show-option -o .libs/ReadParallel.o -x c++ ReadParallel.cpp
>1. ReadParallel.cpp:549:56: current parser token ')'
>2. ReadParallel.cpp:18:1: parsing namespace 'moab'
>3. ReadParallel.cpp:264:1: parsing function body 'load_file'
>4. ReadParallel.cpp:264:1: in compound statement ('{}')
>5. ReadParallel.cpp:540:16: in compound statement ('{}')
>6. ReadParallel.cpp:547:50: in compound statement ('{}')
>clang: error: unable to execute command: Segmentation fault: 11
>clang: error: clang frontend command failed due to signal (use -v to see invocation)
>Apple LLVM version 4.2 (clang-425.0.28) (based on LLVM 3.2svn)
>Target: x86_64-apple-darwin12.3.0
>Thread model: posix
>clang: note: diagnostic msg: PLEASE submit a bug report to http://developer.apple.com/bugreporter/ and include the crash backtrace, preprocessed source, and associated run script.
>clang: note: diagnostic msg:
>********************
>
>PLEASE ATTACH THE FOLLOWING FILES TO THE BUG REPORT:
>Preprocessed source(s) and associated run script(s) are located at:
>clang: note: diagnostic msg: /var/folders/c1/ldz_dt8n2r3dtwv_chp5pfr40000gq/T/ReadParallel-EE94m9.cpp
>clang: note: diagnostic msg: /var/folders/c1/ldz_dt8n2r3dtwv_chp5pfr40000gq/T/ReadParallel-EE94m9.sh
>clang: note: diagnostic msg:
>
>********************
>make[5]: *** [ReadParallel.lo] Error 1
>make[4]: *** [all] Error 2
>make[3]: *** [all-recursive] Error 1
>make[2]: *** [all] Error 2
>make[1]: *** [all-recursive] Error 1
>make: *** [all] Error 2
>*******************************************************************************
>
>
>
>
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