[CIG-SHORT] Trouble Installing Stable Pylith 1.5 -- petscmesh.hh not found

[Brad Aagaard]

Jeff,

Try reconfiguring and rebuilding Petsc and then pylith. There have been recent changes to the petsc build system that required changes to the pylith configure to keep them in sync.

Brad



On Oct 20, 2010, at 2:12 PM, Jeffrey Thompson <jeffremt at gmail.com> wrote:

> Hello CIG-Short,
> 
> I'm trying to make and install the stable version of Pylith, and I ran into the error below after issuing the "make" command.  It seems to me that the main error is that Pylith cannot find the petscmesh.hh file.  I updated PETSc and spatialdata before Pylith, so I should have the most recent versions of these programs.  I also tried installing the version Pylith from the trunk directory, and the same error occured.  I've attached my config.log file from the 'stable' pylith install.
> 
> Thanks in advance,
> Jeff Thompson
> Seismolab
> California Institute of Technology
> 
> make[3]: Entering directory `/home/jeffremt/tools/cig/v1.5-stable/libsrc'
> if /bin/sh ../libtool --mode=compile --tag=CXX g++ -DHAVE_CONFIG_H -I. -I. -I.. -I../include  -I/home/jeffremt/tools/cig/gcc-4.1.1_64/lib/python2.5/site-packages/pythia-0.8.1.11-py2.5.egg -I/usr/include/python2.5  -DENABLE_CUBIT -I/home/jeffremt/tools/proj-4.7.0/gcc-4.1.1_64/include -I/home/jeffremt/tools/cppunit-1.12.1/gcc-4.1.1_64/include -I/home/jeffremt/tools/cig/gcc-4.1.1_64/include -I/home/jeffremt/tools/cig/gcc-4.1.1_64/include/pythia-0.8.1.10 -I/home/jeffremt/tools/netcdf-4.0.1/gcc-4.1.1_64/include  -g -O2 -MT BoundaryCondition.lo -MD -MP -MF ".deps/BoundaryCondition.Tpo" -c -o BoundaryCondition.lo `test -f 'bc/BoundaryCondition.cc' || echo './'`bc/BoundaryCondition.cc; \
> then mv -f ".deps/BoundaryCondition.Tpo" ".deps/BoundaryCondition.Plo"; else rm -f ".deps/BoundaryCondition.Tpo"; exit 1; fi
> mkdir .libs
>  g++ -DHAVE_CONFIG_H -I. -I. -I.. -I../include -I/home/jeffremt/tools/cig/gcc-4.1.1_64/lib/python2.5/site-packages/pythia-0.8.1.11-py2.5.egg -I/usr/include/python2.5 -DENABLE_CUBIT -I/home/jeffremt/tools/proj-4.7.0/gcc-4.1.1_64/include -I/home/jeffremt/tools/cppunit-1.12.1/gcc-4.1.1_64/include -I/home/jeffremt/tools/cig/gcc-4.1.1_64/include -I/home/jeffremt/tools/cig/gcc-4.1.1_64/include/pythia-0.8.1.10 -I/home/jeffremt/tools/netcdf-4.0.1/gcc-4.1.1_64/include -g -O2 -MT BoundaryCondition.lo -MD -MP -MF .deps/BoundaryCondition.Tpo -c bc/BoundaryCondition.cc  -fPIC -DPIC -o .libs/BoundaryCondition.o
> In file included from bc/BoundaryCondition.cc:23:
> ../include/pylith/topology/Mesh.hh:33:43: petscmesh.hh: No such file or directory
> In file included from bc/BoundaryCondition.cc:23:
> ../include/pylith/topology/Mesh.hh:59: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:59: error: ISO C++ forbids declaration of `IMesh' with no type
> ../include/pylith/topology/Mesh.hh:59: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:60: error: `SieveMesh' has not been declared
> ../include/pylith/topology/Mesh.hh:60: error: ISO C++ forbids declaration of `real_section_type' with no type
> ../include/pylith/topology/Mesh.hh:60: error: expected `;' before "RealSection"
> ../include/pylith/topology/Mesh.hh:61: error: `SieveMesh' has not been declared
> ../include/pylith/topology/Mesh.hh:61: error: ISO C++ forbids declaration of `int_section_type' with no type
> ../include/pylith/topology/Mesh.hh:61: error: expected `;' before "IntSection"
> ../include/pylith/topology/Mesh.hh:62: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:62: error: ISO C++ forbids declaration of `IMesh' with no type
> ../include/pylith/topology/Mesh.hh:62: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:63: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:63: error: ISO C++ forbids declaration of `RestrictVisitor' with no type
> ../include/pylith/topology/Mesh.hh:63: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:64: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:64: error: ISO C++ forbids declaration of `UpdateAddVisitor' with no type
> ../include/pylith/topology/Mesh.hh:64: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:65: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:65: error: ISO C++ forbids declaration of `UpdateAllVisitor' with no type
> ../include/pylith/topology/Mesh.hh:65: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:66: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:66: error: ISO C++ forbids declaration of `IndicesVisitor' with no type
> ../include/pylith/topology/Mesh.hh:66: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:82: error: expected `,' or `...' before '&' token
> ../include/pylith/topology/Mesh.hh:82: error: ISO C++ forbids declaration of `MPI_Comm' with no type
> ../include/pylith/topology/Mesh.hh:100: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:100: error: ISO C++ forbids declaration of `Obj' with no type
> ../include/pylith/topology/Mesh.hh:100: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:106: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:106: error: ISO C++ forbids declaration of `Obj' with no type
> ../include/pylith/topology/Mesh.hh:106: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:160: error: expected `,' or `...' before "value"
> ../include/pylith/topology/Mesh.hh:160: error: ISO C++ forbids declaration of `MPI_Comm' with no type
> ../include/pylith/topology/Mesh.hh:166: error: `MPI_Comm' does not name a type
> ../include/pylith/topology/Mesh.hh:195: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.hh:195: error: ISO C++ forbids declaration of `Obj' with no type
> ../include/pylith/topology/Mesh.hh:195: error: expected `;' before '<' token
> ../include/pylith/topology/Mesh.hh:197: error: `MPI_Comm' does not name a type
> In file included from ../include/pylith/topology/Mesh.hh:208,
>                  from bc/BoundaryCondition.cc:23:
> ../include/pylith/topology/Mesh.icc:25: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.icc:25: error: expected initializer before '<' token
> ../include/pylith/topology/Mesh.icc:32: error: `ALE' has not been declared
> ../include/pylith/topology/Mesh.icc:32: error: expected initializer before '<' token
> ../include/pylith/topology/Mesh.icc: In member function `void pylith::topology::Mesh::debug(bool)':
> ../include/pylith/topology/Mesh.icc:49: error: `_mesh' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: In member function `int pylith::topology::Mesh::dimension() const':
> ../include/pylith/topology/Mesh.icc:64: error: `_mesh' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: In member function `int pylith::topology::Mesh::coneSize() const':
> ../include/pylith/topology/Mesh.icc:71: error: `_mesh' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: In member function `int pylith::topology::Mesh::numVertices() const':
> ../include/pylith/topology/Mesh.icc:78: error: `_mesh' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: In member function `int pylith::topology::Mesh::numCells() const':
> ../include/pylith/topology/Mesh.icc:85: error: `_mesh' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: At global scope:
> ../include/pylith/topology/Mesh.icc:91: error: expected `,' or `...' before "value"
> ../include/pylith/topology/Mesh.icc:91: error: ISO C++ forbids declaration of `MPI_Comm' with no type
> ../include/pylith/topology/Mesh.icc: In member function `void pylith::topology::Mesh::comm(int)':
> ../include/pylith/topology/Mesh.icc:92: error: `_comm' was not declared in this scope
> ../include/pylith/topology/Mesh.icc:92: error: `value' was not declared in this scope
> ../include/pylith/topology/Mesh.icc: At global scope:
> ../include/pylith/topology/Mesh.icc:97: error: `MPI_Comm' does not name a type
> ../include/pylith/topology/Mesh.icc: In member function `void pylith::topology::Mesh::view(const char*) const':
> ../include/pylith/topology/Mesh.icc:106: error: `_mesh' was not declared in this scope
> bc/BoundaryCondition.cc: In member function `virtual void pylith::bc::BoundaryCondition::verifyConfiguration(const pylith::topology::Mesh&) const':
> bc/BoundaryCondition.cc:53: error: `ALE' has not been declared
> bc/BoundaryCondition.cc:53: error: expected initializer before '<' token
> bc/BoundaryCondition.cc:54: error: `sieveMesh' was not declared in this scope
> bc/BoundaryCondition.cc:57: error: aggregate `std::ostringstream msg' has incomplete type and cannot be defined
> make[3]: *** [BoundaryCondition.lo] Error 1
> make[3]: Leaving directory `/home/jeffremt/tools/cig/v1.5-stable/libsrc'
> make[2]: *** [all-recursive] Error 1
> make[2]: Leaving directory `/home/jeffremt/tools/cig/v1.5-stable/libsrc'
> make[1]: *** [all-recursive] Error 1
> make[1]: Leaving directory `/home/jeffremt/tools/cig/v1.5-stable'
> make: *** [all] Error 2
> 
> <config.log>
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