Wrap parsing failures on Ubuntu 13.10+/gcc 4.8.x/boost 1.53-54

I've been doing testing on a different dev machine with a basically clean version of the latest version of Ubuntu, and at the moment wrap parsing/codegen isn't working. Interestingly, I get different results depending on whether using debug or release mode. The error messages are below.

There are two flags that the parser seems to miss - the "const" at the end of method definitions, and the pointer flag on returned pairs. The const flag can be ignored since it doesn't actually get used during codegen, but the pointer flag is generating bad code that doesn't compile.

My plan at the moment is to remove the is_const flag entirely, since it has no actual effect, and see about rewriting the parser rules for pairs, but I don't know why there are different results for debug and release versions, or why the parser doesn't behave the way it does on my other machine (Ubuntu 10.04/gcc 4.7/boost 1.49).

In debug mode, testWrap fails with these errors:

/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:99: Failure: "m1.is_const_" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:112: Failure: "m2.is_const_" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:125: Failure: "m3.is_const_" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:203: Failure: "m1.is_const_" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:257: Failure: "m1.is_const_" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:276: Failure: "m2.returnVals.front().isPair" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:291: Failure: "arg1.is_ptr" 
/home/alexgc/borg/gtsam/wrap/tests/testWrap.cpp:299: Failure: "arg2.is_ptr" 
wrap: generating actual_namespaces/+ns1/ClassA.m
wrap: generating actual_namespaces/+ns1/ClassB.m
wrap: generating actual_namespaces/+ns2/ClassA.m
wrap: generating actual_namespaces/+ns2/+ns3/ClassB.m
wrap: generating actual_namespaces/+ns2/ClassC.m
wrap: generating actual_namespaces/ClassD.m
wrap: generating actual_namespaces/+ns1/aGlobalFunction.m
wrap: generating actual_namespaces/+ns2/aGlobalFunction.m
wrap: generating actual_namespaces/testNamespaces_wrapper.cpp
wrap: generating actual/Point2.m
wrap: generating actual/Point3.m
wrap: generating actual/Test.m
wrap: generating actual/aGlobalFunction.m
wrap: generating actual/geometry_wrapper.cpp
There were 8 failures

In release mode, testWrap passes without errors.

When building gtsam_wrapper, the release version fails to compile, throwing the error:

/home/alexgc/borg/gtsam/build_release/wrap/gtsam/gtsam_wrapper.cpp: In function ‘void gtsamnoiseModelConstrained_All_584(int, mxArray**, int, const mxArray**)’:
/home/alexgc/borg/gtsam/build_release/wrap/gtsam/gtsam_wrapper.cpp:7566:69: error: ‘gtsam::noiseModel::Constrained::shared_ptr’ has no member named ‘clone’
   out[0] = wrap_shared_ptr(gtsam::noiseModel::Constrained::All(dim).clone(),"gtsam.noiseModel.Constrained", true);

Compiling of gtsam_wrapper actually works in debug mode, though it fails on compiling gtsam_unstable_wrapper with this error:

In file included from /usr/include/c++/4.8/bits/stl_algobase.h:64:0,
                 from /usr/include/c++/4.8/list:60,
                 from /home/alexgc/borg/gtsam/gtsam/base/Vector.h:23,
                 from /home/alexgc/borg/gtsam/wrap/matlab.h:25,
                 from /home/alexgc/borg/gtsam/build/wrap/gtsam_unstable/gtsam_unstable_wrapper.cpp:1:
/usr/include/c++/4.8/bits/stl_pair.h: In instantiation of ‘std::pair<_T1, _T2>::pair(const std::pair<_U1, _U2>&) [with _U1 = gtsam::Mechanization_bRn2; _U2 = boost::shared_ptr<gtsam::GaussianDensity>; _T1 = gtsam::Mechanization_bRn2; _T2 = gtsam::GaussianDensity]’:
/home/alexgc/borg/gtsam/build/wrap/gtsam_unstable/gtsam_unstable_wrapper.cpp:4182:102:   required from here
/usr/include/c++/4.8/bits/stl_pair.h:119:39: error: no matching function for call to ‘gtsam::GaussianDensity::GaussianDensity(const boost::shared_ptr<gtsam::GaussianDensity>&)’
  : first(__p.first), second(__p.second) { }
                                       ^
/usr/include/c++/4.8/bits/stl_pair.h:119:39: note: candidates are:
In file included from /home/alexgc/borg/gtsam/gtsam/linear/KalmanFilter.h:22:0,
                 from /home/alexgc/borg/gtsam/gtsam_unstable/slam/AHRS.h:13,
                 from /home/alexgc/borg/gtsam/build/wrap/gtsam_unstable/gtsam_unstable_wrapper.cpp:27:
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:52:5: note: gtsam::GaussianDensity::GaussianDensity(gtsam::Key, const Vector&, const Matrix&, const SharedDiagonal&)
     GaussianDensity(Key key, const Vector& d, const Matrix& R, const SharedDiagonal& noiseModel = SharedDiagonal()) :
     ^
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:52:5: note:   candidate expects 4 arguments, 1 provided
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:45:5: note: gtsam::GaussianDensity::GaussianDensity(const gtsam::GaussianConditional&)
     GaussianDensity(const GaussianConditional& conditional) :
     ^
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:45:5: note:   no known conversion for argument 1 from ‘const boost::shared_ptr<gtsam::GaussianDensity>’ to ‘const gtsam::GaussianConditional&’
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:40:5: note: gtsam::GaussianDensity::GaussianDensity()
     GaussianDensity() :
     ^
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:40:5: note:   candidate expects 0 arguments, 1 provided
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:33:22: note: gtsam::GaussianDensity::GaussianDensity(const gtsam::GaussianDensity&)
   class GTSAM_EXPORT GaussianDensity : public GaussianConditional {
                      ^
/home/alexgc/borg/gtsam/gtsam/linear/GaussianDensity.h:33:22: note:   no known conversion for argument 1 from ‘const boost::shared_ptr<gtsam::GaussianDensity>’ to ‘const gtsam::GaussianDensity&’
make[2]: *** [gtsam_unstable/CMakeFiles/gtsam_unstable_wrapper.dir/__/wrap/gtsam_unstable/gtsam_unstable_wrapper.cpp.o] Error 1
make[1]: *** [gtsam_unstable/CMakeFiles/gtsam_unstable_wrapper.dir/all] Error 2

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