Dear all,
I’ve just tried to build simple GUI in Xcode using rdkit libraries.
Unfortunately I’ve got link errors. I tried to use homebrew installed version,
also compiled sources from github by myself. Any idea?
PS
Python bindings work perfectly on my computer.
If I don’ include MolDrowing.h and DrawingToSVG.h project is linked without
errors.
simple code:
#include "testmol.h"
#include <GraphMol/RDKitBase.h>
#include <GraphMol/SmilesParse/SmilesParse.h>
#include <GraphMol/Depictor/RDDepictor.h>
#include <Geometry/point.h>
#include <GraphMol/ROMol.h>
#include <GraphMol/MolDrawing/MolDrawing.h>
//#include <GraphMol/MolDrawing/DrawingToSVG.h>
Error listing:
Ld
/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Products/Debug/SMILES\
Viewer.app/Contents/MacOS/SMILES\ Viewer normal x86_64
cd "/Users/black/projects/SMILES Viewer"
setenv MACOSX_DEPLOYMENT_TARGET 10.9
/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++
-arch x86_64 -isysroot
/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk
-L/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Products/Debug
-L/Users/black/projects/rdkit/build/lib -L/usr/local/Cellar/boost/1.54.0/lib
-F/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Products/Debug
-filelist
/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Intermediates/SMILES\
Viewer.build/Debug/SMILES\ Viewer.build/Objects-normal/x86_64/SMILES\
Viewer.LinkFileList -mmacosx-version-min=10.9 -fobjc-arc -fobjc-link-runtime
-stdlib=libstdc++ -framework Cocoa -Xlinker -dependency_info -Xlinker
/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Intermediates/SMILES\
Viewer.build/Debug/SMILES\ Viewer.build/Objects-normal/x86_64/SMILES\
Viewer_dependency_info.dat -o
/Users/black/Library/Developer/Xcode/DerivedData/SMILES_Viewer-ftbnkyhvxqageqflovukoyyuiamy/Build/Products/Debug/SMILES\
Viewer.app/Contents/MacOS/SMILES\ Viewer
Undefined symbols for architecture x86_64:
"Invar::operator<<(std::ostream&, Invar::Invariant&)", referenced from:
RDGeom::Point3D::operator[](unsigned int) const in testmol.o
RDGeom::Point3D::operator[](unsigned int) in testmol.o
RDGeom::Point2D::operator[](unsigned int) const in testmol.o
RDGeom::Point2D::operator[](unsigned int) in testmol.o
"RDKit::ROMol::initFromOther(RDKit::ROMol const&, bool)", referenced from:
RDKit::RWMol::RWMol(RDKit::ROMol const&, bool) in testmol.o
"RDKit::ROMol::initMol()", referenced from:
RDKit::ROMol::ROMol() in testmol.o
"RDKit::MolOps::Kekulize(RDKit::RWMol&, bool, unsigned int)", referenced from:
RDKit::Drawing::MolToDrawing(RDKit::ROMol const&, std::vector<int,
std::allocator<int> > const*, bool) in testmol.o
"RDKit::MolOps::findSSSR(RDKit::ROMol const&, std::vector<std::vector<int,
std::allocator<int> >, std::allocator<std::vector<int, std::allocator<int> > >
>*)", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDLog::toStream(std::ostream&)", referenced from:
RDGeom::Point3D::operator[](unsigned int) const in testmol.o
RDGeom::Point3D::operator[](unsigned int) in testmol.o
RDGeom::Point2D::operator[](unsigned int) const in testmol.o
RDGeom::Point2D::operator[](unsigned int) in testmol.o
"RDGeom::operator/(RDGeom::Point2D const&, double)", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDGeom::operator-(RDGeom::Point2D const&, RDGeom::Point2D const&)",
referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDGeom::operator*(RDGeom::Point2D const&, double)", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDGeom::operator+(RDGeom::Point2D const&, RDGeom::Point2D const&)",
referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDDepict::compute2DCoords(RDKit::ROMol&, std::map<int, RDGeom::Point2D,
std::less<int>, std::allocator<std::pair<int const, RDGeom::Point2D> > >
const*, bool, bool, unsigned int, unsigned int, int, bool)", referenced from:
RDKit::Drawing::MolToDrawing(RDKit::ROMol const&, std::vector<int,
std::allocator<int> > const*, bool) in testmol.o
"RDKit::Atom::getTotalNumHs(bool) const", referenced from:
RDKit::Drawing::detail::getAtomSymbolAndOrientation(RDKit::Atom const&,
RDGeom::Point2D) in testmol.o
"RDKit::Atom::getDegree() const", referenced from:
RDKit::Drawing::detail::getAtomSymbolAndOrientation(RDKit::Atom const&,
RDGeom::Point2D) in testmol.o
"RDKit::Atom::getSymbol() const", referenced from:
RDKit::Drawing::detail::getAtomSymbolAndOrientation(RDKit::Atom const&,
RDGeom::Point2D) in testmol.o
"RDKit::Bond::getOtherAtomIdx(unsigned int) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::Dict::getVal(std::string const&, std::string&) const", referenced
from:
std::string RDKit::Dict::getVal<std::string>(char const*, std::string&)
const in testmol.o
"RDKit::ROMol::getNumAtoms(bool) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::ROMol::getVertices() const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::ROMol::getAtomBonds(RDKit::Atom const*) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::ROMol::getConformer(int) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::ROMol::getAtomWithIdx(unsigned int) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::RingInfo::numBondRings(unsigned int) const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"RDKit::Conformer::getPositions() const", referenced from:
RDKit::Drawing::DrawMol(RDKit::ROMol const&, int, std::vector<int,
std::allocator<int> > const*, unsigned int, double, double, double) in testmol.o
"vtable for RDKit::ROMol", referenced from:
RDKit::ROMol::ROMol() in testmol.o
RDKit::ROMol::~ROMol() in testmol.o
NOTE: a missing vtable usually means the first non-inline virtual member
function has no definition.
"vtable for RDKit::RWMol", referenced from:
RDKit::RWMol::RWMol(RDKit::ROMol const&, bool) in testmol.o
NOTE: a missing vtable usually means the first non-inline virtual member
function has no definition.
"_rdErrorLog", referenced from:
RDGeom::Point3D::operator[](unsigned int) const in testmol.o
RDGeom::Point3D::operator[](unsigned int) in testmol.o
RDGeom::Point2D::operator[](unsigned int) const in testmol.o
RDGeom::Point2D::operator[](unsigned int) in testmol.o
ld: symbol(s) not found for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
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