Do not bail out in bondmap creation if compound is unknown

CMakeLists.txt

@@ -69,7 +69,7 @@ if(MSVC)
 	set(COFF_SPEC "--coff=${COFF_TYPE}")
 endif()
 
-if(LINUX)
+if(UNIX AND NOT APPLE)
 	# On Linux, install in the $HOME/.local folder by default
 	if(CMAKE_INSTALL_PREFIX_INITIALIZED_TO_DEFAULT)
 		message(WARNING "The library and auxiliary files will be installed in $ENV{HOME}/.local")
@@ -349,4 +349,4 @@ if(CIFPP_BUILD_TESTS)
 endif()
 
 
-message("Still to do: libcifpp.pc, package, tools, create symop_Data")
+message("Still to do: package, tools, create symop_Data")

src/BondMap.cpp

@@ -323,14 +323,16 @@ bool CompoundBondMap::bonded(const std::string &compoundID, const std::string& a
 		return bi.bonded(a1, a2);
 	}
 
-	// not found in our cache, calculate
-	auto compound = mmcif::CompoundFactory::instance().create(compoundID);
-	if (not compound)
-		throw BondMapException("Missing compound bond info for " + compoundID);
-
 	bool result = false;
 
+	// not found in our cache, calculate
 	CompoundBondInfo bondInfo{ id };
+
+	auto compound = mmcif::CompoundFactory::instance().create(compoundID);
+	if (not compound)
+		std::cerr << "Missing compound bond info for " << compoundID << std::endl;
+	else
+	{
 		for (auto &atom: compound->bonds())
 		{
 			uint32_t ca1 = getAtomID(atom.atomID[0]);
@@ -341,6 +343,7 @@ bool CompoundBondMap::bonded(const std::string &compoundID, const std::string& a
 			bondInfo.mBonded.insert({ca1, ca2});
 			result = result or (a1 == ca1 and a2 == ca2);
 		}
+	}
 
 	mCompounds.push_back(bondInfo);