Hi Andreas Il Lunedì 31 Agosto 2015 15:57, Andreas Tille <andreas@an3as.eu> ha scritto: > >CMakeFiles/iqtree.dir/gzstream.cpp.o: In function `gzstreambuf::underflow()': >/tmp/buildd/iqtree-1.3.8+dfsg/gzstream.cpp:91: undefined reference to `gzread' >CMakeFiles/iqtree.dir/gzstream.cpp.o: In function `gzstreambuf::open(char const*, int)': >/tmp/buildd/iqtree-1.3.8+dfsg/gzstream.cpp:62: undefined reference to `gzopen' >CMakeFiles/iqtree.dir/gzstream.cpp.o: In function `gzstreambuf::close()': > >). I wonder if there is some kind of default "include zlib wherever you >find it to make upstream happy with a sensible patch) > of course it doesn't link if you remove zlib from target_link_libraries! you might want to do something like: find_package(ZLIB) if(ZLIB_FOUND) include_directories(${ZLIB_INCLUDE_DIRS}) #this one is actually not needed, but meh else(ZLIB_FOUND) add_subdirectory(TheOneYouCommentedOut) endif(ZLIB_FOUND) instead of target_link_libraries zlibstatic you might want to use http://www.cmake.org/cmake/help/v3.0/module/FindZLIB.html "ZLIB_LIBRARIES" and patch the CMakeLists.txt on zlib-1.2.7 subdirectory to +set (ZLIB_LIBRARIES zlibstatic) another way is: find_package(ZLIB) if(ZLIB_FOUND) include_directories(${ZLIB_INCLUDE_DIRS}) #this one is actually not needed, but meh target_link_libraries(iqtree ${ZLIB_LIBRARIES}) else(ZLIB_FOUND) add_subdirectory(TheOneYouCommentedOut) target_link_libraries(iqtree zlibstatic)endif(ZLIB_FOUND) this find_package relies on the findZLIB.cmake file available in /usr/share/cmake-3.0/Modules/FindZLIB.cmake the same for eigen3 /usr/share/cmake-3.0/Modules/FindEigen3.cmake (BTW the target link libraries needs to be moved after iqtree definition (add_executable)) attaching a patch to make Eigen and Zlib found in the right way(TM) >I was not lucky in excluding sprng at all since upstream seems to have >changed the interface in the copy shipped with the upstream source. I >tried to document the issue in the according (deactivated) patch[2] and >left the code copy inside the tarball for the moment. > >I'd be happy to get some help at least for the zlib issue. Any hint how >to use the packaged sprng would be welcome as well for sure.> I don't think I can help here :) seems a new parameter has been added, so I guess you just need to find which one and add it or add some NULL instead (I did add a NULL and the build completed). I got some undefined references to init_rng and so on, but I guess you know how to solve them now :) HTH Gianfranco
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