problems in installing rDock
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4 weeks ago

Hi, I'm trying to install rDock in my Mac M1, but I'm encountering several errors while running make:

$make
/Library/Developer/CommandLineTools/usr/bin/make lib
c++ -Wall -pipe -std=c++17 -fPIC -O3 -ffast-math -D_NDEBUG -DRBT_VERSION="v24.05-alpha" -I./include/ -I./include//GP -I./import/ -I./import//tnt -I./import//tnt/include -I./import//simplex -I./import//simplex/include -I./import//simplex/src -I./import//catch2 -I./import//cxxopts -I./import//cxxopts/include -c -o obj//RbtTriposAtomType.o src/lib//RbtTriposAtomType.cxx
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:19:12: error: no member named 'bind2nd' in namespace 'std'
using std::bind2nd;
      ~~~~~^
./include/RbtAtom.h:20:12: error: no member named 'ptr_fun' in namespace 'std'
using std::ptr_fun;
      ~~~~~^
./include/RbtAtom.h:391:34: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomEnabled: public std::unary_function<RbtAtom*, RbtBool> {
                            ~~~~~^~~~~~~~~~~~~~
                                 __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:398:35: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomSelected: public std::unary_function<RbtAtom*, RbtBool> {
                             ~~~~~^~~~~~~~~~~~~~
                                  __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:405:33: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomCyclic: public std::unary_function<RbtAtom*, RbtBool> {
                           ~~~~~^~~~~~~~~~~~~~
                                __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:412:37: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomBridgehead: public std::unary_function<RbtAtom*, RbtBool> {
                               ~~~~~^~~~~~~~~~~~~~
                                    __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:420:40: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomHBondAcceptor: public std::unary_function<RbtAtom*, RbtBool> {
                                  ~~~~~^~~~~~~~~~~~~~
                                       __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:428:37: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomHBondDonor: public std::unary_function<RbtAtom*, RbtBool> {
                               ~~~~~^~~~~~~~~~~~~~
                                    __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:436:34: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomCharged: public std::unary_function<RbtAtom*, RbtBool> {
                            ~~~~~^~~~~~~~~~~~~~
                                 __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:444:37: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomPosCharged: public std::unary_function<RbtAtom*, RbtBool> {
                               ~~~~~^~~~~~~~~~~~~~
                                    __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:452:37: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomNegCharged: public std::unary_function<RbtAtom*, RbtBool> {
                               ~~~~~^~~~~~~~~~~~~~
                                    __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:459:35: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomExtended: public std::unary_function<RbtAtom*, RbtBool> {
                             ~~~~~^~~~~~~~~~~~~~
                                  __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:468:33: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomPlanar: public std::unary_function<RbtAtom*, RbtBool> {
                           ~~~~~^~~~~~~~~~~~~~
                                __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:476:29: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isPiAtom: public std::unary_function<RbtAtom*, RbtBool> {
                       ~~~~~^~~~~~~~~~~~~~
                            __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:483:34: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomicNo_eq: public std::unary_function<RbtAtom*, RbtBool> {
                            ~~~~~^~~~~~~~~~~~~~
                                 __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:492:32: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isFFType_eq: public std::unary_function<RbtAtom*, RbtBool> {
                          ~~~~~^~~~~~~~~~~~~~
                               __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:501:34: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isAtomName_eq: public std::unary_function<RbtAtom*, RbtBool> {
                            ~~~~~^~~~~~~~~~~~~~
                                 __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:510:37: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isSubunitName_eq: public std::unary_function<RbtAtom*, RbtBool> {
                               ~~~~~^~~~~~~~~~~~~~
                                    __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
In file included from src/lib//RbtTriposAtomType.cxx:15:
./include/RbtAtom.h:519:35: error: no template named 'unary_function' in namespace 'std'; did you mean '__unary_function'?
class isSubunitId_eq: public std::unary_function<RbtAtom*, RbtBool> {
                             ~~~~~^~~~~~~~~~~~~~
                                  __unary_function
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/c++/v1/__functional/unary_function.h:46:1: note: '__unary_function' declared here
using __unary_function = __unary_function_keep_layout_base<_Arg, _Result>;
^
fatal error: too many errors emitted, stopping now [-ferror-limit=]
20 errors generated.
make[1]: *** [obj//RbtTriposAtomType.o] Error 1
make: *** [build_lib] Error 2

Do you know how I can work around this? I'm following the installation provided by the github: https://github.com/CBDD/rDock, and have homebrew installed with the dependencies make, g++, popt. Thanks.

rDock • 153 views
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