'pip install xgboost' error: Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/

[chrislun16]

## Environment info
Operating System: Mac OS X 10.11.6

Compiler: GCC 4.2.1

Package used (python/R/jvm/C++): python 2.7.11

2. command used : pip install xgboost

## Steps to reproduce

1. pip install xgboost

## What have you tried?

1. reinstalling gcc

Log:
Collecting xgboost
Using cached xgboost-0.6a2.tar.gz
Complete output from command python setup.py egg_info:
rm -f -rf build build_plugin lib bin *~ /~ //*~ ///~ /.o //.o ///*.o xgboost
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/learner.o src/learner.cc >build/learner.d
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/logging.o src/logging.cc >build/logging.d
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/c_api/c_api.o src/c_api/c_api.cc >build/c_api/c_api.d
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/c_api/c_api_error.o src/c_api/c_api_error.cc >build/c_api/c_api_error.d
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/logging.cc -o build/logging.o
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/c_api/c_api_error.cc -o build/c_api/c_api_error.o
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/c_api/c_api.cc -o build/c_api/c_api.o
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/learner.cc -o build/learner.o
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/common/common.o src/common/common.cc >build/common/common.d
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/common/common.cc -o build/common/common.o
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/data.o src/data/data.cc >build/data/data.d
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/data.cc -o build/data/data.o
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/simple_csr_source.o src/data/simple_csr_source.cc >build/data/simple_csr_source.d
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/simple_csr_source.cc -o build/data/simple_csr_source.o
g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/simple_dmatrix.o src/data/simple_dmatrix.cc >build/data/simple_dmatrix.d
g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/simple_dmatrix.cc -o build/data/simple_dmatrix.o
src/c_api/c_api.cc:739:12: warning: 'XGBOOST_LINK_RABIT_C_API_' defined but not used [-Wunused-variable]
static int XGBOOST_LINK_RABIT_C_API_ = RabitLinkTag();
^
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccdSctiB.s:20502:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccdSctiB.s:22740:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccdSctiB.s:22933:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccdSctiB.s:23176:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccdSctiB.s:23265:suffix or operands invalid for movq' make: *** [build/c_api/c_api.o] Error 1 make: *** Waiting for unfinished jobs.... In file included from dmlc-core/include/dmlc/data.h:16:0, from include/xgboost/data.h:11, from src/data/data.cc:5: dmlc-core/include/dmlc/./registry.h:275:14: warning: 'xgboost::data::__reg_file_tag_sparse_page_raw_format__' defined but not used [-Wunused-variable] static int __reg_file_tag_ ## UniqueTag ## __ = __dmlc_registry_file_tag_ ## UniqueTag ## __(); ^ src/data/data.cc:305:1: note: in expansion of macro 'DMLC_REGISTRY_LINK_TAG' DMLC_REGISTRY_LINK_TAG(sparse_page_raw_format); ^ In file included from dmlc-core/include/dmlc/registry.h:14:0, from include/xgboost/./gbm.h:11, from include/xgboost/learner.h:16, from src/learner.cc:8: dmlc-core/include/dmlc/./parameter.h:254:43: warning: 'xgboost::__make__LearnerModelParamParamManager__' defined but not used [-Wunused-variable] static ::dmlc::parameter::ParamManager &__make__ ## PType ## ParamManager__ = \ ^ src/learner.cc:112:1: note: in expansion of macro 'DMLC_REGISTER_PARAMETER' DMLC_REGISTER_PARAMETER(LearnerModelParam); ^ dmlc-core/include/dmlc/./parameter.h:254:43: warning: 'xgboost::__make__LearnerTrainParamParamManager__' defined but not used [-Wunused-variable] static ::dmlc::parameter::ParamManager &__make__ ## PType ## ParamManager__ = \ ^ src/learner.cc:113:1: note: in expansion of macro 'DMLC_REGISTER_PARAMETER' DMLC_REGISTER_PARAMETER(LearnerTrainParam); ^ /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:2816:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:2820:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:7710:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:8294:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:9951:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:9955:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:11229:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:11233:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:13117:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:13310:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:13553:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccGHJDbJ.s:13642:suffix or operands invalid for movq' make: *** [build/data/simple_dmatrix.o] Error 1 ----------------------------- Building multi-thread xgboost failed Start to build single-thread xgboost rm -f -rf build build_plugin lib bin *~ */*~ */*/*~ */*/*/*~ */*.o */*/*.o */*/*/*.o xgboost g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/learner.o src/learner.cc >build/learner.d g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/logging.o src/logging.cc >build/logging.d g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/c_api/c_api.o src/c_api/c_api.cc >build/c_api/c_api.d g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/c_api/c_api_error.o src/c_api/c_api_error.cc >build/c_api/c_api_error.d g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/logging.cc -o build/logging.o g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/c_api/c_api_error.cc -o build/c_api/c_api_error.o g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/c_api/c_api.cc -o build/c_api/c_api.o g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/learner.cc -o build/learner.o g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/common/common.o src/common/common.cc >build/common/common.d g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/common/common.cc -o build/common/common.o g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/data.o src/data/data.cc >build/data/data.d g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/data.cc -o build/data/data.o g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/simple_csr_source.o src/data/simple_csr_source.cc >build/data/simple_csr_source.d g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/simple_csr_source.cc -o build/data/simple_csr_source.o g++-5 -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -MM -MT build/data/simple_dmatrix.o src/data/simple_dmatrix.cc >build/data/simple_dmatrix.d g++-5 -c -std=c++0x -Wall -O3 -msse2 -Wno-unknown-pragmas -funroll-loops -Iinclude -Idmlc-core/include -Irabit/include -fPIC -fopenmp -c src/data/simple_dmatrix.cc -o build/data/simple_dmatrix.o src/c_api/c_api.cc:739:12: warning: 'XGBOOST_LINK_RABIT_C_API_' defined but not used [-Wunused-variable] static int XGBOOST_LINK_RABIT_C_API_ = RabitLinkTag(); ^ /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccaiz5mH.s:20502:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccaiz5mH.s:22740:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccaiz5mH.s:22933:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccaiz5mH.s:23176:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccaiz5mH.s:23265:suffix or operands invalid for movq'
make: *** [build/c_api/c_api.o] Error 1
make: *** Waiting for unfinished jobs....
In file included from dmlc-core/include/dmlc/data.h:16:0,
from include/xgboost/data.h:11,
from src/data/data.cc:5:
dmlc-core/include/dmlc/./registry.h:275:14: warning: 'xgboost::data::reg_file_tag_sparse_page_raw_format' defined but not used [-Wunused-variable]
static int reg_file_tag ## UniqueTag ## __ = dmlc_registry_file_tag ## UniqueTag ## ();
^
src/data/data.cc:305:1: note: in expansion of macro 'DMLC_REGISTRY_LINK_TAG'
DMLC_REGISTRY_LINK_TAG(sparse_page_raw_format);
^
In file included from dmlc-core/include/dmlc/registry.h:14:0,
from include/xgboost/./gbm.h:11,
from include/xgboost/learner.h:16,
from src/learner.cc:8:
dmlc-core/include/dmlc/./parameter.h:254:43: warning: 'xgboost::make__LearnerModelParamParamManager' defined but not used [-Wunused-variable]
static ::dmlc::parameter::ParamManager &make ## PType ## ParamManager =
^
src/learner.cc:112:1: note: in expansion of macro 'DMLC_REGISTER_PARAMETER'
DMLC_REGISTER_PARAMETER(LearnerModelParam);
^
dmlc-core/include/dmlc/./parameter.h:254:43: warning: 'xgboost::make__LearnerTrainParamParamManager' defined but not used [-Wunused-variable]
static ::dmlc::parameter::ParamManager &make ## PType ## ParamManager =
^
src/learner.cc:113:1: note: in expansion of macro 'DMLC_REGISTER_PARAMETER'
DMLC_REGISTER_PARAMETER(LearnerTrainParam);
^
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:2816:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:2820:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:7710:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:8294:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:9951:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:9955:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:11229:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:11233:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:13117:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:13310:suffix or operands invalid for movq'
/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:13553:suffix or operands invalid for movq' /var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T//ccBOFZkT.s:13642:suffix or operands invalid for movq'
make: *** [build/data/simple_dmatrix.o] Error 1
Successfully build single-thread xgboost
If you want multi-threaded version
See additional instructions in doc/build.md
Traceback (most recent call last):
File "", line 1, in
File "/private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/setup.py", line 29, in
LIB_PATH = libpath'find_lib_path'
File "/private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/xgboost/libpath.py", line 45, in find_lib_path
'List of candidates:\n' + ('\n'.join(dll_path)))
builtin.XGBoostLibraryNotFound: Cannot find XGBoost Libarary in the candicate path, did you install compilers and run build.sh in root path?
List of candidates:
/private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/xgboost/libxgboost.so
/private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/xgboost/../../lib/libxgboost.so
/private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/xgboost/./lib/libxgboost.so

----------------------------------------

Command "python setup.py egg_info" failed with error code 1 in /private/var/folders/sq/rsh6q1hd4mz_bnq2cf_6hs1w0000gn/T/pip-build-9REzJF/xgboost/

[phunterlau]

Can you try at least gcc-5?

[chrislun16]

I'm a bit confused about my gcc version.

When I type "gcc -v", it says Configured with: --prefix=/Applications/Xcode.app/Contents/Developer/usr --with-gxx-include-dir=/usr/include/c++/4.2.1

But then when I try to install gcc-5, it says "gcc@5 5.5.0 is already installed"

[phunterlau]

Please check your CC_PATH configuration and make sure gcc-5 is the default

[chrislun16]

@phunterlau I tried doing that and am still getting the error. Any other suggestions?

[phunterlau]

Can you try installing gcc-7 and using Github installation instead?

[chrislun16]

@phunterlau I tried that and got this error:

Makefile:31: MAKE [/Applications/Xcode.app/Contents/Developer/usr/bin/make] - checked OK
c++ -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/c_api/c_api.o src/c_api/c_api.cc >build/c_api/c_api.d
c++ -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/logging.o src/logging.cc >build/logging.d
c++ -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/c_api/c_api_error.o src/c_api/c_api_error.cc >build/c_api/c_api_error.d
c++ -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/learner.o src/learner.cc >build/learner.d
clangclangclang: : : errorerrorerror: : : unsupported option '-fopenmp'unsupported option '-fopenmp'unsupported option '-fopenmp'

make: *** [build/c_api/c_api_error.o] Error 1
make: *** Waiting for unfinished jobs....
make: *** [build/logging.o] Error 1
make: *** [build/c_api/c_api.o] Error 1
clang: error: unsupported option '-fopenmp'
make: *** [build/learner.o] Error 1

[lt911]

same error, any ideas of fixing it?

[chrislun16]

I didn't end up getting it to work. Maybe bootcamp windows and try?

…

On Tue, Jan 30, 2018 at 3:09 PM Liz Tan ***@***.***> wrote: same error, any ideas of fixing it? — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub <#2887 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AXqjq7LePpWeeXO0xRshYxRIoi-smfBzks5tP3bcgaJpZM4QjPWE> .

[lt911]

Hi, just get the import working, not sure if it function right. You can check out this:
https://www.ibm.com/developerworks/community/blogs/jfp/entry/Installing_XGBoost_on_Mac_OSX?lang=en

it is basically uncomment the gcc line in the make file and use the compiler that you wish.

Cheers!