[package - 121i386-quarterly][misc/py-xgboost] Failed for py37-xgboost-1.2.1 in build
pkg-fallout at FreeBSD.org
pkg-fallout at FreeBSD.org
Sun Nov 15 03:55:18 UTC 2020
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.
Maintainer: yuri at FreeBSD.org
Last committer: yuri at FreeBSD.org
Ident: $FreeBSD: branches/2020Q4/misc/py-xgboost/Makefile 553406 2020-10-27 01:45:30Z yuri $
Log URL: http://beefy4.nyi.freebsd.org/data/121i386-quarterly/555150/logs/py37-xgboost-1.2.1.log
Build URL: http://beefy4.nyi.freebsd.org/build.html?mastername=121i386-quarterly&build=555150
Log:
=>> Building misc/py-xgboost
build started at Sun Nov 15 03:54:18 UTC 2020
port directory: /usr/ports/misc/py-xgboost
package name: py37-xgboost-1.2.1
building for: FreeBSD 121i386-quarterly-job-03 12.1-RELEASE-p10 FreeBSD 12.1-RELEASE-p10 i386
maintained by: yuri at FreeBSD.org
Makefile ident: $FreeBSD: branches/2020Q4/misc/py-xgboost/Makefile 553406 2020-10-27 01:45:30Z yuri $
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=======================<phase: check-sanity >============================
===> License APACHE20 accepted by the user
===========================================================================
=======================<phase: pkg-depends >============================
===> py37-xgboost-1.2.1 depends on file: /usr/local/sbin/pkg - not found
===> Installing existing package /packages/All/pkg-1.15.10.txz
[121i386-quarterly-job-03] Installing pkg-1.15.10...
[121i386-quarterly-job-03] Extracting pkg-1.15.10: .......... done
===> py37-xgboost-1.2.1 depends on file: /usr/local/sbin/pkg - found
===> Returning to build of py37-xgboost-1.2.1
===========================================================================
=======================<phase: fetch-depends >============================
===========================================================================
=======================<phase: fetch >============================
===> License APACHE20 accepted by the user
===> Fetching all distfiles required by py37-xgboost-1.2.1 for building
===========================================================================
=======================<phase: checksum >============================
===> License APACHE20 accepted by the user
===> Fetching all distfiles required by py37-xgboost-1.2.1 for building
=> SHA256 Checksum OK for dmlc-xgboost-v1.2.1_GH0.tar.gz.
=> SHA256 Checksum OK for dmlc-rabit-4acdd7c6f68debe1c39ae07ca75466d74d194dd1_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract >============================
===> License APACHE20 accepted by the user
===> Fetching all distfiles required by py37-xgboost-1.2.1 for building
===> Extracting for py37-xgboost-1.2.1
=> SHA256 Checksum OK for dmlc-xgboost-v1.2.1_GH0.tar.gz.
=> SHA256 Checksum OK for dmlc-rabit-4acdd7c6f68debe1c39ae07ca75466d74d194dd1_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends >============================
===========================================================================
=======================<phase: patch >============================
===> Patching for py37-xgboost-1.2.1
===> Applying FreeBSD patches for py37-xgboost-1.2.1 from /usr/ports/misc/py-xgboost/files
===========================================================================
=======================<phase: build-depends >============================
===> py37-xgboost-1.2.1 depends on executable: cmake - not found
===> Installing existing package /packages/All/cmake-3.18.3.txz
[121i386-quarterly-job-03] Installing cmake-3.18.3...
[121i386-quarterly-job-03] `-- Installing curl-7.72.0...
[121i386-quarterly-job-03] | `-- Installing ca_root_nss-3.58...
[121i386-quarterly-job-03] | `-- Extracting ca_root_nss-3.58: ........ done
[121i386-quarterly-job-03] | `-- Installing libnghttp2-1.41.0...
[121i386-quarterly-job-03] | `-- Extracting libnghttp2-1.41.0: .......... done
[121i386-quarterly-job-03] `-- Extracting curl-7.72.0: .......... done
[121i386-quarterly-job-03] `-- Installing expat-2.2.8...
[121i386-quarterly-job-03] `-- Extracting expat-2.2.8: .......... done
[121i386-quarterly-job-03] `-- Installing jsoncpp-1.9.4...
[121i386-quarterly-job-03] `-- Extracting jsoncpp-1.9.4: .......... done
<snip>
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined..47)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined..49)
ld: error: too many errors emitted, stopping now (use -error-limit=0 to see all errors)
c++: error: linker command failed with exit code 1 (use -v to see invocation)
--- xgboost/xgboost ---
*** [xgboost/xgboost] Error code 1
make[3]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[3]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
--- CMakeFiles/runxgboost.dir/all ---
*** [CMakeFiles/runxgboost.dir/all] Error code 2
make[2]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[2]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
*** [all] Error code 2
make[1]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[1]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
WARNING:XGBoost build_ext:Disabling OpenMP support.
INFO:XGBoost build_ext:Run CMake command: ['cmake', 'xgboost', '-GUnix Makefiles', '-DUSE_OPENMP=1', '-DUSE_CUDA=0', '-DUSE_NCCL=0', '-DBUILD_WITH_SHARED_NCCL=0', '-DHIDE_CXX_SYMBOLS=1', '-DUSE_HDFS=0', '-DUSE_AZURE=0', '-DUSE_S3=0', '-DPLUGIN_LZ4=0', '-DPLUGIN_DENSE_PARSER=0']
-- CMake version 3.18.3
-- xgboost VERSION: 1.2.1
-- Found OpenMP_C: -fopenmp=libomp (found version "3.1")
-- Found OpenMP_CXX: -fopenmp=libomp (found version "3.1")
-- Found OpenMP_C: -fopenmp=libomp (found version "3.1")
-- Found OpenMP_CXX: -fopenmp=libomp (found version "3.1")
DMLC_ROOT point to /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7/xgboost/rabit/../dmlc-core
-- Configuring done
-- Generating done
-- Build files have been written to: /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
[ 11%] Built target rabit
[ 11%] Built target rabit_base
[ 18%] Built target rabit_mock
[ 22%] Built target rabit_empty
[ 28%] Built target rabit_mock_static
[ 96%] Built target objxgboost
[ 97%] Linking CXX executable xgboost/xgboost
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_coordinate.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_coordinate.cc.o:(.omp_outlined..71)
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_coordinate.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_coordinate.cc.o:(.omp_outlined..71)
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_coordinate.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_coordinate.cc.o:(.omp_outlined..73)
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_coordinate.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_coordinate.cc.o:(.omp_outlined..73)
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_shotgun.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_shotgun.cc.o:(.omp_outlined..40)
ld: error: undefined symbol: __atomic_load
>>> referenced by updater_shotgun.cc
>>> src/CMakeFiles/objxgboost.dir/linear/updater_shotgun.cc.o:(.omp_outlined..40)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..51)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..56)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..60)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..61)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..61)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..69)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..70)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..70)
ld: error: undefined symbol: __atomic_load
>>> referenced by rank_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/rank_metric.cc.o:(.omp_outlined..78)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined.)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined.)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined..47)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined..47)
ld: error: undefined symbol: __atomic_load
>>> referenced by survival_metric.cc
>>> src/CMakeFiles/objxgboost.dir/metric/survival_metric.cc.o:(.omp_outlined..49)
ld: error: too many errors emitted, stopping now (use -error-limit=0 to see all errors)
c++: error: linker command failed with exit code 1 (use -v to see invocation)
--- xgboost/xgboost ---
*** [xgboost/xgboost] Error code 1
make[3]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[3]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
--- CMakeFiles/runxgboost.dir/all ---
*** [CMakeFiles/runxgboost.dir/all] Error code 2
make[2]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[2]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
*** [all] Error code 2
make[1]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
1 error
make[1]: stopped in /wrkdirs/usr/ports/misc/py-xgboost/work-py37/xgboost-1.2.1/python-package/build/temp.freebsd-12.1-RELEASE-p10-i386-3.7
Traceback (most recent call last):
File "setup.py", line 162, in build_cmake_extension
self.build(src_dir, build_dir, gen, build_tool, use_omp=1)
File "setup.py", line 115, in build
cwd=build_dir)
File "/usr/local/lib/python3.7/subprocess.py", line 363, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['make', '-j24']' returned non-zero exit status 2.
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "<string>", line 1, in <module>
File "setup.py", line 318, in <module>
url='https://github.com/dmlc/xgboost')
File "/usr/local/lib/python3.7/site-packages/setuptools/__init__.py", line 145, in setup
return distutils.core.setup(**attrs)
File "/usr/local/lib/python3.7/distutils/core.py", line 148, in setup
dist.run_commands()
File "/usr/local/lib/python3.7/distutils/dist.py", line 966, in run_commands
self.run_command(cmd)
File "/usr/local/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/local/lib/python3.7/distutils/command/build.py", line 135, in run
self.run_command(cmd_name)
File "/usr/local/lib/python3.7/distutils/cmd.py", line 313, in run_command
self.distribution.run_command(command)
File "/usr/local/lib/python3.7/distutils/dist.py", line 985, in run_command
cmd_obj.run()
File "/usr/local/lib/python3.7/site-packages/setuptools/command/build_ext.py", line 84, in run
_build_ext.run(self)
File "/usr/local/lib/python3.7/distutils/command/build_ext.py", line 340, in run
self.build_extensions()
File "/usr/local/lib/python3.7/distutils/command/build_ext.py", line 449, in build_extensions
self._build_extensions_serial()
File "/usr/local/lib/python3.7/distutils/command/build_ext.py", line 474, in _build_extensions_serial
self.build_extension(ext)
File "setup.py", line 170, in build_extension
self.build_cmake_extension()
File "setup.py", line 165, in build_cmake_extension
self.build(src_dir, build_dir, gen, build_tool, use_omp=0)
File "setup.py", line 115, in build
cwd=build_dir)
File "/usr/local/lib/python3.7/subprocess.py", line 363, in check_call
raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command '['make', '-j24']' returned non-zero exit status 2.
*** Error code 1
Stop.
make: stopped in /usr/ports/misc/py-xgboost
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