特有的安装警告导致包故障

Question

我想安装在R上的包xgboost按指令：

install.packages("drat", repos="https://cran.rstudio.com") 
drat:::addRepo("dmlc") 
install.packages("xgboost", repos="http://dmlc.ml/drat/", type = "source") 

前两个软件包的安装似乎很好地工作：

install.packages("drat", repos="https://cran.rstudio.com") 
    % Total % Received % Xferd Average Speed Time Time  Time Current 
           Dload Upload Total Spent Left Speed 
    0  0 0  0 0  0  0  0 --:--:-- --:--:-- --:--:--  0 0 49369 0  0 0  0  0  0 --:--:-- 0:00:01 --:--:--  0100 49369 100 49369 0  0 40981  0 0:00:01 0:00:01 --:--:-- 41004 

The downloaded binary packages are in 
    /var/folders/sx/c5z57jp103s493xxcn9bhvwc0000gn/T//RtmpluolUL/downloaded_packages 

drat:::addRepo("dmlc") 

但是xgboost的最终安装实际上是不规则的，并且我无法在之前的帖子中修正错误：

% Total % Received % Xferd Average Speed Time Time  Time Current 
           Dload Upload Total Spent Left Speed 
    0  0 0  0 0  0  0  0 --:--:-- --:--:-- --:--:--  0100 351k 100 351k 0  0 550k  0 --:--:-- --:--:-- --:--:-- 550k 
* installing *source* package ‘xgboost’ ... 
** libs 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c xgboost_R.cc -o xgboost_R.o 
In file included from xgboost_R.cc:3: 
./dmlc-core/include/dmlc/omp.h:13:9: warning: Warning: OpenMP is not available, project will be compiled into single-thread code. Use OpenMP-enabled compiler to get benefit of multi-threading. [-W#pragma-messages] 
#pragma message("Warning: OpenMP is not available, "     \ 
     ^
1 warning generated. 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c xgboost_custom.cc -o xgboost_custom.o 
In file included from xgboost_custom.cc:5: 
In file included from ./include/xgboost/logging.h:13: 
In file included from ./include/xgboost/./base.h:10: 
./dmlc-core/include/dmlc/omp.h:13:9: warning: Warning: OpenMP is not available, project will be compiled into single-thread code. Use OpenMP-enabled compiler to get benefit of multi-threading. [-W#pragma-messages] 
#pragma message("Warning: OpenMP is not available, "     \ 
     ^
1 warning generated. 
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -fPIC -Wall -mtune=core2 -g -O2 -c xgboost_assert.c -o xgboost_assert.o 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c amalgamation/xgboost-all0.cc -o amalgamation/xgboost-all0.o 
In file included from amalgamation/xgboost-all0.cc:13: 
In file included from amalgamation/../src/metric/metric.cc:6: 
In file included from ./include/xgboost/metric.h:14: 
In file included from ./include/xgboost/./data.h:15: 
In file included from ./include/xgboost/./base.h:10: 
./dmlc-core/include/dmlc/omp.h:13:9: warning: Warning: OpenMP is not available, project will be compiled into single-thread code. Use OpenMP-enabled compiler to get benefit of multi-threading. [-W#pragma-messages] 
#pragma message("Warning: OpenMP is not available, "     \ 
     ^
1 warning generated. 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c amalgamation/dmlc-minimum0.cc -o amalgamation/dmlc-minimum0.o 
In file included from amalgamation/dmlc-minimum0.cc:8: 
amalgamation/../dmlc-core/src/io/input_split_base.cc:26:22: warning: assigning field to itself [-Wself-assign-field] 
    this->align_bytes_ = align_bytes_; 
        ^
In file included from amalgamation/dmlc-minimum0.cc:10: 
In file included from amalgamation/../dmlc-core/src/data.cc:12: 
In file included from amalgamation/../dmlc-core/src/data/disk_row_iter.h:19: 
In file included from amalgamation/../dmlc-core/src/data/./libsvm_parser.h:13: 
In file included from amalgamation/../dmlc-core/src/data/./text_parser.h:11: 
./dmlc-core/include/dmlc/omp.h:13:9: warning: Warning: OpenMP is not available, project will be compiled into single-thread code. Use OpenMP-enabled compiler to get benefit of multi-threading. [-W#pragma-messages] 
#pragma message("Warning: OpenMP is not available, "     \ 
     ^
2 warnings generated. 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c rabit/src/engine_empty.cc -o rabit/src/engine_empty.o 
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I./include -I./dmlc-core/include -I./rabit/include -I. -DXGBOOST_STRICT_R_MODE=1 -DDMLC_LOG_BEFORE_THROW=0 -DDMLC_ENABLE_STD_THREAD=0 -DDMLC_DISABLE_STDIN=1 -DDMLC_LOG_CUSTOMIZE=1 -DXGBOOST_CUSTOMIZE_LOGGER=1 -DRABIT_CUSTOMIZE_MSG_ -DRABIT_STRICT_CXX98_ -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include  -fPIC -Wall -mtune=core2 -g -O2 -c rabit/src/c_api.cc -o rabit/src/c_api.o 
clang++ -std=c++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o xgboost.so ./xgboost_R.o ./xgboost_custom.o ./xgboost_assert.o ./amalgamation/xgboost-all0.o ./amalgamation/dmlc-minimum0.o ./rabit/src/engine_empty.o ./rabit/src/c_api.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation 
installing to /Library/Frameworks/R.framework/Versions/3.2/Resources/library/xgboost/libs 
** R 
** data 
** demo 
** preparing package for lazy loading 
** help 
*** installing help indices 
** building package indices 
** installing vignettes 
** testing if installed package can be loaded 
* DONE (xgboost) 

The downloaded source packages are in 
    ‘/private/var/folders/sx/c5z57jp103s493xxcn9bhvwc0000gn/T/RtmpluolUL/downloaded_packages’ 

包不正常下载，因此，当我尝试对数据集运行xgboost提供了以下错误：

Error in xgb.DMatrix(data, label = label, missing = missing) : 
    [14:53:26] amalgamation/../dmlc-core/src/io/local_filesys.cc:61: LocalFileSystem.GetPathInfo 201-225 Error:No such file or directory 

Answer 1

尝试关闭，则成为删除您当前的库文件夹，并重新安装这种方式：

if(!require("pacman")) install.packages("pacman") 
pacman::p_load(xgboost) 

pacman，这是精灵卡格人几岁的混成词，让你的软件包管理器，而不是管理的尝试手动安装的东西包的安装。这（或多或少）与人们使用应用程序商店或程序gdebi（它在Debian/Ubuntu安装期间为您获取依赖关系）的相同原因越来越多，而不是在从某个镜像下载某些源后从头开始手动构建程序或开发网站。

它可以确保你有所有的依赖，检查版本，检查安装，测试包的加载，具有自动故障排除步骤等

Answer 2

据this post，你应该“仔细检查，如果你有当你看到这个错误时，为xgb.DMatrix函数提供所有数字类型的特性。为我解决了这个问题。