nuanio / xgboost-node Goto Github PK

Run XGBoost model and make predictions in Node.js

License: Other

Python 3.31% Shell 3.41% JavaScript 0.29% TypeScript 0.18% C++ 25.40% CMake 0.47% Groovy 0.02% Makefile 1.86% R 3.98% M4 0.02% C 0.79% CSS 0.06% TeX 0.02% Cuda 52.21% Jupyter Notebook 0.03% Batchfile 0.01% Java 2.54% Scala 4.37% Roff 0.10% Fortran 0.94%

machine-learning nodejs xgboost boosting-algorithms gbdt javascript algorithm

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xgboost-node's Issues

Add async predict function

Description

Add async predict function to model class

npm install xgboost - fails on Debian 8

Description

Running npm install xgboost won't fully install.

Should it work with the following set-up?

root@vm:~# npm --version
6.2.0

root@vm:~# node --version
v10.8.0

root@vm:~# uname -a
Linux sketchy 3.16.0-4-amd64 #1 SMP Debian 3.16.51-2 (2017-12-03) x86_64 GNU/Linux

root@vm:~# c++ -v
Using built-in specs.
COLLECT_GCC=c++
COLLECT_LTO_WRAPPER=/usr/lib/gcc/x86_64-linux-gnu/4.9/lto-wrapper
Target: x86_64-linux-gnu
Configured with: ../src/configure -v --with-pkgversion='Debian 4.9.2-10+deb8u1' --with-bugurl=file:///usr/share/doc/gcc-4.9/README.Bugs --enable-languages=c,c++,java,go,d,fortran,objc,obj-c++ --prefix=/usr --program-suffix=-4.9 --enable-shared --enable-linker-build-id --libexecdir=/usr/lib --without-included-gettext --enable-threads=posix --with-gxx-include-dir=/usr/include/c++/4.9 --libdir=/usr/lib --enable-nls --with-sysroot=/ --enable-clocale=gnu --enable-libstdcxx-debug --enable-libstdcxx-time=yes --enable-gnu-unique-object --disable-vtable-verify --enable-plugin --with-system-zlib --disable-browser-plugin --enable-java-awt=gtk --enable-gtk-cairo --with-java-home=/usr/lib/jvm/java-1.5.0-gcj-4.9-amd64/jre --enable-java-home --with-jvm-root-dir=/usr/lib/jvm/java-1.5.0-gcj-4.9-amd64 --with-jvm-jar-dir=/usr/lib/jvm-exports/java-1.5.0-gcj-4.9-amd64 --with-arch-directory=amd64 --with-ecj-jar=/usr/share/java/eclipse-ecj.jar --enable-objc-gc --enable-multiarch --with-arch-32=i586 --with-abi=m64 --with-multilib-list=m32,m64,mx32 --enable-multilib --with-tune=generic --enable-checking=release --build=x86_64-linux-gnu --host=x86_64-linux-gnu --target=x86_64-linux-gnu
Thread model: posix
gcc version 4.9.2 (Debian 4.9.2-10+deb8u1)

npm install xgboost fails on OSX

Description

npm install xgboost fails on Mac OS

Platform, Node.js version and C++ compiler version

Mac OS High Sierra 10.13.4

$ uname -a
Darwin 17.5.0 Darwin Kernel Version 17.5.0; root:xnu-4570.51.1~1/RELEASE_X86_64 x86_64

$ node --version
v9.7.1

$ CC --version
Apple LLVM version 9.1.0 (clang-902.0.39.1)
Target: x86_64-apple-darwin17.5.0
Thread model: posix
InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin

$ gcc-7 --version
gcc-7 (Homebrew GCC 7.3.0_1) 7.3.0
Copyright (C) 2017 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.  There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.

Steps to reproduce this issue

Attempt 1

$ npm install xgboost

> [email protected] install /workspace/ews-360-sim/node_modules/xgboost
> bash ./build.sh; node-gyp rebuild

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
clang: error: unsupported option '-fopenmp'
make: *** [build/learner.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
rm -f -rf build_tests *.gcov tests/cpp/xgboost_test
cd dmlc-core; /Applications/Xcode.app/Contents/Developer/usr/bin/make clean; cd /workspace/ews-360-sim/node_modules/xgboost/xgboost
Makefile:9: make/config.mk: No such file or directory
make[1]: *** No rule to make target `make/config.mk'.  Stop.
cd rabit; /Applications/Xcode.app/Contents/Developer/usr/bin/make clean; cd /workspace/ews-360-sim/node_modules/xgboost/xgboost
...
...
clang: error: no such file or directory: 'dmlc-core/libdmlc.a'
make: *** [lib/libxgboost.dylib] Error 1
done building library
  CXX(target) Release/obj.target/xgboost/src/index.o
  CXX(target) Release/obj.target/xgboost/src/xgmodel.o
../src/xgmodel.cc:176:13: warning: 'Call' is deprecated [-Wdeprecated-declarations]
  callback->Call(2, argv);
            ^
../../nan/nan.h:1617:3: note: 'Call' has been explicitly marked deprecated here
  NAN_DEPRECATED inline v8::Local<v8::Value>
  ^
../../nan/nan.h:98:40: note: expanded from macro 'NAN_DEPRECATED'
# define NAN_DEPRECATED __attribute__((deprecated))
                                       ^
1 warning generated.
  CXX(target) Release/obj.target/xgboost/src/xgmatrix.o
  SOLINK_MODULE(target) Release/xgboost.node
clang: error: no such file or directory: '../xgboost/dmlc-core/libdmlc.a'
make: *** [Release/xgboost.node] Error 1
gyp ERR! build error
gyp ERR! stack Error: `make` failed with exit code: 2
gyp ERR! stack     at ChildProcess.onExit (/usr/local/lib/node_modules/npm/node_modules/npm-lifecycle/node_modules/node-gyp/lib/build.js:258:23)
gyp ERR! stack     at ChildProcess.emit (events.js:127:13)
gyp ERR! stack     at Process.ChildProcess._handle.onexit (internal/child_process.js:209:12)
gyp ERR! System Darwin 17.5.0
gyp ERR! command "/usr/local/Cellar/node/8.1.4/bin/node" "/usr/local/lib/node_modules/npm/node_modules/npm-lifecycle/node_modules/node-gyp/bin/node-gyp.js" "rebuild"
gyp ERR! cwd /Google Drive/workspace/ews-360-sim/node_modules/xgboost
gyp ERR! node -v v9.7.1
gyp ERR! node-gyp -v v3.6.2
gyp ERR! not ok
npm WARN @fortawesome/[email protected] requires a peer of [email protected] but none is installed. You must install peer dependencies yourself.

npm ERR! code ELIFECYCLE
npm ERR! errno 1
npm ERR! [email protected] install: `bash ./build.sh; node-gyp rebuild`
npm ERR! Exit status 1
npm ERR!
npm ERR! Failed at the [email protected] install script.
npm ERR! This is probably not a problem with npm. There is likely additional logging output above.

npm ERR! A complete log of this run can be found in:
npm ERR!     /.npm/_logs/2018-04-26T21_15_07_146Z-debug.log

Attempt 2

$ CC="gcc-7" CXX="g++-7" npm i xgboost

> [email protected] install /workspace/ews-360-sim/node_modules/xgboost
> bash ./build.sh; node-gyp rebuild

g++-7 -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
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/learner.cc -o build/learner.o
g++-7 -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
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/logging.cc -o build/logging.o
g++-7 -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
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/c_api/c_api.cc -o build/c_api/c_api.o
g++-7 -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
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/c_api/c_api_error.cc -o build/c_api/c_api_error.o
g++-7 -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/common/common.o src/common/common.cc >build/common/common.d
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/common/common.cc -o build/common/common.o
g++-7 -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/common/hist_util.o src/common/hist_util.cc >build/common/hist_util.d
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/common/hist_util.cc -o build/common/hist_util.o
g++-7 -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/data/data.o src/data/data.cc >build/data/data.d
g++-7 -c -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp src/data/data.cc -o build/data/data.o
g++-7 -std=c++11 -Wall -Wno-unknown-pragmas -Iinclude   -Idmlc-core/include -Irabit/include -I/include -O3 -funroll-loops -msse2 -fPIC -fopenmp -MM -MT build/data/simple_csr_source.o src/data/simple_csr_source.cc >build/data/simple_csr_source.d
...
...
...
g++-7: error: dmlc-core/libdmlc.a: No such file or directory
make: *** [lib/libxgboost.dylib] 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
rm -f -rf build_tests *.gcov tests/cpp/xgboost_test
cd dmlc-core; /Applications/Xcode.app/Contents/Developer/usr/bin/make clean; cd /workspace/ews-360-sim/node_modules/xgboost/xgboost
Makefile:9: make/config.mk: No such file or directory
make[1]: *** No rule to make target `make/config.mk'.  Stop.
cd rabit; /Applications/Xcode.app/Contents/Developer/usr/bin/make clean; cd /workspace/ews-360-sim/node_modules/xgboost/xgboost
...
...
...
metric.o build/metric/metric.o build/metric/multiclass_metric.o build/metric/rank_metric.o build/objective/multiclass_obj.o build/objective/objective.o build/objective/rank_obj.o build/objective/regression_obj.o build/tree/tree_model.o build/tree/tree_updater.o build/tree/updater_colmaker.o build/tree/updater_fast_hist.o build/tree/updater_histmaker.o build/tree/updater_prune.o build/tree/updater_refresh.o build/tree/updater_skmaker.o build/tree/updater_sync.o dmlc-core/libdmlc.a rabit/lib/librabit_empty.a -pthread -lm
g++-7: error: dmlc-core/libdmlc.a: No such file or directory
make: *** [lib/libxgboost.dylib] Error 1
done building library
  CXX(target) Release/obj.target/xgboost/src/index.o
g++-7: error: unrecognized command line option '-stdlib=libc++'
make: *** [Release/obj.target/xgboost/src/index.o] Error 1
gyp ERR! build error
gyp ERR! stack Error: `make` failed with exit code: 2
gyp ERR! stack     at ChildProcess.onExit (/usr/local/lib/node_modules/npm/node_modules/npm-lifecycle/node_modules/node-gyp/lib/build.js:258:23)
gyp ERR! stack     at ChildProcess.emit (events.js:127:13)
gyp ERR! stack     at Process.ChildProcess._handle.onexit (internal/child_process.js:209:12)
gyp ERR! System Darwin 17.5.0
gyp ERR! command "/usr/local/Cellar/node/8.1.4/bin/node" "/usr/local/lib/node_modules/npm/node_modules/npm-lifecycle/node_modules/node-gyp/bin/node-gyp.js" "rebuild"
gyp ERR! cwd /Google Drive/workspace/ews-360-sim/node_modules/xgboost
gyp ERR! node -v v9.7.1
gyp ERR! node-gyp -v v3.6.2
gyp ERR! not ok

npm ERR! code ELIFECYCLE
npm ERR! errno 1
npm ERR! [email protected] install: `bash ./build.sh; node-gyp rebuild`
npm ERR! Exit status 1
npm ERR!
npm ERR! Failed at the [email protected] install script.
npm ERR! This is probably not a problem with npm. There is likely additional logging output above.

npm ERR! A complete log of this run can be found in:
npm ERR!     /.npm/_logs/2018-04-26T21_22_18_780Z-debug.log

Is compilation on Mac OS supported as claimed in the README?

XGBoost build error

Description

I'm having issues installing xgboost-node

Platform, Node.js version and C++ compiler version

$ sudo hostnamectl | tail -n 3
  Operating System: Debian GNU/Linux 10 (buster)
            Kernel: Linux 5.10.142-19743-gd301e86c39f7
      Architecture: x86-64
$ node --version
v18.12.1
$ g++ --version
g++ (Debian 8.3.0-6) 8.3.0

Steps to reproduce this issue

CXXFLAGS="--std=c++14" npm install --user xgboost gives a bunch of errors that begin

npm ERR! done building library
npm ERR! make: Entering directory '/home/mchonofsky/traintracker/heroku/amtrak-lol/node_modules/xgboost/build'
npm ERR!   CXX(target) Release/obj.target/xgboost/src/index.o
npm ERR!   CXX(target) Release/obj.target/xgboost/src/xgmodel.o
npm ERR! make: Leaving directory '/home/mchonofsky/traintracker/heroku/amtrak-lol/node_modules/xgboost/build'
npm ERR! gyp info it worked if it ends with ok
npm ERR! gyp info using [email protected]
npm ERR! gyp info using [email protected] | linux | x64
npm ERR! gyp info find Python using Python version 3.7.3 found at "/usr/bin/python3"
npm ERR! gyp info spawn /usr/bin/python3
npm ERR! gyp info spawn args [
npm ERR! gyp info spawn args   '/usr/local/lib/node_modules/npm/node_modules/node-gyp/gyp/gyp_main.py',
npm ERR! gyp info spawn args   'binding.gyp',
npm ERR! gyp info spawn args   '-f',
npm ERR! gyp info spawn args   'make',
npm ERR! gyp info spawn args   '-I',
npm ERR! gyp info spawn args   '/home/mchonofsky/traintracker/heroku/amtrak-lol/node_modules/xgboost/build/config.gypi',
npm ERR! gyp info spawn args   '-I',
npm ERR! gyp info spawn args   '/usr/local/lib/node_modules/npm/node_modules/node-gyp/addon.gypi',
npm ERR! gyp info spawn args   '-I',
npm ERR! gyp info spawn args   '/home/mchonofsky/.cache/node-gyp/18.12.1/include/node/common.gypi',
npm ERR! gyp info spawn args   '-Dlibrary=shared_library',
npm ERR! gyp info spawn args   '-Dvisibility=default',
npm ERR! gyp info spawn args   '-Dnode_root_dir=/home/mchonofsky/.cache/node-gyp/18.12.1',
npm ERR! gyp info spawn args   '-Dnode_gyp_dir=/usr/local/lib/node_modules/npm/node_modules/node-gyp',
npm ERR! gyp info spawn args   '-Dnode_lib_file=/home/mchonofsky/.cache/node-gyp/18.12.1/<(target_arch)/node.lib',
npm ERR! gyp info spawn args   '-Dmodule_root_dir=/home/mchonofsky/traintracker/heroku/amtrak-lol/node_modules/xgboost',
npm ERR! gyp info spawn args   '-Dnode_engine=v8',
npm ERR! gyp info spawn args   '--depth=.',
npm ERR! gyp info spawn args   '--no-parallel',
npm ERR! gyp info spawn args   '--generator-output',
npm ERR! gyp info spawn args   'build',
npm ERR! gyp info spawn args   '-Goutput_dir=.'
npm ERR! gyp info spawn args ]
npm ERR! gyp info spawn make
npm ERR! gyp info spawn args [ 'BUILDTYPE=Release', '-C', 'build' ]
npm ERR! In file included from ../src/base.h:4,
npm ERR!                  from ../src/xgmatrix.h:4,
npm ERR!                  from ../src/index.cc:1:
npm ERR! /home/mchonofsky/.cache/node-gyp/18.12.1/include/node/node.h:976:43: warning: cast between incompatible function types from ‘void (*)(v8::Local<v8::Object>)’ to ‘node::addon_register_func’ {aka ‘void (*)(v8::Local<v8::Object>, v8::Local<v8::Value>, void*)’} [-Wcast-function-type]
npm ERR!        (node::addon_register_func) (regfunc),                          \
npm ERR!                                            ^
npm ERR! /home/mchonofsky/.cache/node-gyp/18.12.1/include/node/node.h:1010:3: note: in expansion of macro ‘NODE_MODULE_X’
npm ERR!    NODE_MODULE_X(modname, regfunc, NULL, 0)  // NOLINT (readability/null_usage)
npm ERR!    ^~~~~~~~~~~~~
npm ERR! ../src/index.cc:10:1: note: in expansion of macro ‘NODE_MODULE’
npm ERR!  NODE_MODULE(xgboost, InitAll)
npm ERR!  ^~~~~~~~~~~
npm ERR! ../src/xgmodel.cc: In static member function ‘static void XGModel::Init(v8::Local<v8::Object>)’:
npm ERR! ../src/xgmodel.cc:31:38: error: no matching function for call to ‘v8::FunctionTemplate::GetFunction()’
npm ERR!    constructor.Reset(tpl->GetFunction());

Any ideas on how to fix the issue?

Any workarounds to make this run on AWS Lambda?

I installed this package on Amazon Linux machine and copied the whole node_modules folder directly to my Lambda zip file. This ensures that the package is built in the same environment that is supposed to run.
However, when trying to require the package it fails with the following message:

{
  "errorMessage": "/lib64/libm.so.6: version `GLIBC_2.23' not found (required by /var/task/node_modules/xgboost/build/Release/xgboost.node)",
  "errorType": "Error",
  "stackTrace": [
    "Object.Module._extensions..node (module.js:597:18)",
    "Module.load (module.js:487:32)",
    "tryModuleLoad (module.js:446:12)",
    "Function.Module._load (module.js:438:3)",
    "Module.require (module.js:497:17)",
    "require (internal/module.js:20:19)",
    "bindings (/var/task/node_modules/bindings/bindings.js:81:44)",
    "Object.<anonymous> (/var/task/node_modules/xgboost/index.js:6:11)",
    "Module._compile (module.js:570:32)"
  ]
}

I'm guessing there might be some dependencies that don't exists in node_modules/xgboost folder.
Any ideas or workaround to get this working on AWS Lambda?

correct Travis badge

Description

the image URL of Travis badge is not correct: https://travis-ci.org/nuanio/xgboost-node.svg?branch=update-readme , which is point to update-readme branch

Platform, Node.js version and C++ compiler version

n/a

Steps to reproduce this issue

n/a

Related issues

Inconsistent results for data with Nulls

Hi,

when I evaluate the model result in python it got different result from node.js in production. It turns out it is the problem with handling Null values. We used the API you mentioned: matrix(data, row, col, missing), and there is still about ~10% differences in terms of scores.

Could you please tell me what could the problem be, or give an example or how to deal with it? Right now we are doing something like this in production:

featureValues.push(item[col.name] || NaN)
})
})
featureValues = new Float32Array(featureValues)

let inputMatrix = new xgboost.matrix(featureValues,
  row,
  column, NaN)

When to update xgboost Training API

hi, is there any plan to update the xgboost training API in the near future, it would be very useful to train xgboost model with nodejs

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