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Author SHA1 Message Date
Jiaming Yuan 595a00466d Rewrite setup.py. (#5271) 
The setup.py is rewritten.  This new script uses only Python code and provide customized
implementation of setuptools commands.  This way users can run most of setuptools commands
just like any other Python libraries.

* Remove setup_pip.py
* Remove soft links.
* Define customized commands.
* Remove shell script.
* Remove makefile script.
* Update the doc for building from source.
 2020-02-04 13:35:42 +08:00
Rong Ou e4b74c4d22 Gradient based sampling for GPU Hist (#5093) 
* Implement gradient based sampling for GPU Hist tree method.
* Add samplers and handle compacted page in GPU Hist.
 2020-02-04 10:31:27 +08:00
Philip Hyunsu Cho c74216f22c Declare Python 3.8 support in setup.py (#5274) 2020-02-03 10:38:52 -08:00
David Díaz Vico 71e7e3b96f Improved sklearn compatibility (#5255) 2020-02-03 13:30:45 +08:00
Jiaming Yuan a5cc112eea Export JSON config in get_params. (#5256) 2020-02-03 12:46:51 +08:00
Jiaming Yuan ed0216642f Avoid dask test fixtures. (#5270) 
* Fix Travis OSX timeout.

* Fix classifier.
 2020-02-03 12:39:20 +08:00
Jiaming Yuan 856b81c727 Ignore gdb_history. [skip ci] (#5257) 2020-02-02 20:40:09 +08:00
Nan Zhu d7b45fbcaf [jvm-packages] do not use multiple jobs to make checkpoints (#5082) 
* temp

* temp

* tep

* address the comments

* fix stylistic issues

* fix

* external checkpoint
 2020-02-01 19:36:39 -08:00
Philip Hyunsu Cho fa26313feb Remove use of std::cout from R package (#5261) 2020-02-01 05:52:19 -08:00
Jiaming Yuan fe8d72b50b Cleanup warnings. (#5247) 
From clang-tidy-9 and gcc-7: Invalid case style, narrowing definition, wrong
initialization order, unused variables.
 2020-01-31 14:52:15 +08:00
Philip Hyunsu Cho adc795929a Fix compilation error due to 64-bit integer narrowing to size_t (#5250) 2020-01-30 21:32:15 -08:00
Jiaming Yuan 472ded549d Save Scikit-Learn attributes into learner attributes. (#5245) 
* Remove the recommendation for pickle.

* Save skl attributes in booster.attr

* Test loading scikit-learn model with native booster.
 2020-01-30 16:00:18 +08:00
Egor Smirnov c67163250e Optimized BuildHist function (#5156) 2020-01-29 23:32:57 -08:00
Philip Hyunsu Cho 4240daed4e Make pip install xgboost*.tar.gz work by fixing build-python.sh (#5241) 
* Make pip install xgboost*.tar.gz work by fixing build-python.sh

* Simplify install doc

* Add test

* Install Miniconda for Linux target too

* Build XGBoost only once in sdist

* Try importing xgboost after installation

* Don't set PYTHONPATH env var for sdist test
 2020-01-28 23:18:23 -08:00
Philip Hyunsu Cho cb3ed404cf [R] Enable OpenMP with AppleClang in XGBoost R package (#5240) 
* [R] Enable OpenMP with AppleClang in XGBoost R package

* Dramatically simplify install doc
 2020-01-28 12:37:22 -08:00
Philip Hyunsu Cho f7105fa44f Update Rabit (#5237) 2020-01-28 02:05:01 -08:00
Jiaming Yuan 43974939f4 Better error message about loading pickled model. (#5236) 
Print the link to new tutorial.
 2020-01-28 15:29:14 +08:00
Philip Hyunsu Cho b513dcd352 Support FreeBSD (#5233) 
* Fix build on FreeBSD

* Use __linux__ macro
 2020-01-27 22:19:16 -08:00
Jiaming Yuan ef19480eda Add dart to JSON schema. (#5218) 
* Add dart to JSON schema.

* Use spaces instead of tab.
 2020-01-28 13:29:09 +08:00
Philip Hyunsu Cho 2f7fcff4d7 Fix build on FreeBSD (#133) 2020-01-27 12:15:32 -08:00
Nan Zhu 6e563951af fix hanging trainings (#132) 
* fix hanging connections

* remove logging
 2020-01-27 09:12:02 -08:00
Philip Hyunsu Cho 0c7455276d [R] Robust endian detection in CRAN xgboost build (#5232) 
* [R] Robust endian detection in CRAN xgboost build

* Check for external backtrace() lib

* Update Makevars.win
 2020-01-27 02:55:13 -08:00
Rory Mitchell 1b3947d929 Make some GPU tests deterministic (#5229) 2020-01-26 11:53:07 +13:00
Jiaming Yuan 3eb1279bbf Config for linear updaters. (#5222) 2020-01-25 11:26:46 +08:00
Jiaming Yuan 40680368cf Add constraint parameters to Scikit-Learn interface. (#5227) 
* Add document for constraints.

* Fix a format error in doc for objective function.
 2020-01-25 11:12:02 +08:00
Philip Hyunsu ChoandJiaming Yuan 44469a0ca9 Extensible binary serialization format for DMatrix::MetaInfo (#5187) 
* Turn xgboost::DataType into C++11 enum class

* New binary serialization format for DMatrix::MetaInfo

* Fix clang-tidy

* Fix c++ test

* Implement new format proposal

* Move helper functions to anonymous namespace; remove unneeded field

* Fix lint

* Add shape.

* Keep only roundtrip test.

* Fix test.

* various fixes

* Update data.cc

Co-authored-by: Jiaming Yuan <jm.yuan@outlook.com>
 2020-01-23 11:33:17 -08:00
OrdoAbChaoandJiaming Yuan b4f952bd22 [Breaking] Remove Scikit-Learn default parameters (#5130) 
* Simplify Scikit-Learn parameter management.

* Copy base class for removing duplicated parameter signatures.
* Set all parameters to None.
* Handle None in set_param.
* Extract the doc.

Co-authored-by: Jiaming Yuan <jm.yuan@outlook.com>
 2020-01-23 20:25:20 +08:00
Rory Mitchell aa9a68010b uint not supported in cudf (#5225) 2020-01-23 16:59:18 +13:00
Jiaming Yuan 1891cc766d Fix metainfo from DataFrame. (#5216) 
* Fix metainfo from DataFrame.

* Unify helper functions for data and meta.
 2020-01-22 16:29:44 +08:00
Rory Mitchell 5d4c24a1fc Fix cupy without cudf import (#5219) 2020-01-22 18:02:39 +13:00
Rory Mitchell 9c56480c61 Support dmatrix construction from cupy array (#5206) 2020-01-22 13:15:27 +13:00
Philip Hyunsu Cho 2a071cebc5 Add CMake option to run Undefined Behavior Sanitizer (UBSan) (#5211) 
* Fix related errors.
 2020-01-20 16:57:44 +08:00
mattn ff1342b252 Fix compilation error (#5215) 2020-01-18 23:51:07 +08:00
Crissman Loomis e526871f0a Add Optuna badge to README.md (#5208) 
* Update README.md
 2020-01-16 12:22:19 +08:00
Jiaming Yuan 5199b86126 Fix R dart prediction. (#5204) 
* Fix R dart prediction and add test.
 2020-01-16 12:11:04 +08:00
Jiaming Yuan 808f61081b Update R doc by roxygen2. (#5201) 2020-01-15 10:49:17 +08:00
Philip Hyunsu Cho 0184f2e9f7 Explicitly use UTF-8 codepage when using MSVC (#5197) 
* Explicitly use UTF-8 codepage when using MSVC

* Fix build with CUDA enabled
 2020-01-14 13:30:34 -08:00
Rory Mitchell a73e25e15f Implement slice via adapters (#5198) 2020-01-14 12:55:41 +13:00
Kodi ArferPhilip Hyunsu ChoJiaming Yuan
 		f100b8d878 [Breaking] Don't drop trees during DART prediction by default (#5115) 
* Simplify DropTrees calling logic

* Add `training` parameter for prediction method.

* [Breaking]: Add `training` to C API.

* Change for R and Python custom objective.

* Correct comment.

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
Co-authored-by: Jiaming Yuan <jm.yuan@outlook.com>
 2020-01-13 21:48:30 +08:00
Jiaming Yuan 7b65698187 Enforce correct data shape. (#5191) 
* Fix syncing DMatrix columns.
* notes for tree method.
* Enable feature validation for all interfaces except for jvm.
* Better tests for boosting from predictions.
* Disable validation on JVM.
 2020-01-13 15:48:17 +08:00
Rory Mitchell 8cbcc53ccb Remove old cudf constructor code (#5194) 2020-01-10 16:35:23 +13:00
Rory Mitchell 87ebfc1315 Implement cudf construction with adapters. (#5189) 2020-01-09 20:23:06 +13:00
Rory Mitchell 9559f81377 Move SimpleDMatrix constructor to .cc file (#5188) 2020-01-09 14:20:13 +13:00
cpfarrell 9049c7c653 Add new lines for Spark XGBoost missing values section (#5180) 2020-01-07 12:14:16 +08:00
Jiaming Yuan ee287808fb Lazy initialization of device vector. (#5173) 
* Lazy initialization of device vector.

* Fix #5162.

* Disable copy constructor of HostDeviceVector.  Prevents implicit copying.

* Fix CPU build.

* Bring back move assignment operator.
 2020-01-07 11:23:05 +08:00
Jiaming Yuan 77cfbff5a7 Fix span constructor. (#5166) 
* Make sure copy constructor is used.
 2020-01-07 11:19:38 +08:00
Jiaming Yuan ebc86a3afa Disable parameter validation for Scikit-Learn interface. (#5167) 
* Disable parameter validation for now.

Scikit-Learn passes all parameters down to XGBoost, whether they are used or
not.

* Add option `validate_parameters`.
 2020-01-07 11:17:31 +08:00
Jiaming Yuan 2b9a62a806 Throw error when not compiled with NCCL. (#5170) 2020-01-07 11:15:19 +08:00
Tim Gates 2d95b9a4b6 Fix simple typo: utilty -> utility (#5182) 2020-01-04 15:28:26 +08:00
Chen Qin 0d6a853212 fix xgboost build failure introduced by allgather interface (#129) 
* fix missing allgether rabit declaration

* fix allgather signature mismatch

* fix type conversion

* fix GetRingPrevRank
 2020-01-01 22:45:14 +08:00