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Author SHA1 Message Date
Alexander Gugel 03b8fdec74 Add DMatrix usage examples to c-api-demo (#5854) 
* Add DMatrix usage examples to c-api-demo

* Add XGDMatrixCreateFromCSREx example

* Add XGDMatrixCreateFromCSCEx example
 2020-09-26 02:10:12 -07:00
Philip Hyunsu Cho 2c4dedb7a0 [CI] Test C API demo (#6159) 
* Fix CMake install config to use dependencies

* [CI] Test C API demo

* Explicitly cast num_feature, to avoid warning in Linux
 2020-09-25 14:49:01 -07:00
Philip Hyunsu Cho bd2b1eabd0 Add back support for scipy.sparse.coo_matrix (#6162) 2020-09-25 00:49:49 -07:00
Philip Hyunsu Cho 72ef553550 Fall back to CUB allocator if RMM memory pool is not set up (#6150) 
* Fall back to CUB allocator if RMM memory pool is not set up

* Fix build

* Prevent memory leak

* Add note about lack of memory initialisation

* Add check for other fast allocators

* Set use_cub_allocator_ to true when RMM is not enabled

* Fix clang-tidy

* Do not demangle symbol; add check to ensure Linux+Clang/GCC combo
 2020-09-24 11:04:50 -07:00
Zeno Gantner 5b05f88ba9 Cosmetic fixes in faq.rst (#6161) 2020-09-24 21:05:10 +08:00
Jiaming Yuan 14afdb4d92 Support categorical data in ellpack. (#6140) 2020-09-24 19:28:57 +08:00
Jiaming Yuan 78d72ef936 Add DaskDeviceQuantileDMatrix demo. (#6156) 2020-09-24 14:08:28 +08:00
Philip Hyunsu Cho 678ea40b24 [CI] Upgrade cuDF and RMM to 0.16 nightlies; upgrade to Ubuntu 18.04 (#6157) 
* [CI] Upgrade cuDF and RMM to 0.16 nightlies

* Use Ubuntu 18.04 in RMM test, since RMM needs GCC 7+
 2020-09-23 19:48:44 -07:00
James Lamb c686bc0461 [R] remove warning in configure.ac (fixes #6151) (#6152) 
* [R] remove warning in configure.ac (fixes #6151)

* update configure
 2020-09-22 22:47:38 -07:00
Jiaming Yuan e033caa3ba Remove linking RMM library. (#6146) 
* Remove linking RMM library.

* RMM is now header only.

* Remove remaining reference.
 2020-09-22 16:59:33 -07:00
Jiaming Yuan 452ac8ea62 Time GPU tests on CI. (#6141) 2020-09-22 14:25:10 +08:00
Jiaming Yuan 33d80ffad0 [dask] Support more meta data on functional interface. (#6132) 
* Add base_margin, label_(lower|upper)_bound.
* Test survival training with dask.
 2020-09-21 16:56:37 +08:00
Jiaming Yuan 7065779afa Improve JSON format for categorical features. (#6128) 
* Gather categories for all nodes.
 2020-09-21 15:35:05 +08:00
Jiaming Yuan 210c131ce7 Support categorical data in GPU sketching. (#6137) 2020-09-21 13:53:06 +08:00
Nan Zhu c932fb50a1 [jvm-packages]add xgboost4j-gpu/xgboost4j-spark-gpu module to facilitate release (#6136) 
* add xgboost4j-gpu/xgboost4j-spark-gpu module to facilitate release

* Update pom.xml
 2020-09-20 09:20:38 -07:00
Jiaming Yuan a069a21e03 Implement intrusive ptr (#6129) 
* Use intrusive ptr for JSON.
 2020-09-20 20:07:16 +08:00
Jiaming Yuan e319b63f9e Merge extract cuts into QuantileContainer. (#6125) 
* Use pruning for initial summary construction.
 2020-09-18 16:36:39 +08:00
Jiaming Yuan cc82ca167a [dask] Refactor meta data handling. (#6130) 2020-09-18 13:26:40 +08:00
Jiaming Yuan 5384ed85c8 Use caching allocator from RMM, when RMM is enabled (#6131) 2020-09-17 21:51:49 -07:00
neko 6bc9b9dc4f Fix doc for CMake requirement. (#6123) 2020-09-16 17:59:43 +08:00
Philip Hyunsu Cho 9e955fb9b0 [R] Check warnings explicitly for model compatibility tests (#6114) 
* [R] Check warnings explicitly for model compatibility tests

* Address reviewer's feedback
 2020-09-15 10:49:48 -07:00
Philip Hyunsu Cho 33577ef5d3 Add MAPE metric (#6119) 2020-09-14 18:45:27 -07:00
Rory Mitchell 47350f6acb Allow kwargs in dask predict (#6117) 2020-09-15 13:04:03 +12:00
Jiaming Yuan b5f52f0b1b Validate weights are positive values. (#6115) 2020-09-15 09:03:55 +08:00
Jiaming YuanandRory Mitchell c6f2b8c841 Upgrade gputreeshap. (#6099) 
* Upgrade gputreeshap.

Co-authored-by: Rory Mitchell <r.a.mitchell.nz@gmail.com>
 2020-09-15 12:57:22 +12:00
Vitalie SpinuandPhilip Hyunsu Cho 1453bee3e7 [R] Remove stringi dependency (#6109) 
* [R] Fix empty empty tests and a test warnings

* [R] Remove stringi dependency (fix #5905)

* Fix R lint check

* [R] Fix automatic conversion to factor in R < 4.0.0 in xgb.model.dt.tree

* Add `R` Makefile variable

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-09-12 13:18:08 -07:00
Jiaming Yuan 07945290a2 Remove unused RABIT targets. (#6110) 
* Remove rabit mock.
* Remove rabit base.
 2020-09-11 14:09:44 +08:00
Jiaming Yuan c92d751ad1 Enable building rabit on Windows (#6105) 2020-09-11 11:54:46 +08:00
Jiaming Yuan 08bdb2efc8 Fix dask doc. [skip ci] (#6108) 2020-09-11 10:56:12 +08:00
Bobby Wang 00b0ad1293 [Doc] add doc for kill_spark_context_on_worker_failure parameter (#6097) 
* [Doc] add doc for kill_spark_context_on_worker_failure parameter

* resolve comments
 2020-09-09 21:28:44 -07:00
Philip Hyunsu Cho d0ccb13d09 Work around a compiler bug in MacOS AppleClang 11 (#6103) 
* Workaround a compiler bug in MacOS AppleClang

* [CI] Run C++ test with MacOS Catalina + AppleClang 11.0.3

* [CI] Migrate cmake_test on MacOS from Travis CI to GitHub Actions

* Install OpenMP runtime

* [CI] Use CMake to locate lz4 lib
 2020-09-09 21:21:55 -07:00
Philip Hyunsu Cho 9338582d79 [CI] Fix CTest by running it in a correct directory (#6104) 
* [CI] Fix CTest by running it in a correct directory

* [CI] Do not run dmlc-core unit tests with sanitizer
 2020-09-09 10:31:09 -07:00
Jiaming Yuan 3dcd85fab5 Refactor rabit tests (#6096) 
* Merge rabit tests into XGBoost.
* Run them On CI.
* Simplification for CMake scripts.
 2020-09-09 12:30:29 +08:00
Jiaming Yuan 318bffaa10 Fix custom obj link. [skip ci] (#6100) 2020-09-09 10:55:38 +08:00
Jiaming Yuan b0001a6e29 Correct style warnings from clang-tidy for rabit. (#6095) 2020-09-08 12:13:58 +08:00
Hristo IlievandPhilip Hyunsu Cho da61d9460b [jvm-packages] Add getNumFeature method (#6075) 
* Add getNumFeature to the Java API
* Add getNumFeature to the Scala API
* Add unit tests for getNumFeature

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-09-07 20:57:46 -07:00
Jiaming Yuan 93e9af43bb Unify set index data. (#6062) 2020-09-08 11:38:41 +08:00
Jiaming Yuan e5d40b39cd [Breaking] Don't save leaf child count in JSON. (#6094) 
The field is deprecated and not used anywhere in XGBoost.
 2020-09-08 11:11:13 +08:00
Jiaming Yuan 5994f3b14c Don't link imported target. (#6093) 2020-09-07 02:51:09 -07:00
Philip Hyunsu Cho 974ba12f38 Fix CMake build with BUILD_STATIC_LIB option (#6090) 
* Fix CMake build with BUILD_STATIC_LIB option

* Disable BUILD_STATIC_LIB option when R/JVM pkg is enabled

* Add objxgboost to install target only when BUILD_STATIC_LIB=ON
 2020-09-07 02:38:29 -07:00
Daniel Steinberg 68c55a37d9 Add cache name back to external_memory.py files. (#6088) 2020-09-06 16:01:09 +08:00
Boris Feld 24ca9348f7 Fix typo in xgboost.callback.early_stop docstring (#6071) 2020-09-06 13:37:07 +08:00
Rory Mitchell 2e907abdb8 Updates to GPUTreeShap (#6087) 
* Extract paths on device

* Update GPUTreeShap
 2020-09-06 13:39:08 +12:00
Bobby Wang 0e2d5669f6 [jvm-packages] cancel job instead of killing SparkContext (#6019) 
* cancel job instead of killing SparkContext

This PR changes the default behavior that kills SparkContext. Instead, This PR
cancels jobs when coming across task failed. That means the SparkContext is
still alive even some exceptions happen.

* add a parameter to control if killing SparkContext

* cancel the jobs the failed task belongs to

* remove the jobId from the map when one job failed.

* resolve comments
 2020-09-02 14:20:59 -07:00
Tong He 3912f3de06 Updates from 1.2.0 cran submission (#6077) 
* update for 1.2.0 cran submission

* recover cmakelists

* fix unittest from the shap PR

* trigger CI
 2020-09-02 20:50:23 +08:00
Philip Hyunsu ChoJiaming YuanJohn Zedlewski
 		9be969cc7a Add release note for 1.2.0 in NEWS.md (#6063) 
* Update query_contributors.py to account for pagination

* Add the release note for 1.2.0

* Add release note for patch releases 

* Apply suggestions from code review 

* Fix typo 

Co-authored-by: Jiaming Yuan <jm.yuan@outlook.com>
Co-authored-by: John Zedlewski <904524+JohnZed@users.noreply.github.com>
 2020-09-02 00:49:02 -07:00
Anthony D'Amato ada964f16e Clean the way deterministic paritioning is computed (#6033) 
We propose to only use the rowHashCode to compute the partitionKey, adding the FeatureValue hashCode does not bring more value and would make the computation slower. Even though a collision would appear at 0.2% with MurmurHash3 this is bearable for partitioning, this won't have any impact on the data balancing.
 2020-08-30 14:38:23 -07:00
ShvetsKSShvetsKSHyunsu Cho
 		c1ca872d1e Modin DF support (#6055) 
* Modin DF support

* mode change

* tests were added, ci env was extended

* mode change

* Remove redundant installation of modin

* Add a pytest skip marker for modin

* Install Modin[ray] from PyPI

* fix interfering

* avoid extra conversion

* delete cv test for modin

* revert cv function

Co-authored-by: ShvetsKS <kirill.shvets@intel.com>
Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-08-29 22:33:30 +03:00
FelixYBW 3a990433f9 set maxBins to 256. Align with c code in src/tree/param.h (#6066) 2020-08-28 15:06:11 +03:00
Rory MitchellandPhilip Hyunsu Cho 9bddecee05 Update GPUTreeShap (#6064) 
* Update GPUTreeShap

* Update src/CMakeLists.txt

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-08-27 12:01:53 -07:00