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707 Commits

Author SHA1 Message Date
Jiaming Yuan
4ccf92ea34
[dask] Fix union of workers. (#6375) 2020-11-13 16:55:05 +08:00
Jiaming Yuan
fcfeb4959c
Deprecate positional arguments. (#6365) 
Deprecate positional arguments in following functions:

- `__init__` for all classes in sklearn module.
- `fit` method for all classes in sklearn module.
- dask interface.
- `set_info` for `DMatrix` class.

Refactor the evaluation matrices handling.
 2020-11-13 11:10:30 +08:00
Philip Hyunsu Cho
e5193c21a1
[dask] Allow empty data matrix in AFT survival (#6379) 
* [dask] Allow empty data matrix in AFT survival

* Add unit test
 2020-11-12 17:49:58 -08:00
Jiaming Yuan
c1a62b5fa2
Expect gpu external memory to fail. (#6381) 2020-11-12 19:24:48 +08:00
Jiaming Yuan
c90f968d92
Update Python documents. (#6376) 2020-11-12 17:51:32 +08:00
Jiaming Yuan
d711d648cb
Fix label errors in graph visualization (#6369) 2020-11-11 17:44:59 -08:00
Jiaming Yuan
6e12c2a6f8
[dask] Supoort running on GKE. (#6343) 
* Avoid accessing `scheduler_info()['workers']`.
* Avoid calling `client.gather` inside task.
* Avoid using `client.scheduler_address`.
 2020-11-11 18:04:34 +08:00
Jiaming Yuan
8a17610666
Implement GPU predict leaf. (#6187) 2020-11-11 17:33:47 +08:00
Philip Hyunsu Cho
7f101d1b33
[CI] Remove R check from Jenkins (#6372) 
* Remove R check from Jenkins

* Print stacktrace when CRAN test fail in GitHub Actions

* Add verbose flag in tests/ci_build/print_r_stacktrace.sh

* Fix path in tests/ci_build/print_r_stacktrace.sh
 2020-11-10 22:46:54 -08:00
Jiaming Yuan
43efadea2e
Deterministic data partitioning for external memory (#6317) 
* Make external memory data partitioning deterministic.

* Change the meaning of `page_size` from bytes to number of rows.

* Design a data pool.

* Note for external memory.

* Enable unity build on Windows CI.

* Force garbage collect on test.
 2020-11-11 06:11:06 +08:00
Jiaming Yuan
184e2eac7d
Add period to evaluation monitor. (#6348) 2020-11-10 07:47:48 +08:00
Jiaming Yuan
519cee115a
Avoid resetting seed for every configuration. (#6349) 2020-11-06 10:28:35 +08:00
Jiaming Yuan
2cc9662005
Support slicing tree model (#6302) 
This PR is meant the end the confusion around best_ntree_limit and unify model slicing. We have multi-class and random forests, asking users to understand how to set ntree_limit is difficult and error prone.

* Implement the save_best option in early stopping.

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-11-02 23:27:39 -08:00
Rory Mitchell
29745c6df2
Fix inclusive scan for large sizes (#6234) 2020-11-03 17:01:43 +13:00
Jiaming Yuan
7756192906
[dask] Fix prediction on DaskDMatrix with multiple meta data. (#6333) 
* Unify the meta handling methods.
 2020-11-02 19:18:44 -05:00
Jiaming Yuan
048acf81cd
Enable shap sparse test. (#6332) 2020-11-01 20:59:27 +08:00
Jiaming Yuan
6ff331b705
Fix Python callback. (#6320) 2020-10-30 05:03:44 +08:00
Sergio Gavilán
b181a88f9f
Reduced some C++ compiler warnings (#6197) 
* Removed some warnings

* Rebase with master

* Solved C++ Google Tests errors made by refactoring in order to remove warnings

* Undo renaming path -> path_

* Fix style check

Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-10-29 12:36:00 -07:00
Jiaming Yuan
c80657b542
Fix flaky data initialization test. (#6318) 2020-10-30 03:11:22 +08:00
Jiaming Yuan
dfac5f89e9
Group CLI demo into subdirectory. (#6258) 
CLI is not most developed interface. Putting them into correct directory can help new users to avoid it as most of the use cases are from a language binding.
 2020-10-28 14:40:44 -07:00
Philip Hyunsu Cho
143b278267
Mark flaky tests as XFAIL (#6299) 
* Temporarily skip TestGPUUpdaters::test_categorical

* Temporarily skip test_boost_from_prediction[approx]
 2020-10-28 11:50:57 -07:00
Jiaming Yuan
c4da967b5c
Support unity build. (#6295) 
* Support unity build.

* Setup on Windows Jenkins.

* Revert "Setup on Windows Jenkins."

This reverts commit 8345cb8d2b009eec8ae9fa6f16412a7c9b6ec12c.
 2020-10-28 11:49:28 -07:00
Philip Hyunsu Cho
f6169c0b16
[CI] Use separate Docker cache for each CUDA version (#6305) 2020-10-28 11:07:00 -07:00
Jiaming Yuan
3310e208fd
Fix inplace prediction interval. (#6259) 
* Add back the interval in call.
* Make the interval non-optional.
 2020-10-28 13:13:59 +08:00
James Lamb
e1de390e6e
[ci] replace 'egrep' with 'grep -E' (#6287) 2020-10-27 12:05:48 -07:00
Philip Hyunsu Cho
c8ec62103a
Deprecate LabelEncoder in XGBClassifier; Enable cuDF/cuPy inputs in XGBClassifier (#6269) 
* Deprecate LabelEncoder in XGBClassifier; skip LabelEncoder for cuDF/cuPy inputs

* Add unit tests for cuDF and cuPy inputs with XGBClassifier

* Fix lint

* Clarify warning

* Move use_label_encoder option to XGBClassifier constructor

* Add a test for cudf.Series

* Add use_label_encoder to XGBRFClassifier doc

* Address reviewer feedback
 2020-10-26 13:20:51 -07:00
Jiaming Yuan
bcfab4d726
Revert "Disable JSON full serialization for now. (#6248)" (#6266) 
This reverts commit 6d293020fbfa2c67b532d550fe5d55689662caac.
 2020-10-27 03:30:47 +08:00
Jiaming Yuan
2686d32a36
Skip dask tests on ARM. (#6267) 
Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2020-10-26 15:09:05 +08:00
Philip Hyunsu Cho
677f676172
Use UserWarning for old callback, as DeprecationWarning is not visible (#6270) 2020-10-22 01:10:52 -07:00
Philip Hyunsu Cho
1300467d36
Fix a typo in is_arm() in testing.py [skip ci] (#6271) 2020-10-22 13:07:14 +08:00
Jiaming Yuan
b5c2a47b20
Drop single point model recovery (#6262) 
* Pass rabit params in JVM package.
* Implement timeout using poll timeout parameter.
* Remove OOB data check.
 2020-10-21 15:27:03 +08:00
Jiaming Yuan
81c37c28d5
Time the CPU tests on Jenkins. (#6257) 
* Time the CPU tests on Jenkins.
* Reduce thread contention.
* Add doc.
* Skip heavy tests on ARM.
 2020-10-20 17:19:07 -07:00
Jiaming Yuan
ddf37cca30
Unify thread configuration. (#6186) 2020-10-19 16:05:42 +08:00
Philip Hyunsu Cho
7f6ed5780c
[CI] Build a Python wheel for aarch64 platform (#6253) 2020-10-18 22:35:19 -07:00
Jiaming Yuan
5037abeb86
Fix linear gpu input (#6255) 2020-10-19 12:02:36 +08:00
Philip Hyunsu Cho
65ea42bd42
[CI] Reduce testing load with RMM (#6249) 
* [CI] Reduce testing load with RMM

* Address reviewer's comment
 2020-10-18 19:16:46 -07:00
Jiaming Yuan
6d293020fb
Disable JSON full serialization for now. (#6248) 
* Disable JSON serialization for now.

* Multi-class classification is checkpointing for each iteration.
This brings significant overhead.

Revert: 90355b4f007ae

* Set R tests to use binary.
 2020-10-16 17:59:54 +08:00
Jiaming Yuan
3da5a69dc9
Fix typo in dask interface. (#6240) 2020-10-15 15:26:29 +08:00
Jiaming Yuan
bed7ae4083
Loop over thrust::reduce. (#6229) 
* Check input chunk size of dqdm.
* Add doc for current limitation.
 2020-10-14 10:40:56 +13:00
Rory Mitchell
734a911a26
Loop over copy_if (#6201) 
* Loop over copy_if

* Catch OOM.

Co-authored-by: fis <jm.yuan@outlook.com>
 2020-10-14 10:23:16 +13:00
Jiaming Yuan
b05073bda5
[dask] Test for data initializaton. (#6226) 2020-10-13 11:08:35 +08:00
Jiaming Yuan
2443275891
Cleanup Python code. (#6223) 
* Remove pathlike as XGBoost 1.2 requires Python 3.6.
* Move conditional import of dask/distributed into dask module.
 2020-10-12 15:44:41 +08:00
Jiaming Yuan
70c2039748
Catch all standard exceptions in C API. (#6220) 
* `std::bad_alloc` is not guaranteed to be caught.
 2020-10-12 14:01:46 +08:00
Jiaming Yuan
2241563f23
Handle duplicated values in sketching. (#6178) 
* Accumulate weights in duplicated values.
* Fix device id in iterative dmatrix.
 2020-10-10 19:32:44 +08:00
Jiaming Yuan
ab5b35134f
Rework Python callback functions. (#6199) 
* Define a new callback interface for Python.
* Deprecate the old callbacks.
* Enable early stopping on dask.
 2020-10-10 17:52:36 +08:00
Jiaming Yuan
b5b24354b8
More categorical tests and disable shap sparse test. (#6219) 
* Fix tree load with 32 category.
 2020-10-10 16:12:37 +08:00
Philip Hyunsu Cho
c991eb612d
[jvm-packages] Fix up build for xgboost4j-gpu, xgboost4j-spark-gpu (#6216) 
* [CI] Clean up build for JVM packages

* Use correct path for saving native lib

* Fix groupId of maven-surefire-plugin

* Fix stashing of xgboost4j_jar_gpu

* [CI] Don't run xgboost4j-tester with GPU, since it doesn't use gpu_hist
 2020-10-09 14:08:15 -07:00
Jiaming Yuan
70ce5216b5
Add high level tests for categorical data. (#6179) 
* Fix unique.
 2020-10-09 09:27:23 +08:00
odidev
a2fea33103
Added arm64 job in Travis-CI (#6200) 
Signed-off-by: odidev <odidev@puresoftware.com>
 2020-10-07 15:02:09 +08:00
Philip Hyunsu Cho
f121f2738f
[CI] Fix Docker build for CUDA 11 (#6202) 2020-10-05 17:54:14 -07:00