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Author SHA1 Message Date
Jiaming Yuan a7226c0222 Fix feature names with special characters. (#9923) 2023-12-28 22:45:13 +08:00
Jiaming Yuan 6a5f6ba694 [CI] Add timeout for distributed GPU tests. (#9917) 2023-12-24 00:09:05 +08:00
Jiaming Yuan 9d122293bc [doc] Fix typo. [skip ci] (#9904) 2023-12-20 09:17:00 +08:00
Jiaming Yuan 0edd600f3d [doc] Brief introduction to base_score. (#9882) 2023-12-17 13:34:34 +08:00
Jiaming Yuan 1c6e031c75 [R] Fix clang warning. (#9874) 2023-12-15 01:30:43 +08:00
Jiaming Yuan 125bc812f8 [doc] Reference enable_categorical doc in sklearn. (#9884) 2023-12-14 23:29:19 +08:00
Jiaming Yuan 1aa8c8d9be Support more scipy types. (#9881) 2023-12-14 18:28:37 +08:00
Jiaming Yuan faf0f2df10 Support dataframe data format in native XGBoost. (#9828) 
- Implement a columnar adapter.
- Refactor Python pandas handling code to avoid converting into a single numpy array.
- Add support in R for transforming columns.
- Support R data.frame and factor type.
 2023-12-12 09:56:31 +08:00
Jiaming Yuan b3700bbb3f Flexible find protobuf. (#9867) 2023-12-12 07:34:01 +08:00
Jiaming Yuan 1094d6015d [py] Use the first found native library. (#9860) 2023-12-08 17:23:16 +08:00
Jiaming Yuan 42de9206fc Support multi-target, fit intercept for hinge. (#9850) 2023-12-08 05:50:41 +08:00
Jiaming Yuan 39c637ee19 Use array interface in Python prediction return. (#9855) 2023-12-08 03:42:14 +08:00
Jiaming Yuan 4bc1f3a388 [R] Bump requirement to 4.3.0. (#9847) 2023-12-07 00:12:45 +08:00
Jiaming Yuan e78b46046e [CI] Update R version on Linux. (#9835) 2023-12-02 11:03:17 +08:00
Jiaming Yuan 2d8c67d6dc [jvm-packages] Bump dependencies. (#9827) 
- #9811
- #9814
- #9826
- #9830
- #9833
- #9832
- #9831
- #9834
 2023-12-02 07:34:56 +08:00
Jiaming Yuan e2e089ce12 [jvm-packages] Bump rapids version. (#9820) 2023-11-29 15:51:07 +08:00
Jiaming Yuan 59684b2db6 [doc] Draft for language binding consistency. [skip ci] (#9755) 2023-11-29 13:13:40 +08:00
Jiaming Yuan 34a2616696 [jvm-packages] Update dependencies. (#9809) 
- scalatest: 3.2.17
- maven-checkstyle-plugin: 3.3.1
- maven-surefire-plugin: 3.2.2
- maven-project-info-reports-plugin: 3.5.0
- maven-javadoc-plugin: 3.6.2
 2023-11-27 20:09:25 +08:00
Jiaming Yuan e9f149481e [sklearn] Fix loading model attributes. (#9808) 2023-11-27 17:19:01 +08:00
Jiaming Yuan 3f4e22015a Mark NCCL python test optional. (#9804) 
Skip the tests if XGBoost is not compiled with dlopen.
 2023-11-25 11:25:47 +08:00
Jiaming Yuan 8fe1a2213c Cleanup code for distributed training. (#9805) 
* Cleanup code for distributed training.

- Merge `GetNcclResult` into nccl stub.
- Split up utilities from the main dask module.
- Let Channel return `Result` to accommodate nccl channel.
- Remove old `use_label_encoder` parameter.
 2023-11-25 09:10:56 +08:00
Jiaming Yuan e9260de3f3 [breaking] Remove dense libsvm parser plugin. (#9799) 2023-11-23 00:12:39 +08:00
Jiaming Yuan 1877cb8e83 Change default metric for gamma regression to deviance. (#9757) 
* Change default metric for gamma regression to deviance.

- Cleanup the gamma implementation.
- Use deviance instead since the objective is derived from deviance.
 2023-11-22 21:17:48 +08:00
Jiaming Yuan 0715ab3c10 Use dlopen to load NCCL. (#9796) 
This PR adds optional support for loading nccl with `dlopen` as an alternative of compile time linking. This is to address the size bloat issue with the PyPI binary release.
- Add CMake option to load `nccl` at runtime.
- Add an NCCL stub.

After this, `nccl` will be fetched from PyPI when using pip to install XGBoost, either by a user or by `pyproject.toml`. Others who want to link the nccl at compile time can continue to do so without any change.

At the moment, this is Linux only since we only support MNMG on Linux.
 2023-11-22 19:27:31 +08:00
Jiaming Yuan fedd9674c8 Implement column sampler in CUDA. (#9785) 
- CUDA implementation.
- Extract the broadcasting logic, we will need the context parameter after revamping the collective implementation.
- Some changes to the event loop for fixing a deadlock in CI.
- Move argsort into algorithms.cuh, add support for cuda stream.
 2023-11-17 04:29:08 +08:00
Jiaming Yuan ada377c57e [coll] Reduce the scope of lock in the event loop. (#9784) 2023-11-15 14:16:19 +08:00
Jiaming Yuan 6fd4a30667 [coll] Increase timeout for allgather test. (#9777) 2023-11-09 05:26:40 +08:00
Jiaming Yuan 44099f585d [coll] Add C API for the tracker. (#9773) 2023-11-08 18:17:14 +08:00
Jiaming Yuan 06bdc15e9b [coll] Pass context to various functions. (#9772) 
* [coll] Pass context to various functions.

In the future, the `Context` object would be required for collective operations, this PR
passes the context object to some required functions to prepare for swapping out the
implementation.
 2023-11-08 09:54:05 +08:00
Jiaming Yuan 6c0a190f6d [coll] Add comm group. (#9759) 
- Implement `CommGroup` for double dispatching.
- Small cleanup to tracker for handling abort.
 2023-11-07 11:12:31 +08:00
Jiaming Yuan c3a0622b49 Fix using categorical data with the score function of ranker. (#9753) 2023-11-07 07:29:11 +08:00
Jiaming Yuan 82828621d0 [doc] Add doc for linters and simplify c++ lint script. (#9750) 2023-11-07 05:03:30 +08:00
Jiaming Yuan 98238d63fa [dask] Change document to avoid using default import. (#9742) 
This aligns dask with pyspark, users need to explicitly call:

```
from xgboost.dask import DaskXGBClassifier
from xgboost import dask as dxgb
```

In future releases, we might stop using the default import and remove the lazy loader.
 2023-11-07 02:44:39 +08:00
Jiaming Yuan 4da4e092b5 [coll] Improvements and fixes for tracker and allreduce. (#9745) 
- Allow the tracker to wait.
- Fix allreduce type cast
- Return args from the federated tracker.
 2023-11-02 04:06:46 +08:00
Jiaming Yuan bc995a4865 [coll] Add federated coll. (#9738) 
- Define a new data type, the proto file is copied for now.
- Merge client and communicator into `FederatedColl`.
- Define CUDA variant.
- Migrate tests for CPU, add tests for CUDA.
 2023-11-01 04:06:46 +08:00
Jiaming Yuan 80390e6cb6 [coll] Federated comm. (#9732) 2023-10-31 02:39:55 +08:00
Jiaming Yuan 6755179e77 [coll] Add nccl. (#9726) 2023-10-28 16:33:58 +08:00
Jiaming Yuan 7a02facc9d Serialize expand entry for allgather. (#9702) 2023-10-24 14:33:28 +08:00
Jiaming Yuan 3ca06ac51e [doc] Mention data consistency for categorical features. (#9678) 2023-10-24 10:11:33 +08:00
Jiaming Yuan b771f58453 [coll] Define interface for bridging. (#9695) 
* Define the basic interface that will shared by nccl, federated and native.
 2023-10-20 16:20:48 +08:00
Jiaming Yuan 5d1bcde719 [coll] allgatherv. (#9688) 2023-10-19 03:13:50 +08:00
Jiaming Yuan 4c0e4422d0 [coll] allgather. (#9681) 2023-10-18 10:22:18 +08:00
Jiaming Yuan 48ac9b6cbe [coll] Allreduce. (#9679) 2023-10-17 13:57:14 +08:00
Jiaming Yuan 53049b16b8 [coll] Broadcast. (#9659) 2023-10-14 09:34:37 +08:00
Jiaming Yuan 81a059864a Skip check for pollhup. (#9661) 2023-10-13 14:35:14 +08:00
Jiaming Yuan cd8760cba3 [doc] Update document about running tests. [skip ci] (#9658) 2023-10-13 09:07:01 +08:00
Jiaming Yuan 946ae1c440 [coll] Implement a new tracker and a communicator. (#9650) 
* [coll] Implement a new tracker and a communicator.

The new tracker and communicators communicate through the use of JSON documents. Along
with which, communicators are aware of each other.
 2023-10-12 12:49:16 +08:00
Jiaming Yuan 084d89216c Add support for cgroupv2. (#9651) 2023-10-12 09:36:36 +08:00
Jiaming Yuan b14e535e78 [Coll] Implement get host address in libxgboost. (#9644) 
- Port `xgboost.tracker.get_host_ip` in C++.
 2023-10-10 10:01:14 +08:00
Jiaming Yuan 680d53db43 Extract JSON utils. (#9645) 2023-10-10 07:15:14 +08:00
Jiaming Yuan 4e5a7729c3 Fix lint errors. (#9634) 2023-10-09 19:04:31 +08:00
Jiaming Yuan 4d7a187cb0 Remove XGBoosterGetModelRaw. (#9617) 
Deprecated in 1.6.
 2023-09-29 02:29:33 +08:00
Jiaming Yuan d95be1c38d Small cleanup to jvm iter adapter. (#9616) 
- Remove header dependency on c_api
- Remove remaining code for arrow.
 2023-09-29 00:39:07 +08:00
Jiaming Yuan 417c3ba47e Workaround Apple clang issue. (#9615) 2023-09-28 22:51:47 +08:00
Jiaming Yuan 60526100e3 Support arrow through pandas ext types. (#9612) 
- Use pandas extension type for pyarrow support.
- Additional support for QDM.
- Additional support for inplace_predict.
 2023-09-28 17:00:16 +08:00
Jiaming Yuan c75a3bc0a9 [breaking] [jvm-packages] Remove rabit check point. (#9599) 
- Add `numBoostedRound` to jvm packages
- Remove rabit checkpoint version.
- Change the starting version of training continuation in JVM [breaking].
- Redefine the checkpoint version policy in jvm package. [breaking]
- Rename the Python check point callback parameter. [breaking]
- Unifies the checkpoint policy between Python and JVM.
 2023-09-26 18:06:34 +08:00
Jiaming Yuan 1167e6c554 Limit the number of threads for external memory. (#9605) 2023-09-24 00:30:28 +08:00
Jiaming Yuan cac2cd2e94 [R] Set number of threads in demos and tests. (#9591) 
- Restrict the number of threads in IO.
- Specify the number of threads in demos and tests.
- Add helper scripts for checks.
 2023-09-23 21:44:03 +08:00
Jiaming Yuan a90d204942 Use array interface for testing numpy arrays. (#9602) 2023-09-23 03:13:48 +08:00
Jiaming Yuan bbf5b9ee57 [dask] Move dask module into directory. (#9597) 2023-09-23 01:28:18 +08:00
Jiaming Yuan 0080c97075 Workaround poll on macos. (#9596) 2023-09-21 01:09:36 +08:00
Jiaming Yuan 8c676c889d Remove internal use of gpu_id. (#9568) 2023-09-20 23:29:51 +08:00
Jiaming Yuan 38ac52dd87 Build a simple event loop for collective. (#9593) 2023-09-20 02:09:07 +08:00
Jiaming YuanandHyunsu Cho 259d80c0cf News for 2.0. [skip ci] (#9484) 
---------

Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2023-09-19 05:46:02 +08:00
Jiaming Yuan 0df1da2db4 fix rel script with relative path and end note version. [skip ci] (#9572) 2023-09-18 17:58:48 +08:00
Jiaming Yuan 300f9ace06 Fix default metric configuration. (#9575) 2023-09-13 13:05:47 -07:00
Jiaming Yuan b438d684d2 Utilities and cleanups for socket. (#9576) 
- Use c++-17 nodiscard and nested ns.
- Add bind method to socket.
- Remove rabit parameters.
 2023-09-14 01:41:42 +08:00
Jiaming Yuan 5abe50ff8c [R] Fix method name. (#9577) 2023-09-13 23:19:29 +08:00
Jiaming Yuan 9027686cac Support pandas 2.1.0. (#9557) 2023-09-11 17:44:51 +08:00
Jiaming Yuan 3b9e5909fb [CI] bump setup-r action version. (#9544) 2023-09-05 16:14:45 +08:00
Jiaming Yuan adea842c83 Fix inplace predict with fallback when base margin is used. (#9536) 
- Copy meta info from proxy DMatrix.
- Use `std::call_once` to emit less warnings.
 2023-09-05 01:04:24 +08:00
Jiaming Yuan ccfc90e4c6 [rabit] Improved connection handling. (#9531) 
- Enable timeout.
- Report connection error from the system.
- Handle retry for both tracker connection and peer connection.
 2023-08-30 13:00:04 +08:00
Jiaming Yuan ddf2e68821 Use the new DeviceOrd in the linalg module. (#9527) 2023-08-29 13:37:29 +08:00
Jiaming Yuan 942b957eef Fix GPU categorical split memory allocation. (#9529) 2023-08-29 10:06:03 +08:00
Jiaming Yuan be6a552956 [R] Support multi-class custom objective. (#9526) 2023-08-29 08:27:13 +08:00
Jiaming Yuan 90ef250ea1 [rabit] Drop support for MPI backend. (#9525) 
- Add checks in cmake.
- Remove mpi related code.
 2023-08-28 21:01:22 +08:00
Jiaming Yuan c3574d932f [R] Fix integer inputs with NA. (#9522) 2023-08-28 18:36:11 +08:00
Jiaming Yuan 1b87a1d8f8 [rabit] Small cleanup to tracker initialization. (#9524) 
- Remove recover related code.
- Clean startup, no need to consider previously connected nodes.
 2023-08-27 05:10:59 +08:00
Jiaming Yuan 209335b18c Remove the deprecated Python rabit module. (#9523) 2023-08-27 03:37:05 +08:00
Jiaming Yuan aa86bd5207 [dask] Filter models on worker. (#9518) 2023-08-25 20:23:47 +08:00
Jiaming Yuan 972730cde0 Use matrix for gradient. (#9508) 
- Use the `linalg::Matrix` for storing gradients.
- New API for the custom objective.
- Custom objective for multi-class/multi-target is now required to return the correct shape.
- Custom objective for Python can accept arrays with any strides. (row-major, column-major)
 2023-08-24 05:29:52 +08:00
Jiaming Yuan 8c10af45a0 Delay the check for vector leaf. (#9509) 2023-08-23 01:53:40 +08:00
Jiaming Yuan 3c09399f29 Fix device dispatch for linear updater. (#9507) 2023-08-23 00:17:35 +08:00
Jiaming Yuan 302bbdc958 mitigate flaky test with distributed l1 error. (#9499) 2023-08-22 13:46:35 +08:00
Jiaming Yuan 044fea1281 Drop support for loading remote files. (#9504) 2023-08-21 23:34:05 +08:00
Jiaming YuanandPhilip Hyunsu Cho e6cf7a1278 Deprecate the command line interface. (#9485) 
---------

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2023-08-21 06:47:48 +08:00
Jiaming Yuan 38a3e1b858 Fix release script for RC [skip ci] (#9505) 2023-08-21 05:24:35 +08:00
Jiaming Yuan db87d481bc [R] Differentiate dev version with release version. (#9503) 
Use 2.1.0.0 as development version, we will change it to 2.1.0.1 during release.
 2023-08-20 02:58:58 +08:00
Jiaming Yuan 7f29a238e6 Return base score as intercept. (#9486) 2023-08-19 12:28:02 +08:00
Jiaming Yuan 58530b1bc4 Bump version to 2.1. (#9498) 2023-08-18 01:04:04 +08:00
Jiaming Yuan 5188e27513 Fix version parsing with rc release. (#9493) 2023-08-16 22:44:58 +08:00
Jiaming Yuan f380c10a93 Use hint for find nccl. (#9490) 2023-08-16 16:08:41 +08:00
Jiaming Yuan b2e93d2742 [doc] Quick note for the device parameter. [skip ci] (#9483) 2023-08-16 13:35:55 +08:00
Jiaming Yuan c061e3ae50 [jvm-packages] Bump rapids version. (#9482) 2023-08-15 16:26:42 -07:00
Jiaming Yuan 19b59938b7 Convert input to str for hypothesis note. (#9480) 2023-08-15 02:27:58 +08:00
Jiaming Yuan 05d7000096 Handle special characters in JSON model dump. (#9474) 2023-08-14 15:49:00 +08:00
Jiaming Yuan fd4335d0bf [doc] Document the current status of some features. (#9469) 2023-08-13 23:42:27 +08:00
Jiaming Yuan 801116c307 Test scikit-learn model IO with gblinear. (#9459) 2023-08-13 23:41:49 +08:00
Jiaming Yuan bb56183396 Normalize file system path. (#9463) 2023-08-11 21:26:46 +08:00
Jiaming Yuan bdc1a3c178 Fix pyspark parameter. (#9460) 
- Don't pass the `use_gpu` parameter to the learner.
- Fix GPU approx with PySpark.
 2023-08-11 19:07:50 +08:00