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Author SHA1 Message Date
Jiaming Yuan 594371e35b Fix CPP lint. (#8807) 2023-02-15 20:16:35 +08:00
Jiaming Yuan e62167937b [CI] Update action cache for jvm tests. (#8806) 2023-02-15 18:43:48 +08:00
Jiaming Yuan 52d0230b58 Fix merge conflict. (#8791) 2023-02-13 23:43:42 +08:00
Jiaming Yuan 81b2ee1153 Pass DMatrix into metric for caching. (#8790) 2023-02-13 22:15:05 +08:00
Jiaming Yuan 31d3ec07af Extract device algorithms. (#8789) 2023-02-13 20:53:53 +08:00
Jiaming Yuan 457f704e3d Add quantile metric. (#8761) 2023-02-13 19:07:40 +08:00
Jiaming YuanandPhilip Hyunsu Cho d11a0044cf Generalize prediction cache. (#8783) 
* Extract most of the functionality into `DMatrixCache`.
* Move API entry to independent file to reduce dependency on `predictor.h` file.
* Add test.

---------

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2023-02-13 12:36:43 +08:00
Jiaming Yuan 225b3158f6 Support custom metric in sklearn ranker. (#8786) 2023-02-12 13:14:07 +08:00
Jiaming Yuan 17b709acb9 Rename ranking utils to threading utils. (#8785) 2023-02-12 05:41:18 +08:00
Jiaming Yuan 70c9b885ef Extract floating point rounding routines. (#8771) 2023-02-12 04:26:41 +08:00
Jiaming Yuan e9c178f402 [doc] Document update [skip ci] (#8784) 
- Remove version specifics in cat demo.
- Remove aws yarn.
- Update faq.
- Stop mentioning MPI.
- Update sphinx inventory links.
- Fix typo.
 2023-02-12 04:25:22 +08:00
Jiaming Yuan 8a16944664 Fix ranking with quantile dmatrix and group weight. (#8762) 2023-02-10 20:32:35 +08:00
Jiaming Yuan 199c421d60 Send default configuration from metric to objective. (#8760) 2023-02-09 20:18:07 +08:00
Jiaming Yuan 5f76edd296 Extract make metric name from ranking metric. (#8768) 
- Extract the metric parsing routine from ranking.
- Add a test.
- Accept null for string view.
 2023-02-09 18:30:21 +08:00
Jiaming Yuan 4ead65a28c Increase timeout limit for linear. (#8767) 2023-02-09 18:20:12 +08:00
Jiaming Yuan 48cefa012e Support multiple alphas for segmented quantile. (#8758) 2023-02-07 17:17:59 +08:00
Jiaming Yuan c4802bfcd0 Cleanup booster param types. (#8756) 2023-02-07 15:52:19 +08:00
Jiaming Yuan 7b3d473593 [doc] Add demo for inference using individual tree. (#8752) 2023-02-07 04:40:18 +08:00
Jiaming Yuan 28bb01aa22 Extract optional weight. (#8747) 
- Extract optional weight from coommon.h to reduce dependency on this header.
- Add test.
 2023-02-07 03:11:53 +08:00
Jiaming Yuan 0f37a01dd9 Require black formatter for the python package. (#8748) 2023-02-07 01:53:33 +08:00
Jiaming Yuan a2e433a089 Fix empty DMatrix with categorical features. (#8739) 2023-02-07 00:40:11 +08:00
Jiaming Yuan c1786849e3 Use array interface for CSC matrix. (#8672) 
* Use array interface for CSC matrix.

Use array interface for CSC matrix and align the interface with CSR and dense.

- Fix nthread issue in the R package DMatrix.
- Unify the behavior of handling `missing` with other inputs.
- Unify the behavior of handling `missing` around R, Python, Java, and Scala DMatrix.
- Expose `num_non_missing` to the JVM interface.
- Deprecate old CSR and CSC constructors.
 2023-02-05 01:59:46 +08:00
Jiaming Yuan 0e61ba57d6 Fix GPU L1 error. (#8749) 2023-02-04 03:02:00 +08:00
Jiaming Yuan 1325ba9251 Support primitive types of pyarrow-backed pandas dataframe. (#8653) 
Categorical data (dictionary) is not supported at the moment.
 2023-01-30 17:53:29 +08:00
Jiaming Yuan 3760cede0f Consistent use of context to specify number of threads. (#8733) 
- Use context in all tests.
- Use context in R.
- Use context in C API DMatrix initialization. (0 threads is used as dft).
 2023-01-30 15:25:31 +08:00
Jiaming Yuan 21a28f2cc5 Small refactor for hist builder. (#8698) 
- Use span instead of vector as parameter. No perf change as the builder work on pointer.
- Use const pointer for reg tree.
 2023-01-30 14:06:41 +08:00
Jiaming Yuan 9fb12b20a4 Cleanup the callback module. (#8702) 
- Cleanup pylint markers.
- run formatter.
- Update examples of using callback.
 2023-01-22 00:13:49 +08:00
Jiaming Yuan 34eee56256 Fix compiler warnings. (#8703) 
Fix warnings about signed/unsigned comparisons.
 2023-01-21 15:16:23 +08:00
Jiaming Yuan e49e0998c0 Extract CPU sampling routines. (#8697) 2023-01-19 23:28:18 +08:00
Jiaming Yuan 7a068af1a3 Workaround CUDA warning. (#8696) 2023-01-19 09:16:08 +08:00
Jiaming Yuan 4416452f94 Return single thread from context when called inside omp region. (#8693) 2023-01-18 09:23:37 +08:00
Jiaming Yuan 31b9cbab3d Make sure input numpy array is aligned. (#8690) 
- use `np.require` to specify that the alignment is required.
- scipy csr as well.
- validate input pointer in `ArrayInterface`.
 2023-01-18 08:12:13 +08:00
Jiaming Yuan 175986b739 [doc] Add missing document for pyspark ranker. [skip ci] (#8692) 2023-01-18 07:52:18 +08:00
Jiaming Yuan 247946a875 Cache transformed in QuantileDMatrix for efficiency. (#8666) 2023-01-17 06:02:40 +08:00
Jiaming Yuan 43152657d4 Extract JSON type check. (#8677) 
- Reuse it in `GetMissing`.
- Add test.
 2023-01-17 03:11:07 +08:00
Jiaming Yuan 9f598efc3e Rename context in Metric. (#8686) 2023-01-17 01:10:13 +08:00
Jiaming Yuan d6018eb4b9 Remove all use of DeviceQuantileDMatrix. (#8665) 2023-01-17 00:04:10 +08:00
Jiaming Yuan 0ae8df9a65 Define default ctors for gpair. (#8660) 
* Define default ctors for gpair.

Fix clang warning:

Definition of implicit copy assignment operator for 'GradientPairInternal<float>' is
deprecated because it has a user-declared copy constructor
 2023-01-16 22:52:13 +08:00
Jiaming Yuan e7d612d22c [R] Fix threads used to create DMatrix in predict. (#8681) 2023-01-15 03:09:08 +08:00
Jiaming Yuan f7a2f52136 [R] Get CXX flags from R CMD config. (#8669) 2023-01-14 16:48:21 +08:00
Jiaming Yuan 07cf3d3e53 Fix threads in DMatrix slice. (#8667) 2023-01-14 07:16:57 +08:00
Jiaming Yuan e27cda7626 [CI] Skip pyspark sparse tests. (#8675) 2023-01-14 05:37:00 +08:00
Jiaming Yuan b2b6a8aa39 [R] fix CSR input. (#8673) 2023-01-14 01:32:41 +08:00
Jiaming Yuan cfa994d57f Multi-target support for L1 error. (#8652) 
- Add matrix support to the median function.
- Iterate through each target for quantile computation.
 2023-01-11 05:51:14 +08:00
Jiaming Yuan badeff1d74 Init estimation for regression. (#8272) 2023-01-11 02:04:56 +08:00
Jiaming Yuan 1b58d81315 [doc] Document Python inputs. (#8643) 2023-01-10 15:39:32 +08:00
Jiaming Yuan 06a1cb6e03 Release news for patch releases including upcoming 1.7.3. [skip ci] (#8645) 2023-01-06 16:19:16 +08:00
Jiaming Yuan e68a152d9e Do not return internal value for get_params. (#8634) 2023-01-05 17:48:26 +08:00
Jiaming Yuan 26c9882e23 Fix loading GPU pickle with a CPU-only xgboost distribution. (#8632) 
We can handle loading the pickle on a CPU-only machine if the XGBoost is built with CUDA
enabled (Linux and Windows PyPI package), but not if the distribution is CPU-only (macOS
PyPI package).
 2023-01-05 02:14:30 +08:00
Jiaming Yuan beefd28471 Split up SHAP from RegTree. (#8612) 
* Split up SHAP from `RegTree`.

Simplify the tree interface.
 2023-01-04 18:17:47 +08:00
Jiaming Yuan d308124910 Refactor PySpark tests. (#8605) 
- Convert classifier tests to pytest tests.
- Replace hardcoded tests.
 2023-01-04 17:05:16 +08:00
Jiaming Yuan 6eaddaa9c3 [CI] Fix CI with updated dependencies. (#8631) 
* [CI] Fix CI with updated dependencies.

- Fix jvm package get iris.

* Skip SHAP test for now.

* Revert "Skip SHAP test for now."

This reverts commit 9aa28b4d8aee53fa95d92d2a879c6783ff4b2faa.

* Catch all exceptions.
 2023-01-03 21:04:04 -08:00
Jiaming Yuan 8d545ab2a2 Implement fit stump. (#8607) 2023-01-04 04:14:51 +08:00
Jiaming Yuan c430ae52f3 Fix mypy errors with the latest numpy. (#8617) 2022-12-21 01:42:05 -08:00
Jiaming Yuan c6a8754c62 Define CUDA Context. (#8604) 
We will transition to non-default and non-blocking CUDA stream.
 2022-12-20 15:15:07 +08:00
Jiaming Yuan f6effa1734 Support Series and Python primitives in inplace_predict and QDM (#8547) 2022-12-17 00:15:15 +08:00
Jiaming Yuan a10e4cba4e Fix linalg iterator. (#8603) 2022-12-16 23:05:03 +08:00
Jiaming Yuan 38887a1876 Fix windows build on buildkite. (#8602) 2022-12-16 21:12:24 +08:00
Jiaming Yuan 43a647a4dd Fix inference with categorical feature. (#8591) 2022-12-15 17:57:26 +08:00
Jiaming Yuan 001e663d42 Set enable_categorical to True in predict. (#8592) 2022-12-15 05:27:06 +08:00
Jiaming YuanandPhilip Hyunsu Cho 40343c8ee1 Test dask demos. (#8557) 
Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2022-12-13 18:37:31 +08:00
Jiaming Yuan deb3edf562 Support list and tuple for QDM. (#8542) 2022-12-10 01:14:44 +08:00
Jiaming Yuan 8824b40961 Update date in release script. [skip ci] (#8574) 2022-12-09 23:16:10 +08:00
Jiaming Yuan 3e26107a9c Rename and extract Context. (#8528) 
* Rename `GenericParameter` to `Context`.
* Rename header file to reflect the change.
* Rename all references.
 2022-12-07 04:58:54 +08:00
Jiaming Yuan e38fe21e0d Cleanup regression objectives. (#8539) 2022-12-07 01:05:42 +08:00
Jiaming Yuan d99bdd1b1e [CI] Fix github action mismatched glibcxx. (#8551) 
* [CI] Fix github action mismatched glibcxx.

Split up the Linux test to use the toolchain from conda forge.
 2022-12-06 17:42:15 +08:00
Jiaming Yuan 7ac52e674f [doc] Update model schema. (#8538) 
* Update model schema with `num_target`.
 2022-12-06 11:35:07 +08:00
Jiaming Yuan 8afcecc025 [doc] Fix outdated document [skip ci] (#8527) 
* [doc] Fix document around categorical parameters. [skip ci]

* note on validate parameter [skip ci]

* Fix dask doc as well [skip ci]
 2022-12-06 00:56:17 +08:00
Jiaming Yuan e143a4dd7e [pyspark] Refactor local tests. (#8525) 
- Use pytest fixture for spark session.
- Replace hardcoded results.
 2022-12-05 23:49:54 +08:00
Jiaming Yuan e3bf5565ab Extract transform iterator. (#8498) 2022-12-05 21:37:07 +08:00
Jiaming Yuan d8544e4d9e [R] Remove unused assert definition. (#8526) 2022-12-05 20:29:03 +08:00
Jiaming Yuan 157e98edf7 Support half type from cupy. (#8487) 2022-11-30 17:56:42 +08:00
Jiaming Yuan addaa63732 Support null value in CUDA array interface. (#8486) 
* Support null value in CUDA array interface.

- Fix for potential null value in array interface.
- Fix incorrect check on mask stride.

* Simple tests.

* Extract mask.
 2022-11-28 17:48:25 -08:00
Jiaming Yuan 3fc1046fd3 Reduce compiler warnings on CPU-only build. (#8483) 2022-11-29 00:04:16 +08:00
Jiaming Yuan d666ba775e Support all pandas nullable integer types. (#8480) 
- Enumerate all pandas integer types.
- Tests for `None`, `nan`, and `pd.NA`
 2022-11-28 22:38:16 +08:00
Jiaming Yuan f2209c1fe4 Don't shuffle columns in categorical tests. (#8446) 2022-11-28 20:28:06 +08:00
Jiaming Yuan 8f97c92541 Support half type for pandas. (#8481) 2022-11-24 12:47:40 +08:00
Jiaming Yuan e07245f110 Take datatable as row major input. (#8472) 
* Take datatable as row major input.

Try to avoid a transform with dense table.
 2022-11-24 09:20:13 +08:00
Jiaming Yuan 284dcf8d22 Add script for change version. (#8443) 
- Replace jvm regex replacement script with mvn command.
- Replace cmake script for python version with python script.
- Automate rest of the manual steps.

The script can handle dev branch, rc release, and formal release version.
 2022-11-24 00:06:39 +08:00
Jiaming Yuan 5f1a6fca0d [R] Use new interface for creating DMatrix from CSR. (#8455) 
* [R] Use new interface for creating DMatrix from CSR.

- CSC is still using the old API.

The old API is not aware of `nthread` parameter, which makes DMatrix to use all available
thread during construction and during transformation lie `SparsePage` -> `CSCPage`.
 2022-11-23 21:36:43 +08:00
Jiaming Yuan 9dd8d70f0e Fix mypy errors. (#8444) 2022-11-09 13:19:11 +08:00
Jiaming YuanandHyunsu Cho 0252d504d8 Fix R package build on CI. (#8445) 
Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2022-11-09 12:18:36 +08:00
Jiaming Yuan a83748eb45 [CI] Revise R tests. (#8430) 
- Use the standard package check (check on the tarball instead of the source tree).
- Run commands in parallel.
- Cleanup dependencies installation.
- Replace makefile.
- Documentation.
- Test using the image from rhub.
 2022-11-09 09:12:13 +08:00
Jiaming YuanandHyunsu Cho ca0f7f2714 [doc] Update C tutorial. [skip ci] (#8436) 
- Use rst references instead of doxygen links.
- Replace deprecated functions.

- Add SaveModel; put free step last [skip ci]

Co-authored-by: Hyunsu Cho <chohyu01@cs.washington.edu>
 2022-11-09 07:14:12 +08:00
Jiaming Yuan 0b36f8fba1 [R] Fix CRAN test notes. (#8428) 
- Limit the number of used CPU cores in examples.
- Add a note for the constraint.
- Bring back the cleanup script.
 2022-11-09 02:03:30 +08:00
Jiaming Yuan 0d3da9869c Require isort on all Python files. (#8420) 2022-11-08 12:59:06 +08:00
Jiaming YuanPhilip Hyunsu ChoRory Mitchell
 		917cbc0699 1.7 release note. [skip ci] (#8374) 
* Draft for 1.7 release note. [skip ci]

* Wording [skip ci]

* Update with backports [skip ci]

* Apply suggestions from code review [skip ci]

* Apply suggestions from code review [skip ci]

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

* Update NEWS.md [skip ci]

Co-authored-by: Rory Mitchell <r.a.mitchell.nz@gmail.com>

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
Co-authored-by: Rory Mitchell <r.a.mitchell.nz@gmail.com>
 2022-10-31 09:32:33 -07:00
Jiaming Yuan 2ed3c29c8a [CI] Cleanup github action tests. (#8397) 
- Merge doxygen build with sphinx.
- Use mamba on non-windows Github Action.
 2022-10-29 06:04:27 +08:00
Jiaming Yuan a408c34558 Update JSON parser demo with categorical feature. (#8401) 
- Parse categorical features in the Python example.
- Add tests.
- Update document.
 2022-10-28 20:57:43 +08:00
Jiaming Yuan cfd2a9f872 Extract dask and spark test into distributed test. (#8395) 
- Move test files.
- Run spark and dask separately to prevent conflicts.
- Gather common code into the testing module.
 2022-10-28 16:24:32 +08:00
Jiaming Yuan f73520bfff Bump development version to 2.0. (#8390) 2022-10-28 15:21:19 +08:00
Jiaming Yuan a2593e60bf Speedup R test on github. (#8388) 2022-10-26 18:02:27 +08:00
Jiaming Yuan 786aa27134 [doc] Additional notes for release [skip ci] (#8367) 2022-10-26 17:55:15 +08:00
Jiaming YuanandHyunsu Philip Cho cf70864fa3 Move Python testing utilities into xgboost module. (#8379) 
- Add typehints.
- Fixes for pylint.

Co-authored-by: Hyunsu Philip Cho <chohyu01@cs.washington.edu>
 2022-10-26 16:56:11 +08:00
Jiaming YuanandPhilip Hyunsu Cho 7e53189e7c [pyspark] Improve tutorial on enabling GPU support. (#8385) 
- Quote the databricks doc on how to manage dependencies.
- Some wording changes.

Co-authored-by: Philip Hyunsu Cho <chohyu01@cs.washington.edu>
 2022-10-26 15:45:54 +08:00
Jiaming Yuan d0b99bdd95 [pyspark] Add type hint to basic utilities. (#8375) 2022-10-25 17:26:25 +08:00
Jiaming Yuan 1d2f6de573 remove travis status [skip ci] (#8382) 2022-10-24 14:37:33 +08:00
Jiaming Yuan a3b8bca46a Remove travis configuration file. [skip ci] (#8381) 2022-10-23 02:49:29 +08:00
Jiaming Yuan bb5e18c29c Fix CUDA async stream. (#8380) 2022-10-22 23:13:28 +08:00
Jiaming Yuan 99467f3999 [doc] Cleanup outdated documents for GPU. [skip ci] (#8378) 2022-10-21 20:13:31 +08:00