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https://github.com/tomtung/omikuji
An efficient implementation of Partitioned Label Trees & its variations for extreme multi-label classification
https://github.com/tomtung/omikuji
classification extreme-classification extreme-multi-label-classification machine-learning multi-label-classification rust supervised-learning
Last synced: 13 days ago
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An efficient implementation of Partitioned Label Trees & its variations for extreme multi-label classification
- Host: GitHub
- URL: https://github.com/tomtung/omikuji
- Owner: tomtung
- License: mit
- Created: 2019-01-01T02:51:59.000Z (almost 6 years ago)
- Default Branch: master
- Last Pushed: 2024-02-20T18:20:16.000Z (9 months ago)
- Last Synced: 2024-10-05T21:07:40.156Z (about 1 month ago)
- Topics: classification, extreme-classification, extreme-multi-label-classification, machine-learning, multi-label-classification, rust, supervised-learning
- Language: Rust
- Homepage: https://crates.io/crates/omikuji
- Size: 22.1 MB
- Stars: 82
- Watchers: 4
- Forks: 11
- Open Issues: 8
-
Metadata Files:
- Readme: README.md
- License: LICENSE
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README
# Omikuji
[](https://dev.azure.com/yubingdong/omikuji/_build/latest?definitionId=1&branchName=master) [](https://crates.io/crates/omikuji) [](https://pypi.org/project/omikuji/)
An efficient implementation of Partitioned Label Trees (Prabhu et al., 2018) and its variations for extreme multi-label classification, written in Rust🦀 with love💖.
## Features & Performance
Omikuji has has been tested on datasets from the [Extreme Classification Repository](http://manikvarma.org/downloads/XC/XMLRepository.html). All tests below are run on a quad-core Intel® Core™ i7-6700 CPU, and we allowed as many cores to be utilized as possible. We measured training time, and calculated precisions at 1, 3, and 5. (Note that, due to randomness, results might vary from run to run, especially for smaller datasets.)
### Parabel, better parallelized
Omikuji provides a more parallelized implementation of Parabel (Prabhu et al., 2018) that trains faster when more CPU cores are available. Compared to the [original implementation](http://manikvarma.org/code/Parabel/download.html) written in C++, which can only utilize the same number of CPU cores as the number of trees (3 by default), Omikuji maintains the same level of precision but trains 1.3x to 1.7x faster on our quad-core machine. **Further speed-up is possible if more CPU cores are available**.
| Dataset | Metric | Parabel | Omikuji
(balanced,
cluster.k=2) |
|----------------- |------------ |--------- |------------------------------------------ |
| EURLex-4K | P@1 | 82.2 | 82.1 |
| | P@3 | 68.8 | 68.8 |
| | P@5 | 57.6 | 57.7 |
| | Train Time | 18s | 14s |
| Amazon-670K | P@1 | 44.9 | 44.8 |
| | P@3 | 39.8 | 39.8 |
| | P@5 | 36.0 | 36.0 |
| | Train Time | 404s | 234s |
| WikiLSHTC-325K | P@1 | 65.0 | 64.8 |
| | P@3 | 43.2 | 43.1 |
| | P@5 | 32.0 | 32.1 |
| | Train Time | 959s | 659s |
### Regular k-means for shallow trees
Following Bonsai (Khandagale et al., 2019), Omikuji supports using regular k-means instead of balanced 2-means clustering for tree construction, which results in wider, shallower and unbalanced trees that train slower but have better precision. Comparing to the [original Bonsai implementation](https://github.com/xmc-aalto/bonsai), Omikuji also achieves the same precisions while training 2.6x to 4.6x faster on our quad-core machine. (Similarly, further speed-up is possible if more CPU cores are available.)
| Dataset | Metric | Bonsai | Omikuji
(unbalanced,
cluster.k=100,
max\_depth=3) |
|----------------- |------------ |--------- |-------------------------------------------------------------- |
| EURLex-4K | P@1 | 82.8 | 83.0 |
| | P@3 | 69.4 | 69.5 |
| | P@5 | 58.1 | 58.3 |
| | Train Time | 87s | 19s |
| Amazon-670K | P@1 | 45.5* | 45.6 |
| | P@3 | 40.3* | 40.4 |
| | P@5 | 36.5* | 36.6 |
| | Train Time | 5,759s | 1,753s |
| WikiLSHTC-325K | P@1 | 66.6* | 66.6 |
| | P@3 | 44.5* | 44.4 |
| | P@5 | 33.0* | 33.0 |
| | Train Time | 11,156s | 4,259s |
*\*Precision numbers as reported in the paper; our machine doesn't have enough memory to run the full prediction with their implementation.*
### Balanced k-means for balanced shallow trees
Sometimes it's desirable to have shallow and wide trees that are also balanced, in which case Omikuji supports the balanced k-means algorithm used by HOMER (Tsoumakas et al., 2008) for clustering as well.
| Dataset | Metric | Omikuji
(balanced,
cluster.k=100) |
|----------------- |------------ |------------------------------------------ |
| EURLex-4K | P@1 | 82.1 |
| | P@3 | 69.4 |
| | P@5 | 58.1 |
| | Train Time | 19s |
| Amazon-670K | P@1 | 45.4 |
| | P@3 | 40.3 |
| | P@5 | 36.5 |
| | Train Time | 1,153s |
| WikiLSHTC-325K | P@1 | 65.6 |
| | P@3 | 43.6 |
| | P@5 | 32.5 |
| | Train Time | 3,028s |
### Layer collapsing for balanced shallow trees
An alternative way for building balanced, shallow and wide trees is to collapse adjacent layers, similar to the tree compression step used in AttentionXML (You et al., 2019): intermediate layers are removed, and their children replace them as the children of their parents. For example, with balanced 2-means clustering, if we collapse 5 layers after each layer, we can increase the tree arity from 2 to 2⁵⁺¹ = 64.
| Dataset | Metric | Omikuji
(balanced,
cluster.k=2,
collapse 5 layers) |
|----------------- |------------ |--------------------------------------------------------------- |
| EURLex-4K | P@1 | 82.4 |
| | P@3 | 69.3 |
| | P@5 | 58.0 |
| | Train Time | 16s |
| Amazon-670K | P@1 | 45.3 |
| | P@3 | 40.2 |
| | P@5 | 36.4 |
| | Train Time | 460s |
| WikiLSHTC-325K | P@1 | 64.9 |
| | P@3 | 43.3 |
| | P@5 | 32.3 |
| | Train Time | 1,649s |
## Build & Install
Omikuji can be easily built & installed with [Cargo](https://doc.rust-lang.org/cargo/getting-started/installation.html) as a CLI app:
```
cargo install omikuji --features cli --locked
```
Or install from the latest source:
```
cargo install --git https://github.com/tomtung/omikuji.git --features cli --locked
```
The CLI app will be available as `omikuji`. For example, to reproduce the results on the EURLex-4K dataset:
```
omikuji train eurlex_train.txt --model_path ./model
omikuji test ./model eurlex_test.txt --out_path predictions.txt
```
### Python Binding
A simple Python binding is also available for training and prediction. It can be install via `pip`:
```
pip install omikuji
```
Note that you might still need to install Cargo should compilation become necessary.
You can also install from the latest source:
```
pip install git+https://github.com/tomtung/omikuji.git -v
```
The following script demonstrates how to use the Python binding to train a model and make predictions:
```python
import omikuji
# Train
hyper_param = omikuji.Model.default_hyper_param()
# Adjust hyper-parameters as needed
hyper_param.n_trees = 5
model = omikuji.Model.train_on_data("./eurlex_train.txt", hyper_param)
# Serialize & de-serialize
model.save("./model")
model = omikuji.Model.load("./model")
# Optionally densify model weights to trade off between prediction speed and memory usage
model.densify_weights(0.05)
# Predict
feature_value_pairs = [
(0, 0.101468),
(1, 0.554374),
(2, 0.235760),
(3, 0.065255),
(8, 0.152305),
(10, 0.155051),
# ...
]
label_score_pairs = model.predict(feature_value_pairs)
```
## Usage
```
$ omikuji train --help
Train a new omikuji model
USAGE:
omikuji train [OPTIONS]
ARGS:
Path to training dataset file
The dataset file is expected to be in the format of the Extreme Classification
Repository.
OPTIONS:
--centroid_threshold
Threshold for pruning label centroid vectors
[default: 0]
--cluster.eps
Epsilon value for determining linear classifier convergence
[default: 0.0001]
--cluster.k
Number of clusters
[default: 2]
--cluster.min_size
Labels in clusters with sizes smaller than this threshold are reassigned to other
clusters instead
[default: 2]
--cluster.unbalanced
Perform regular k-means clustering instead of balanced k-means clustering
--collapse_every_n_layers
Number of adjacent layers to collapse
This increases tree arity and decreases tree depth.
[default: 0]
-h, --help
Print help information
--linear.c
Cost coefficient for regularizing linear classifiers
[default: 1]
--linear.eps
Epsilon value for determining linear classifier convergence
[default: 0.1]
--linear.loss
Loss function used by linear classifiers
[default: hinge]
[possible values: hinge, log]
--linear.max_iter
Max number of iterations for training each linear classifier
[default: 20]
--linear.weight_threshold
Threshold for pruning weight vectors of linear classifiers
[default: 0.1]
--max_depth
Maximum tree depth
[default: 20]
--min_branch_size
Number of labels below which no further clustering & branching is done
[default: 100]
--model_path
Optional path of the directory where the trained model will be saved if provided
If an model with compatible settings is already saved in the given directory, the newly
trained trees will be added to the existing model")
--n_threads
Number of worker threads
If 0, the number is selected automatically.
[default: 0]
--n_trees
Number of trees
[default: 3]
--train_trees_1_by_1
Finish training each tree before start training the next
This limits initial parallelization but saves memory.
--tree_structure_only
Build the trees without training classifiers
Might be useful when a downstream user needs the tree structures only.
```
```
$ omikuji test --help
Test an existing omikuji model
USAGE:
omikuji test [OPTIONS]
ARGS:
Path of the directory where the trained model is saved
Path to test dataset file
The dataset file is expected to be in the format of the Extreme Classification
Repository.
OPTIONS:
--beam_size
Beam size for beam search
[default: 10]
-h, --help
Print help information
--k_top
Number of top predictions to write out for each test example
[default: 5]
--max_sparse_density
Density threshold above which sparse weight vectors are converted to dense format
Lower values speed up prediction at the cost of more memory usage.
[default: 0.1]
--n_threads
Number of worker threads
If 0, the number is selected automatically.
[default: 0]
--out_path
Path to the which predictions will be written, if provided
```
### Data format
Our implementation takes dataset files formatted as those provided in the [Extreme Classification Repository](http://manikvarma.org/downloads/XC/XMLRepository.html). A data file starts with a header line with three space-separated integers: total number of examples, number of features, and number of labels. Following the header line, there is one line per each example, starting with comma-separated labels, followed by space-separated feature:value pairs:
```
label1,label2,...labelk ft1:ft1_val ft2:ft2_val ft3:ft3_val .. ftd:ftd_val
```
## Trivia
The project name comes from [o-mikuji](https://en.wikipedia.org/wiki/O-mikuji) (御神籤), which are predictions about one's future written on strips of paper (labels?) at jinjas and temples in Japan, often tied to branches of pine trees after they are read.
## References
- Y. Prabhu, A. Kag, S. Harsola, R. Agrawal, and M. Varma, “Parabel: Partitioned Label Trees for Extreme Classification with Application to Dynamic Search Advertising,” in Proceedings of the 2018 World Wide Web Conference, 2018, pp. 993–1002.
- S. Khandagale, H. Xiao, and R. Babbar, “Bonsai - Diverse and Shallow Trees for Extreme Multi-label Classification,” Apr. 2019.
- G. Tsoumakas, I. Katakis, and I. Vlahavas, “Effective and efficient multilabel classification in domains with large number of labels,” ECML, 2008.
- R. You, S. Dai, Z. Zhang, H. Mamitsuka, and S. Zhu, “AttentionXML: Extreme Multi-Label Text Classification with Multi-Label Attention Based Recurrent Neural Networks,” Jun. 2019.
## License
Omikuji is licensed under the MIT License.