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.. _guide-minibatch-parallelism: | ||
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6.8 Data Loading Parallelism | ||
----------------------- | ||
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In minibatch training of GNNs, we usually need to cover several stages to | ||
generate a minibatch, including: | ||
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* Iterate over item set and generate minibatch seeds in batch size. | ||
* Sample negative items for each seed from graph. | ||
* Sample neighbors for each seed from graph. | ||
* Exclude seed edges from the sampled subgraphs. | ||
* Fetch node and edge features for the sampled subgraphs. | ||
* Convert the sampled subgraphs to DGLMiniBatches. | ||
* Copy the DGLMiniBatches to the target device. | ||
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.. code:: python | ||
datapipe = gb.ItemSampler(itemset, batch_size=1024, shuffle=True) | ||
datapipe = datapipe.sample_uniform_negative(g, 5) | ||
datapipe = datapipe.sample_neighbor(g, [10, 10]) # 2 layers. | ||
datapipe = datapipe.transform(gb.exclude_seed_edges) | ||
datapipe = datapipe.fetch_feature(feature, node_feature_keys=["feat"]) | ||
datapipe = datapipe.to_dgl() | ||
datapipe = datapipe.copy_to(device) | ||
dataloader = gb.MultiProcessDataLoader(datapipe, num_workers=0) | ||
All these stages are implemented in separate | ||
`IterableDataPipe <https://pytorch.org/data/main/torchdata.datapipes.iter.html>`__ | ||
and stacked together with `PyTorch DataLoader <https://pytorch.org/docs/stable/data | ||
.html#torch.utils.data.DataLoader>`__. | ||
This design allows us to easily customize the data loading process by | ||
chaining different data pipes together. For example, if we want to sample | ||
negative items for each seed from graph, we can simply chain the | ||
:class:`~dgl.graphbolt.NegativeSampler` after the :class:`~dgl.graphbolt.ItemSampler`. | ||
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But simply chaining data pipes together incurs performance overheads as various | ||
hardware resources such as CPU, GPU, PCIe, etc. are utilized by different stages. | ||
As a result, the data loading mechanism is optimized to minimize the overheads | ||
and achieve the best performance. | ||
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In specific, GraphBolt wraps the data pipes before ``fetch_feature`` with | ||
multiprocessing which enables multiple processes to run in parallel. As for | ||
``fetch_feature`` data pipe, we keep it running in the main process to avoid | ||
data movement overheads between processes. | ||
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What's more, in order to overlap the data movement and model computation, we | ||
wrap data pipes before ``copy_to`` with | ||
`torchdata.datapipes.iter.Perfetcher <https://pytorch.org/data/main/generated/ | ||
torchdata.datapipes.iter.Prefetcher.html>`__ | ||
which prefetches elements from previous data pipes and puts them into a buffer. | ||
Such prefetching is totally transparent to users and requires no extra code. It | ||
brings a significant performance boost to minibatch training of GNNs. | ||
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Please refer to the source code of :class:`~dgl.graphbolt.MultiProcessDataLoader` | ||
for more details. |
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minibatch-nn | ||
minibatch-inference | ||
minibatch-gpu-sampling | ||
minibatch-prefetching | ||
minibatch-parallelism |