Source code for torch_geometric.datasets.aminer

from typing import Optional, Callable, List

import os
import os.path as osp
import shutil

import torch
from torch_sparse import coalesce, transpose
from torch_geometric.data import (InMemoryDataset, HeteroData, download_url,
                                  extract_zip)


[docs]class AMiner(InMemoryDataset): r"""The heterogeneous AMiner dataset from the `"metapath2vec: Scalable Representation Learning for Heterogeneous Networks" <https://ericdongyx.github.io/papers/ KDD17-dong-chawla-swami-metapath2vec.pdf>`_ paper, consisting of nodes from type :obj:`"paper"`, :obj:`"author"` and :obj:`"venue"`. Venue categories and author research interests are available as ground truth labels for a subset of nodes. Args: root (string): Root directory where the dataset should be saved. transform (callable, optional): A function/transform that takes in an :obj:`torch_geometric.data.HeteroData` object and returns a transformed version. The data object will be transformed before every access. (default: :obj:`None`) pre_transform (callable, optional): A function/transform that takes in an :obj:`torch_geometric.data.HeteroData` object and returns a transformed version. The data object will be transformed before being saved to disk. (default: :obj:`None`) """ url = 'https://www.dropbox.com/s/1bnz8r7mofx0osf/net_aminer.zip?dl=1' y_url = 'https://www.dropbox.com/s/nkocx16rpl4ydde/label.zip?dl=1' def __init__(self, root: str, transform: Optional[Callable] = None, pre_transform: Optional[Callable] = None): super().__init__(root, transform, pre_transform) self.data, self.slices = torch.load(self.processed_paths[0]) @property def raw_file_names(self) -> List[str]: return [ 'id_author.txt', 'id_conf.txt', 'paper.txt', 'paper_author.txt', 'paper_conf.txt', 'label' ] @property def processed_file_names(self) -> str: return 'data.pt' def download(self): shutil.rmtree(self.raw_dir) path = download_url(self.url, self.root) extract_zip(path, self.root) os.rename(osp.join(self.root, 'net_aminer'), self.raw_dir) os.unlink(path) path = download_url(self.y_url, self.raw_dir) extract_zip(path, self.raw_dir) os.unlink(path) def process(self): import pandas as pd data = HeteroData() # Get author labels. path = osp.join(self.raw_dir, 'id_author.txt') author = pd.read_csv(path, sep='\t', names=['idx', 'name'], index_col=1) path = osp.join(self.raw_dir, 'label', 'googlescholar.8area.author.label.txt') df = pd.read_csv(path, sep=' ', names=['name', 'y']) df = df.join(author, on='name') data['author'].y = torch.from_numpy(df['y'].values) - 1 data['author'].y_index = torch.from_numpy(df['idx'].values) # Get venue labels. path = osp.join(self.raw_dir, 'id_conf.txt') venue = pd.read_csv(path, sep='\t', names=['idx', 'name'], index_col=1) path = osp.join(self.raw_dir, 'label', 'googlescholar.8area.venue.label.txt') df = pd.read_csv(path, sep=' ', names=['name', 'y']) df = df.join(venue, on='name') data['venue'].y = torch.from_numpy(df['y'].values) - 1 data['venue'].y_index = torch.from_numpy(df['idx'].values) # Get paper<->author connectivity. path = osp.join(self.raw_dir, 'paper_author.txt') paper_author = pd.read_csv(path, sep='\t', header=None) paper_author = torch.from_numpy(paper_author.values) paper_author = paper_author.t().contiguous() M, N = int(paper_author[0].max() + 1), int(paper_author[1].max() + 1) paper_author, _ = coalesce(paper_author, None, M, N) author_paper, _ = transpose(paper_author, None, M, N) data['paper'].num_nodes = M data['author'].num_nodes = N data['paper', 'written_by', 'author'].edge_index = paper_author data['author', 'writes', 'paper'].edge_index = author_paper # Get paper<->venue connectivity. path = osp.join(self.raw_dir, 'paper_conf.txt') paper_venue = pd.read_csv(path, sep='\t', header=None) paper_venue = torch.from_numpy(paper_venue.values) paper_venue = paper_venue.t().contiguous() M, N = int(paper_venue[0].max() + 1), int(paper_venue[1].max() + 1) paper_venue, _ = coalesce(paper_venue, None, M, N) venue_paper, _ = transpose(paper_venue, None, M, N) data['venue'].num_nodes = N data['paper', 'published_in', 'venue'].edge_index = paper_venue data['venue', 'publishes', 'paper'].edge_index = venue_paper if self.pre_transform is not None: data = self.pre_transform(data) torch.save(self.collate([data]), self.processed_paths[0])