| from pathlib import Path |
| from scgpt.tokenizer import GeneVocab, get_default_gene_vocab |
|
|
|
|
| def test_gene_vocab(): |
| gene_vocab = GeneVocab([]) |
| assert len(gene_vocab) == 0 |
|
|
| gene_vocab.append_token("abc") |
| assert len(gene_vocab) == 1 |
|
|
| gene_vocab = GeneVocab(gene_vocab) |
| assert gene_vocab["abc"] == 0 |
|
|
| gene_vocab = GeneVocab(["def", "g", "h"], specials=["a", "b", "c"]) |
| assert gene_vocab["a"] == 0 |
| assert gene_vocab["def"] == 3 |
| assert len(gene_vocab) == 6 |
|
|
| gene_vocab = GeneVocab(["a"], specials=["<pad>"], special_first=False) |
| assert gene_vocab["<pad>"] == 1 |
| assert gene_vocab.get_default_index() == 1 |
|
|
|
|
| def test_gene_vocab_from_dict(): |
| gene_vocab = GeneVocab.from_dict({"a": 0, "b": 1, "c": 2}) |
| assert len(gene_vocab) == 3 |
| assert gene_vocab["a"] == 0 |
| assert gene_vocab["c"] == 2 |
|
|
|
|
| def test_gene_vocab_from_file(): |
| |
| test_file = Path(__file__).parent / "vocab.json" |
| gene_vocab = GeneVocab.from_file(test_file) |
| assert len(gene_vocab) == 3 |
|
|
|
|
| def test_gene_vocab_pad_token(): |
| gene_vocab = GeneVocab(["a", "b", "c"], specials=["<pad>"]) |
| assert gene_vocab.pad_token is None |
| gene_vocab.pad_token = "<pad>" |
| assert gene_vocab.pad_token == "<pad>" |
|
|
|
|
| def test_get_default_gene_vocab(): |
| gene_vocab = get_default_gene_vocab() |
| assert gene_vocab["A12M1"] == 0 |
|
|
