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| author | Muriithi Frederick Muriuki | 2021-09-01 06:18:20 +0300 |
|---|---|---|
| committer | Muriithi Frederick Muriuki | 2021-09-01 06:42:51 +0300 |
| commit | 221c773daea839ecf0e50c196484bb91e3a6db33 (patch) | |
| tree | 50e139dd0bbed18e1771fcfcd3dd0195ec78efe7 /tests/unit | |
| parent | b5e1d1176f1bf4f7c0b68b27beb15e99418f1650 (diff) | |
| download | genenetwork3-221c773daea839ecf0e50c196484bb91e3a6db33.tar.gz | |
Implement parsing of genotype labels
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi
* gn3/db/genotypes.py: parse genotype labels
* tests/unit/db/test_genotypes.py: test that genotype labels are parsed
correctly
As part of parsing the genotype files into usable python data structures,
this commit adds a function to parse the label lines (beginning with "@")
into the appropriate values.
Diffstat (limited to 'tests/unit')
| -rw-r--r-- | tests/unit/db/test_genotypes.py | 17 |
1 files changed, 17 insertions, 0 deletions
diff --git a/tests/unit/db/test_genotypes.py b/tests/unit/db/test_genotypes.py new file mode 100644 index 0000000..0264764 --- /dev/null +++ b/tests/unit/db/test_genotypes.py @@ -0,0 +1,17 @@ +"""Tests gn3.db.genotypes""" +from unittest import TestCase +from gn3.db.genotypes import parse_genotype_labels + +class TestGenotypes(TestCase): + """Tests for functions in `gn3.db.genotypes`.""" + + def test_parse_genotype_labels(self): + self.assertEqual( + parse_genotype_labels([ + "@name: test_group\t", "@filler: test_filler ", + "@type:test_type", "@mat:test_mat \t", "@pat:test_pat ", + "@het: test_het ", "@unk: test_unk", "@other: test_other", + "@brrr: test_brrr "]), + (("group", "test_group"), ("filler", "test_filler"), + ("type", "test_type"), ("mat", "test_mat"), ("pat", "test_pat"), + ("het", "test_het"), ("unk", "test_unk"))) |