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author | Frederick Muriuki Muriithi | 2024-01-04 01:28:58 +0300 |
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committer | Frederick Muriuki Muriithi | 2024-01-04 01:28:58 +0300 |
commit | 0f1dda20ea48f0fa411ff63f86b7e4b9c07e7c99 (patch) | |
tree | a7e76c45e6bea53f2322ccbdf47383131ab627d7 /tests/r_qtl/test_r_qtl2_gmap.py | |
parent | 3e51fb24fd34bab2164a5f4056bc78d21827ca29 (diff) | |
download | gn-uploader-0f1dda20ea48f0fa411ff63f86b7e4b9c07e7c99.tar.gz |
Rename test module.
Diffstat (limited to 'tests/r_qtl/test_r_qtl2_gmap.py')
-rw-r--r-- | tests/r_qtl/test_r_qtl2_gmap.py | 48 |
1 files changed, 0 insertions, 48 deletions
diff --git a/tests/r_qtl/test_r_qtl2_gmap.py b/tests/r_qtl/test_r_qtl2_gmap.py deleted file mode 100644 index 5c8ca6a..0000000 --- a/tests/r_qtl/test_r_qtl2_gmap.py +++ /dev/null @@ -1,48 +0,0 @@ -"""Test the parsing of the R/qtl2 gmap files.""" -from pathlib import Path - -import pytest -from zipfile import ZipFile - -from r_qtl import r_qtl2 as rqtl2 - -@pytest.mark.unit_test -@pytest.mark.parametrize( - "relpath,mapfiletype,expected", - (("tests/r_qtl/test_files/test_gmap.zip", - "gmap", - ({"marker": "PVV4", "chr": "1", "pos": "0.000000"}, - {"marker": "AXR-1", "chr": "1", "pos": "6.250674"}, - {"marker": "HH.335C-Col/PhyA", "chr": "1", "pos": "9.303868"}, - {"marker": "EC.480C", "chr": "1", "pos": "12.577629"}, - {"marker": "EC.66C", "chr": "1", "pos": "18.392830"})), - ("tests/r_qtl/test_files/test_gmap_transposed.zip", - "gmap", - ({"marker": "PVV4", "chr": "1", "pos": "0.000000"}, - {"marker": "AXR-1", "chr": "1", "pos": "6.250674"}, - {"marker": "HH.335C-Col/PhyA", "chr": "1", "pos": "9.303868"}, - {"marker": "EC.480C", "chr": "1", "pos": "12.577629"}, - {"marker": "EC.66C", "chr": "1", "pos": "18.392830"})), - ("tests/r_qtl/test_files/test_pmap.zip", - "pmap", - ({"marker": "D1Mit18", "chr": "1", "pos": "52.418656"}, - {"marker": "D1Mit80", "chr": "1", "pos": "86.377953"}, - {"marker": "D1Mit17", "chr": "1", "pos": "189.571337"}, - {"marker": "D2Mit379", "chr": "2", "pos": "37.451062"}, - {"marker": "D2Mit75", "chr": "2", "pos": "80.584782"})), - ("tests/r_qtl/test_files/test_pmap_transposed.zip", - "pmap", - ({"marker": "D1Mit18", "chr": "1", "pos": "52.418656"}, - {"marker": "D1Mit80", "chr": "1", "pos": "86.377953"}, - {"marker": "D1Mit17", "chr": "1", "pos": "189.571337"}, - {"marker": "D2Mit379", "chr": "2", "pos": "37.451062"}, - {"marker": "D2Mit75", "chr": "2", "pos": "80.584782"})))) -def test_parse_map_files(relpath, mapfiletype, expected): - """ - GIVEN: A path to a zip file, `relpath` and the type of the map file, - WHEN: we parse the R/qtl2 map file, - THEN: ensure the parsed data is as expected. - """ - with ZipFile(Path(relpath).absolute(), "r") as zfile: - cdata = rqtl2.control_data(zfile) - assert tuple(rqtl2.file_data(zfile, mapfiletype, cdata)) == expected |