add filter_variants_multiple test

PMBio · May 22, 2024 · 065e7e0 · 065e7e0
1 parent 3c07abc
commit 065e7e0
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diff --git a/...rocessing/test_data/process_sparse_gt/filter_variants_multiple/expected/expected_data.npz b/...rocessing/test_data/process_sparse_gt/filter_variants_multiple/expected/expected_data.npz
diff --git a/...ocessing/test_data/process_sparse_gt/filter_variants_multiple/input/qc/input_c1_b1.tsv.gz b/...ocessing/test_data/process_sparse_gt/filter_variants_multiple/input/qc/input_c1_b1.tsv.gz
diff --git a/...ocessing/test_data/process_sparse_gt/filter_variants_multiple/input/qc/input_c1_b2.tsv.gz b/...ocessing/test_data/process_sparse_gt/filter_variants_multiple/input/qc/input_c1_b2.tsv.gz
diff --git a/.../preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/samples_chr.csv b/.../preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/samples_chr.csv
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diff --git a/...t_data/process_sparse_gt/filter_variants_multiple/input/sparse_gt/chr1/input_c1_b1.tsv.gz b/...t_data/process_sparse_gt/filter_variants_multiple/input/sparse_gt/chr1/input_c1_b1.tsv.gz
diff --git a/...preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/variants.parquet b/...preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/variants.parquet
diff --git a/.../preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/variants.tsv.gz b/.../preprocessing/test_data/process_sparse_gt/filter_variants_multiple/input/variants.tsv.gz
diff --git a/tests/preprocessing/test_preprocess.py b/tests/preprocessing/test_preprocess.py
@@ -51,6 +51,16 @@ def load_h5_archive(h5_path):
             ],
             "genotypes_chr1.h5",
         ),
+        (
+            "filter_variants_multiple",
+            [
+                "--chromosomes",
+                "1",
+                "--exclude-variants",
+                f"{(tests_data_dir / 'process_sparse_gt/filter_variants_minimal/input/qc').as_posix()}",
+            ],
+            "genotypes_chr1.h5",
+        ),
         (
             "filter_samples_minimal",
             [
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