tests for finaletoolkit gap-bed

tests/test_gaps.py

@@ -0,0 +1,65 @@
+"""
+Tests for finaletoolkit.genome.gaps
+"""
+
+import os
+
+import pytest
+
+from finaletoolkit.genome.gaps import *
+
+class TestGapBedCLI:
+    def test_hg19(self, tmp_path):
+        dest = tmp_path / 'hg19.gaps.bed'
+
+        exit_status = os.system(f'finaletoolkit gap-bed hg19 {dest}')
+        assert exit_status == 0
+
+        file_exists = os.path.isfile(dest)
+        assert file_exists
+
+
+    def test_b37(self, tmp_path):
+        dest = tmp_path / 'b37.gaps.bed'
+
+        exit_status = os.system(f'finaletoolkit gap-bed b37 {dest}')
+        assert exit_status == 0
+
+        file_exists = os.path.isfile(dest)
+        assert file_exists
+
+
+    def test_human_g1k_v37(self, tmp_path):
+        dest = tmp_path / 'human_g1k_v37.gaps.bed'
+
+        exit_status = os.system(f'finaletoolkit gap-bed human_g1k_v37 {dest}')
+        assert exit_status == 0
+
+        file_exists = os.path.isfile(dest)
+        assert file_exists
+
+
+    def test_hg38(self, tmp_path):
+        dest = tmp_path / 'hg38.gaps.bed'
+
+        exit_status = os.system(f'finaletoolkit gap-bed hg38 {dest}')
+        assert exit_status == 0
+
+        file_exists = os.path.isfile(dest)
+        assert file_exists
+
+
+    def test_GRCh38(self, tmp_path):
+        dest = tmp_path / 'GRCh38.gaps.bed'
+
+        exit_status = os.system(f'finaletoolkit gap-bed GRCh38 {dest}')
+        assert exit_status == 0
+
+        file_exists = os.path.isfile(dest)
+        assert file_exists
+
+class TestGapBed:
+    pass
+
+class TestGenomeGaps:
+    pass