added more tests for indexing

4dn-dcic · Apr 10, 2017 · 6c06e97 · 6c06e97
1 parent 290d2b5
commit 6c06e97
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Showing 4 changed files with 9 additions and 1 deletion.
diff --git a/samples/SRR1171591.variants.snp.vqsr.p.vcf.gz.px2 b/samples/SRR1171591.variants.snp.vqsr.p.vcf.gz.px2
diff --git a/samples/merged_nodup.tab.chrblock_sorted.txt.gz.px2 b/samples/merged_nodup.tab.chrblock_sorted.txt.gz.px2
diff --git a/samples/merged_nodups.space.chrblock_sorted.subsample1.txt.gz.px2 b/samples/merged_nodups.space.chrblock_sorted.subsample1.txt.gz.px2
diff --git a/test/test.py b/test/test.py
@@ -371,14 +371,22 @@ def test_build_index_without_force(self):
             pypairix.build_index(TEST_FILE_2D_4DN)
         self.assertEqual(error.exception.message, "The index file exists. Please use force=1 to overwrite.")
 
-    def test_build_index_with_force(self):
+    def test_build_index_with_force(self):   ## recognizing file extension pairs.gz
         pypairix.build_index(TEST_FILE_2D_4DN, force=1)
         pr = pypairix.open(TEST_FILE_2D_4DN)
         query = '{}:{}-{}|{}:{}-{}'.format(self.chrom, self.start, self.end, self.chrom2, self.start2, self.end2)
         it = pr.querys2D(query)
         pr_result = build_it_result(it, self.f_type)
         self.assertEqual(self.result, pr_result)
 
+    def test_build_index_with_force_merged_nodups(self):  ## recognizing preset merged_nodups
+        pypairix.build_index(TEST_FILE_2D_SPACE, "merged_nodups", force=1)
+
+    def test_build_index_with_force_merged_nodups_tab(self):  ## recognizing custom set
+        pypairix.build_index(TEST_FILE_2D, sc=2, bc=3, ec=3, sc2=6, bc2=7, ec2=7, force=1)
+
+    def test_build_index_with_force_vcf(self):  ## recognizing file extension vcf.gz
+        pypairix.build_index(TEST_FILE_1D, force=1)
 
 
 if __name__ == '__main__':