add tests

griffithlab · Mar 26, 2019 · 53612c0 · 53612c0
1 parent 73a511e
commit 53612c0
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diff --git a/tests/integration-test/test_junctions_extract.py b/tests/integration-test/test_junctions_extract.py
@@ -90,6 +90,18 @@ def test_no_bam(self):
         rv, err = self.execute(params)
         self.assertEqual(rv, 1)
 
+    def test_missing_bam(self):
+        output_file = self.tempFile("extract.out")
+        params = ["junctions", "extract", "-s 0", "-o", output_file, "does_not_exist.bam"]
+        rv, err = self.execute(params)
+        self.assertEqual(rv, 1)
+
+    def test_no_strandness(self):
+        output_file = self.tempFile("extract.out")
+        params = ["junctions", "extract", "-o", output_file]
+        rv, err = self.execute(params)
+        self.assertEqual(rv, 1)
+
     def test_help(self):
         output_file = self.tempFile("extract.out")
         params = ["junctions", "extract", "-h"]

diff --git a/tests/lib/cis-splice-effects/test_cis_splice_effects_identifier.cc b/tests/lib/cis-splice-effects/test_cis_splice_effects_identifier.cc
@@ -62,6 +62,17 @@ TEST_F(CisSpliceEffectsIdentifierTest, ParseInput3) {
     EXPECT_THROW(csei1.parse_options(argc, argv), common::cmdline_help_exception);
 }
 
+//Check for missing files
+TEST_F(CisSpliceEffectsIdentifierTest, ParseInput5) {
+    int argc = 5;
+    char * argv[] = {"identify",
+                     "test_does_not_exist.vcf",
+                     "test.fa",
+                     "test.gtf",
+                     "test.bam"};
+    EXPECT_THROW(csei1.parse_options(argc, argv), std::runtime_error);
+}
+
 //Test if constructor works as expected.
 TEST_F(CisSpliceEffectsIdentifierTest, ConstructorTest) {
     EXPECT_EQ(csei1.vcf(), "NA");