Updated test cases

egeza · Apr 13, 2017 · 7619521 · 7619521
1 parent cf12603
commit 7619521
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/src/main/java/org/snpeff/SnpEff.java b/src/main/java/org/snpeff/SnpEff.java
@@ -92,7 +92,7 @@ public enum OutputFormat {
 
 	// Version info
 	public static final String SOFTWARE_NAME = "SnpEff";
-	public static final String REVISION = "k";
+	public static final String REVISION = "l";
 	public static final String BUILD = Gpr.compileTimeStamp(SnpEff.class);
 	public static final String BUILD_DATE = Gpr.compileDate(SnpEff.class);
 	public static final String VERSION_MAJOR = "4.3";
@@ -446,7 +446,7 @@ protected void loadConfig() {
 			if (verbose) //
 				Timer.showStdErr("Reading configuration file '" + configFile + "'" //
 						+ ((genomeVer != null) && (!genomeVer.isEmpty()) ? ". Genome: '" + genomeVer + "'" : "") //
-			);
+				);
 
 			config = new Config(genomeVer, configFile, dataDir, configOverride, verbose); // Read configuration
 			if (verbose) Timer.showStdErr("done");
@@ -914,7 +914,7 @@ public void parseArgs(String[] args) {
 				|| args[0].equalsIgnoreCase("show") //
 				|| args[0].equalsIgnoreCase("test") //
 				|| args[0].equalsIgnoreCase("translocreport") //
-		// Obsolete stuff (from T2D projects)
+				// Obsolete stuff (from T2D projects)
 				|| args[0].equalsIgnoreCase("acat") //
 				|| args[0].equalsIgnoreCase("spliceAnalysis") //
 		) {

diff --git a/src/main/java/org/snpeff/snpEffect/testCases/integration/TestCasesIntegrationHgvsMnps.java b/src/main/java/org/snpeff/snpEffect/testCases/integration/TestCasesIntegrationHgvsMnps.java
@@ -26,7 +26,7 @@ public TestCasesIntegrationHgvsMnps() {
 	public void test_01() {
 		Gpr.debug("Test");
 		String genome = "testHg19Chr17";
-		String vcf = "tests/hgvs_mnps.vcf";
+		String vcf = "tests/hgvs_mnps_01.vcf";
 		compareHgvs(genome, vcf, false);
 	}
 

diff --git a/test_04_TestCasesEff.csv b/test_04_TestCasesEff.csv
@@ -3,8 +3,8 @@
 
 Name , Value
 Genome , testHg3770Chr22 
-Date , 2017-03-29 17:05
-SnpEff_version , SnpEff 4.3k (build 2017-03-29 13:07), by Pablo Cingolani
+Date , 2017-04-13 11:59
+SnpEff_version , SnpEff 4.3l (build 2017-04-13 11:14), by Pablo Cingolani
 Command_line_arguments , SnpEff  -csvStats test_04_TestCasesEff.csv testHg3770Chr22 tests/eff_sort.vcf 
 Warnings , 1185 
 Number_of_lines_in_input_file, 1205