Merge pull request #564 from pcingola/wgs_annotate

WGS Fast memory data-frame based annotations
pcingola · Sep 28, 2024 · 6e54996 · 6e54996
2 parents 17cc55e + c365def
commit 6e54996
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Showing 3 changed files with 8 additions and 3 deletions.
diff --git a/src/main/java/org/snpeff/SnpEff.java b/src/main/java/org/snpeff/SnpEff.java
@@ -94,7 +94,7 @@ public enum OutputFormat {
 
 	// Version info
 	public static final String SOFTWARE_NAME = "SnpEff";
-	public static final String REVISION = "d";
+	public static final String REVISION = "e";
 	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 = "5.2";

diff --git a/src/main/java/org/snpeff/vcf/VcfHeaderInfo.java b/src/main/java/org/snpeff/vcf/VcfHeaderInfo.java
@@ -153,6 +153,11 @@ public int getNumber() {
 		return number;
 	}
 
+	public String getNumberString() {
+		if(number > 0) return Integer.toString(number);
+		return vcfInfoNumber.toString();
+	}
+
 	public VcfInfoNumber getVcfInfoNumber() {
 		return vcfInfoNumber;
 	}

diff --git a/test_04_TestCasesEff.csv b/test_04_TestCasesEff.csv
@@ -3,8 +3,8 @@
 
 Name , Value
 Genome , testHg3770Chr22 
-Date , 2024-09-22 16:14
-SnpEff_version , SnpEff 5.2c (build 2024-09-21 11:42), by Pablo Cingolani
+Date , 2024-09-28 06:44
+SnpEff_version , SnpEff 5.2d (build 2024-09-28 06:37), by Pablo Cingolani
 Command_line_arguments , SnpEff  -csvStats test_04_TestCasesEff.csv testHg3770Chr22 tests/integration/eff/eff_sort.vcf 
 Warnings , 1096 
 Number_of_lines_in_input_file, 1205