Version 1.0.22

Bugfix: for lineare peptide that where read in from csv it was not checked if the sequence also states the preceding and succeeding amino acids
lutzfischer · Dec 12, 2017 · 961497f · 961497f
1 parent 5848057
commit 961497f
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Showing 2 changed files with 5 additions and 1 deletion.
diff --git a/pom.xml b/pom.xml
@@ -3,7 +3,7 @@
     <modelVersion>4.0.0</modelVersion>
     <groupId>org.rappsilberlab</groupId>
     <artifactId>xiFDR</artifactId>
-    <version>1.0.21</version>
+    <version>1.0.22</version>
     <packaging>jar</packaging>
     <dependencies>
         <dependency>

diff --git a/src/main/java/org/rappsilber/fdr/CSVinFDR.java b/src/main/java/org/rappsilber/fdr/CSVinFDR.java
@@ -188,6 +188,10 @@ public void readCSV(CsvParser csv, CsvCondition filter) throws FileNotFoundExcep
             // last aminoacid are leading and trailing aminoacids and not really part of the peptide
             Matcher m1=hasTerminalAminoAcids.matcher(pepSeq1);
             Matcher m2=hasTerminalAminoAcids.matcher(pepSeq2);
+            if ((pepSeq2 == null || pepSeq2.isEmpty()) && m1.matches()) {
+                pepSeq1 = m1.replaceAll("$1");
+            }
+
             if (m1.matches() && m2.matches()) {
                 pepSeq1 = m1.replaceAll("$1");
                 pepSeq2 = m2.replaceAll("$1");