MANTA-185 remove transloc calls with neg pos

Illumina · Jul 29, 2014 · 9664b9b · 9664b9b
1 parent eaed4d7
commit 9664b9b
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diff --git a/ChangeLog.txt b/ChangeLog.txt
@@ -1,3 +1,5 @@
+v0.20.2
+- MANTA-185 remove transloc calls with neg position (from circular genome)
 v0.20.1
 - Lower default min candidate size to 8
 v0.20.0

diff --git a/src/c++/lib/format/VcfWriterSV.cpp b/src/c++/lib/format/VcfWriterSV.cpp
@@ -313,6 +313,9 @@ writeTransloc(
         }
     }
 
+    // TODO: improve circular genome handler:
+    if ((pos<1) || (matePos<1)) return;
+
     // get ID
     const std::string& localId(isFirstBreakend ? svId.localId : svId.mateId);
     const std::string& mateId(isFirstBreakend ? svId.mateId : svId.localId);