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brentp · Mar 9, 2018 · b4cdcf5 · b4cdcf5
1 parent d34f863
commit b4cdcf5
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Showing 3 changed files with 4 additions and 2 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -1,8 +1,6 @@
 FROM ubuntu:16.04
 
-
 COPY docker-build.sh .
-COPY lumpy-smoother .
 COPY smoove .
 
 RUN bash docker-build.sh

diff --git a/lumpy/depthfilter.go b/lumpy/depthfilter.go
@@ -73,6 +73,7 @@ func interOrDistant(r *sam.Record) bool {
 // 2. splitters where both end ops are soft-clips. e.g. discard 20S106M34S, but keep 87S123M
 // 3. an interchromosomal where > 35% of the read is soft-clipped must have a splitter that goes to the same location as the other end.
 // 4. an interchromosomal with NM tag and NM > 3 is skipped.
+// 5. any read where both ends are soft clips of > 5 bases are skipped.
 // NOTE: "interchromosomal" here includes same chrom with end > 10MB away.
 func sketchyInterchromosomalOrSplit(r *sam.Record) bool {
  if interOrDistant(r) {

diff --git a/smoove.go b/smoove.go
@@ -0,0 +1,3 @@
+package smoove
+
+const Version = "0.1.1"