added v1.0 to print statement. prints NA->N for ref allele

zeeev · Oct 22, 2014 · 9d32c6e · 9d32c6e
1 parent a95b38a
commit 9d32c6e
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diff --git a/src/bin/multi-wham-testing.cpp b/src/bin/multi-wham-testing.cpp
@@ -232,7 +232,7 @@ string join(vector<string> strings){
 }
 
 void printVersion(void){
-  cerr << "Version 0.0.1 ; Zev Kronenberg; [email protected] " << endl;
+  cerr << "Version 1.0.0 ; Zev Kronenberg; [email protected] " << endl;
   cerr << "Github version: " << VERSION << endl;
   cerr << endl;
 }
@@ -1177,7 +1177,7 @@ bool score(string seqid,
   tmpOutput  << seqid           << "\t"  ;       // CHROM
   tmpOutput  << (*pos)          << "\t"  ;       // POS
   tmpOutput  << "."             << "\t"  ;       // ID
-  tmpOutput  << "NA"             << "\t" ;       // REF
+  tmpOutput  << "N"             << "\t" ;       // REF
   tmpOutput  << altSeq          << "\t"  ;       // ALT
   tmpOutput  << "."             << "\t"  ;       // QUAL
   tmpOutput  << "."             << "\t"  ;       // FILTER

diff --git a/src/lib/readPileUp.cpp b/src/lib/readPileUp.cpp
@@ -61,7 +61,6 @@ void readPileUp::purgePast(void){
 
 std::list<BamAlignment> readPileUp::pileup(void){
   readPileUp::purgePast();
-  //  BamTools::BamAlignment last_read_in_pile =  currentData.back();
   return currentData;
 }