Allowed for a subset of reference sequences to be declared in an input SAM/BAM file...

[rsem.git] / parseIt.cpp

diff --git a/parseIt.cpp b/parseIt.cpp
index 3373ef280979428230b74d77439d61bff3a96d47..91a4c141da95323dc58b5a8b45e47cb543fa0a75 100644 (file)
--- a/parseIt.cpp
+++ b/parseIt.cpp
@@ -52,7 +52,7 @@ void init(const char* imdName, char alignFType, const char* alignF) {
 
        char* aux = 0;
        if (strcmp(fn_list, "")) aux = fn_list;
-       parser = new SamParser(alignFType, alignF, transcripts, aux);
+       parser = new SamParser(alignFType, alignF, aux, transcripts, imdName);
 
        memset(cat, 0, sizeof(cat));
        memset(readOutFs, 0, sizeof(readOutFs));