fixed bug in unifrac commands with unrooted trees

[mothur.git] / trimseqscommand.cpp

diff --git a/trimseqscommand.cpp b/trimseqscommand.cpp
index 7f82366331830baf3ca6640b2af83073662ec9f6..dd5bf3460debcc3e2fd5b6af736b0e123c7890ae 100644 (file)
--- a/trimseqscommand.cpp
+++ b/trimseqscommand.cpp
@@ -349,7 +349,7 @@ int TrimSeqsCommand::execute(){
                                        createProcessesCreateTrim(fastaFile, qFileName, trimSeqFile, scrapSeqFile, trimQualFile, scrapQualFile, outputGroupFileName, fastaFileNames, qualFileNames); 
                                }       
                #else
-                               driverCreateTrim(fastaFile, qFileName, trimSeqFile, scrapSeqFile, trimQualFile, scrapQualFile, outputGroupFile, fastaFileNames, qualFileNames, lines[0], qLines[0]);
+                               driverCreateTrim(fastaFile, qFileName, trimSeqFile, scrapSeqFile, trimQualFile, scrapQualFile, outputGroupFileName, fastaFileNames, qualFileNames, lines[0], qLines[0]);
                #endif
                
                if (m->control_pressed) {  return 0; }                  
@@ -460,7 +460,7 @@ int TrimSeqsCommand::driverCreateTrim(string filename, string qFileName, string
 
                        QualityScores currQual;
                        if(qFileName != ""){
-                               currQual = QualityScores(qFile, currSeq.getNumBases());  m->gobble(qFile);
+                               currQual = QualityScores(qFile);  m->gobble(qFile);
                        }
 
                        string origSeq = currSeq.getUnaligned();