X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=trimseqscommand.cpp;h=dd5bf3460debcc3e2fd5b6af736b0e123c7890ae;hb=5334a314651228c55fd0f206dec0209bc3148b24;hp=7f82366331830baf3ca6640b2af83073662ec9f6;hpb=03acfa01ede71b107817966fcf27cd728038b3c9;p=mothur.git

diff --git a/trimseqscommand.cpp b/trimseqscommand.cpp
index 7f82366..dd5bf34 100644
--- 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();