X-Git-Url: https://git.donarmstrong.com/?p=mothur.git;a=blobdiff_plain;f=aligncommand.h;h=4e1b8d39f81dc067c60575d1938a21fd1de8dee0;hp=e5e9601781fdff5e35125b49de6ba452e180f9a2;hb=c48d91112209b841444923670dca5454da0e2a4d;hpb=2cfb747aa8f63bde9c1114001e6d2e81ccd26178

diff --git a/aligncommand.h b/aligncommand.h
index e5e9601..4e1b8d3 100644
--- a/aligncommand.h
+++ b/aligncommand.h
@@ -245,11 +245,11 @@ static DWORD WINAPI MyAlignThreadFunction(LPVOID lpParam){
 			delete candidateSeq;
 			
 			//report progress
-			if((pDataArray->count) % 100 == 0){	pDataArray->m->mothurOut(toString(pDataArray->count)); pDataArray->m->mothurOutEndLine();		}
+			if((pDataArray->count) % 100 == 0){	pDataArray->m->mothurOutJustToScreen(toString(pDataArray->count)+"\n"); 	}
 			
 		}
 		//report progress
-		if((pDataArray->count) % 100 != 0){	pDataArray->m->mothurOut(toString(pDataArray->count)); pDataArray->m->mothurOutEndLine();		}
+		if((pDataArray->count) % 100 != 0){	pDataArray->m->mothurOutJustToScreen(toString(pDataArray->count)+"\n");		}
 		
 		delete alignment;
 		delete templateDB;