X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=secondarystructurecommand.h;h=becafc5bb3f29073d0e72859e495f0364c351dfb;hb=e8e13c129ba8184ec5932a090773f353f3ae3406;hp=110f019f3beeafdd2a877c423b250232a488e62c;hpb=49d2b7459c5027557564b21e9487dadafbbbdc96;p=mothur.git

diff --git a/secondarystructurecommand.h b/secondarystructurecommand.h
index 110f019..becafc5 100644
--- a/secondarystructurecommand.h
+++ b/secondarystructurecommand.h
@@ -50,7 +50,7 @@ class AlignCheckCommand : public Command {
 	
 	private:
 		vector<int> structMap;
-		string mapfile, fastafile, outputDir, namefile;
+		string mapfile, fastafile, outputDir, namefile, countfile;
 		bool abort;
 		int seqLength, haderror;
 		vector<string> outputNames;