X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=secondarystructurecommand.h;fp=secondarystructurecommand.h;h=becafc5bb3f29073d0e72859e495f0364c351dfb;hb=ea4f373c28543cd1002b0dd7dc6e55c526647d59;hp=110f019f3beeafdd2a877c423b250232a488e62c;hpb=159fd324dfecacb6617669246d85c787ae67f630;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;