sffinfo bug with flow grams right index when clipQualRight=0

[mothur.git] / parsimonycommand.h

diff --git a/parsimonycommand.h b/parsimonycommand.h
index 38a7505125e52b39ad37f36df592dfc9cac3b54c..7f7ad893b74140087248edfd7deb7b8c3441e671 100644 (file)
--- a/parsimonycommand.h
+++ b/parsimonycommand.h
@@ -28,8 +28,9 @@ public:
        vector<string> setParameters();
        string getCommandName()                 { return "parsimony";                           }
        string getCommandCategory()             { return "Hypothesis Testing";          }
-       string getOutputFileNameTag(string, string);
+       
        string getHelpString(); 
+    string getOutputPattern(string);   
        string getCitation() { return "Slatkin M, Maddison WP (1989). A cladistic measure of gene flow inferred from the phylogenies of alleles. Genetics 123: 603-13. \nSlatkin M, Maddison WP (1990). Detecting isolation by distance using phylogenies of genes. Genetics 126: 249-60. \nMartin AP (2002). Phylogenetic approaches for describing and comparing the diversity of microbial communities. Appl Environ Microbiol 68: 3673-82. \nSchloss PD, Handelsman J (2006). Introducing TreeClimber, a test to compare microbial community structure. Appl Environ Microbiol 72: 2379-84.\nhttp://www.mothur.org/wiki/Parsimony"; }
        string getDescription()         { return "generic test that describes whether two or more communities have the same structure"; }