added count file to get.groups and remove.groups. added shortcut parameter to classif...

[mothur.git] / getgroupscommand.h

diff --git a/getgroupscommand.h b/getgroupscommand.h
index 80230b49b9872ab4633dbd2d4120826b3cc1ee82..6bb608833a418f2c0854c2b8bf0ac9c16a66f790 100644 (file)
--- a/getgroupscommand.h
+++ b/getgroupscommand.h
@@ -40,7 +40,7 @@ private:
        map<string, string> uniqueToRedundant; //if a namefile is given and the first column name is not selected
                                                                                   //then the other files need to change the unique name in their file to match.
                                                                                   //only add the names that need to be changed to keep the map search quick
-       string accnosfile, fastafile, namefile, groupfile, listfile, designfile, taxfile, outputDir, groups, sharedfile;
+       string accnosfile, countfile, fastafile, namefile, groupfile, listfile, designfile, taxfile, outputDir, groups, sharedfile;
        bool abort;
        vector<string> outputNames, Groups;
        GroupMap* groupMap;
@@ -48,6 +48,7 @@ private:
        int readFasta();
        int readName();
        int readGroup();
+    int readCount();
        int readList();
        int readTax();
        int fillNames();