added fastq to list.seqs, get.seqs and remove.seqs. fixed bug where venn command...

[mothur.git] / mothurout.h

diff --git a/mothurout.h b/mothurout.h
index 9987374e6c824cafe4aaf343c319d5bca14f209b..db931b5a5e380169c3147ee8b0c9acb4d72f1a00 100644 (file)
--- a/mothurout.h
+++ b/mothurout.h
@@ -97,7 +97,9 @@ class MothurOut {
                int openOutputFileAppend(string, ofstream&);
         int openOutputFileBinaryAppend(string, ofstream&);
                int openInputFile(string, ifstream&);
-               int openInputFile(string, ifstream&, string); //no error given 
+               int openInputFile(string, ifstream&, string); //no error given
+    
+        bool checkLocations(string&, string);  //filename, inputDir. checks for file in ./, inputdir, default and mothur's exe location.  Returns false if cant be found. If found completes name with location
                string getline(ifstream&);
                string getline(istringstream&);
                void gobble(istream&);
@@ -138,6 +140,8 @@ class MothurOut {
                bool isTrue(string);
                bool isContainingOnlyDigits(string);
                bool isNumeric1(string);
+        bool isLabelEquivalent(string, string);
+        string getSimpleLabel(string);
         string findEdianness();