added some features to trim.seqs

[mothur.git] / validparameter.cpp

diff --git a/validparameter.cpp b/validparameter.cpp
index bd1698468116f39ec112e075e8001c47a7ef3199..ae5fc3ff8590d0f9291aec0618dfd08d3d989605 100644 (file)
--- a/validparameter.cpp
+++ b/validparameter.cpp
@@ -285,7 +285,7 @@ void ValidParameters::initCommandParameters() {
                string reverseseqsArray[] =  {"fasta"};
                commandParameters["reverse.seqs"] = addParameters(reverseseqsArray, sizeof(reverseseqsArray)/sizeof(string));
 
-               string trimseqsArray[] =  {"fasta", "flip", "oligos", "forward", "reverse", "barcode"};
+               string trimseqsArray[] =  {"fasta", "flip", "oligos", "maxambig", "maxhomop", "minlength", "maxlength"};
                commandParameters["trim.seqs"] = addParameters(trimseqsArray, sizeof(trimseqsArray)/sizeof(string));
 
                string vennArray[] =  {"groups","line","label","calc"};
@@ -309,7 +309,7 @@ void ValidParameters::initCommandParameters() {
                string concensusArray[] =  {};
                commandParameters["concensus"] = addParameters(concensusArray, sizeof(concensusArray)/sizeof(string));
                
-               string distanceArray[] =  {"fasta", "calc", "countends", "cutoff", "processors"};
+               string distanceArray[] =  {"fasta", "phylip", "calc", "countends", "cutoff", "processors"};
                commandParameters["dist.seqs"] = addParameters(distanceArray, sizeof(distanceArray)/sizeof(string));
                
                string AlignArray[] =  {"fasta", "candidate", "search", "ksize", "align", "match", "mismatch", "gapopen", "gapextend"};